CuGenDBv2

Gene ID	CmaCh04G019580
Organism	Cucurbita maxima Rimu (Cucurbita maxima (Rimu) v1.1)
Description	DNA-directed RNA polymerase subunit beta
Genome location	Cma_Chr04:10968829..10971110
RNA-Seq Expression	CmaCh04G019580
Synteny	CmaCh04G019580
Gene Ontology terms	GO:0006351 - transcription, DNA-templated (biological process) GO:0110165 - cellular anatomical structure (cellular component) GO:0003677 - DNA binding (molecular function) GO:0003899 - DNA-directed 5'-3' RNA polymerase activity (molecular function) GO:0032549 - ribonucleoside binding (molecular function)
InterPro domains	IPR007120 - DNA-directed RNA polymerase, subunit 2, hybrid-binding domain IPR015712 - DNA-directed RNA polymerase, subunit 2 IPR037033 - DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily

Homology

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GenBank top hits

e value

%identity

Alignment

KAF9825357.1 hypothetical protein H0E87_005079 [Populus deltoides]

5.8e-27

37.31

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Query:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------
        ++GGSS NP++I       REIKVGDKVAGRHGN+GI+S+++PREDM YLQ                                                 
Subjt:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------

Query:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEE-----
                                                                        K + RS GHY LVTQQPL GR+KQG    E+     
Subjt:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEE-----

Query:  ---------MERCLLINLIILELGKKYLVLRSLEEEYLNLRILQNLFNSSFENYDLWLWN
                  +RCLLINLIILELGKKYLVLRSLEE+YLN RILQNLF+ SFENYDLWLWN
Subjt:  ---------MERCLLINLIILELGKKYLVLRSLEEEYLNLRILQNLFNSSFENYDLWLWN

MQM19122.1 hypothetical protein [Colocasia esculenta]

1.8e-20

33.85

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Query:  GGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ---------------------------------------------------
        GGS+ +P+MI       REIKVGDKVAGRHGN+GI+S+ +PR+DM YLQ                                                   
Subjt:  GGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ---------------------------------------------------

Query:  --------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEE-------
                                                                      K + RS GHY LVTQQPL G   +G    E+       
Subjt:  --------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEE-------

Query:  --MERCLLINLIILELGKKYLVLRSLEEEYLNLRILQNLFNSSFENYDLWLWNGIIS
           ++CLLINLIILEL +KYLV R LEE+YL L++LQNLF+  FENYDLWLWN IIS
Subjt:  --MERCLLINLIILELGKKYLVLRSLEEEYLNLRILQNLFNSSFENYDLWLWNGIIS

RQO99425.1 hypothetical protein POPTR_013G142232 [Populus trichocarpa]

6.9e-28

37.69

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Query:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------
        ++GGSS NP+ I       REIKVGDKVAGRHGN+GI+S+++PR+DM YLQ                                                 
Subjt:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------

Query:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEME---
                                                                        K + RS GHY LVTQQPL GRAKQG QRV EME   
Subjt:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEME---

Query:  -----------RCLLINLIILELGKKYLVLRSLEEEYLNLRILQNLFNSSFENYDLWLWN
                   RCLLINLIILEL KK LVLRS++E+YLNLR+LQNLF+ SFENYDLWLWN
Subjt:  -----------RCLLINLIILELGKKYLVLRSLEEEYLNLRILQNLFNSSFENYDLWLWN

YP_009584286.1 RNA polymerase beta' subunit-1 [Aconitum brachypodum]

3.1e-20

31.45

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Query:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------
        ++GGSS NP+ I       REIKVGDKVAGRHGN+GI+S+++PR+DM YLQ                                                 
Subjt:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------

Query:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCL
                                                                        K + RS GHY LVTQQPL GRAKQG QRV EME   
Subjt:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCL

Query:  LINLIILELGKKYLVLRS----LEEEYLNLRILQNLFNS---SFENYDLWLWNGIISLYLRITSRLRGRK---LNQNESDNL--PIAKNPTFVRSRGSFE
        L    +  + ++ L  +S      +E L   I+    ++   + E++ L L   + SL L +   L   K   +N+ E+ +   P+ K PTF+R RGSFE
Subjt:  LINLIILELGKKYLVLRS----LEEEYLNLRILQNLFNS---SFENYDLWLWNGIISLYLRITSRLRGRK---LNQNESDNL--PIAKNPTFVRSRGSFE

Query:  YEIQSGKYSIPLFVTTQG
        YEIQS KYSIPLF TTQG
Subjt:  YEIQSGKYSIPLFVTTQG

YP_010127486.1 RNA polymerase beta' subunit [Aconitum flavum]

3.1e-20

31.45

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Query:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------
        ++GGSS NP+ I       REIKVGDKVAGRHGN+GI+S+++PR+DM YLQ                                                 
Subjt:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------

Query:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCL
                                                                        K + RS GHY LVTQQPL GRAKQG QRV EME   
Subjt:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCL

Query:  LINLIILELGKKYLVLRS----LEEEYLNLRILQNLFNS---SFENYDLWLWNGIISLYLRITSRLRGRK---LNQNESDNL--PIAKNPTFVRSRGSFE
        L    +  + ++ L  +S      +E L   I+    ++   + E++ L L   + SL L +   L   K   +N+ E+ +   P+ K PTF+R RGSFE
Subjt:  LINLIILELGKKYLVLRS----LEEEYLNLRILQNLFNS---SFENYDLWLWNGIISLYLRITSRLRGRK---LNQNESDNL--PIAKNPTFVRSRGSFE

Query:  YEIQSGKYSIPLFVTTQG
        YEIQS KYSIPLF TTQG
Subjt:  YEIQSGKYSIPLFVTTQG

TrEMBL top hits

e value

%identity

Alignment

A0A3N7FZF8 DNA-directed RNA polymerase

3.3e-28

37.69

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Query:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------
        ++GGSS NP+ I       REIKVGDKVAGRHGN+GI+S+++PR+DM YLQ                                                 
Subjt:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------

Query:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEME---
                                                                        K + RS GHY LVTQQPL GRAKQG QRV EME   
Subjt:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEME---

Query:  -----------RCLLINLIILELGKKYLVLRSLEEEYLNLRILQNLFNSSFENYDLWLWN
                   RCLLINLIILEL KK LVLRS++E+YLNLR+LQNLF+ SFENYDLWLWN
Subjt:  -----------RCLLINLIILELGKKYLVLRSLEEEYLNLRILQNLFNSSFENYDLWLWN

A0A482AWY8 DNA-directed RNA polymerase subunit beta

1.5e-20

31.45

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Query:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------
        ++GGSS NP+ I       REIKVGDKVAGRHGN+GI+S+++PR+DM YLQ                                                 
Subjt:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------

Query:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCL
                                                                        K + RS GHY LVTQQPL GRAKQG QRV EME   
Subjt:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCL

Query:  LINLIILELGKKYLVLRS----LEEEYLNLRILQNLFNS---SFENYDLWLWNGIISLYLRITSRLRGRK---LNQNESDNL--PIAKNPTFVRSRGSFE
        L    +  + ++ L  +S      +E L   I+    ++   + E++ L L   + SL L +   L   K   +N+ E+ +   P+ K PTF+R RGSFE
Subjt:  LINLIILELGKKYLVLRS----LEEEYLNLRILQNLFNS---SFENYDLWLWNGIISLYLRITSRLRGRK---LNQNESDNL--PIAKNPTFVRSRGSFE

Query:  YEIQSGKYSIPLFVTTQG
        YEIQS KYSIPLF TTQG
Subjt:  YEIQSGKYSIPLFVTTQG

A0A7J6EJ59 Multifunctional fusion protein

4.1e-18

31.19

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Query:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------
        ++GGSS NP+ I       REIKVGDKVAGRHGN+GI+S+++PR+DM YLQ                                                 
Subjt:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------

Query:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCL
                                                                        K + R  GHY LVTQQPL GRAKQG QRV EME   
Subjt:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCL

Query:  LINLIILELGKKYLVLRS----LEEEYLNLRILQNLF---NSSFENYDLWLWNGIISLYLRITSRLRG-RKLNQ-------------NESDNLPIAKNPT
        L    +  + ++ L  +S      +E L   I+         + E++ L L   + SL L +   L   RKL++             N S   PIAK PT
Subjt:  LINLIILELGKKYLVLRS----LEEEYLNLRILQNLF---NSSFENYDLWLWNGIISLYLRITSRLRG-RKLNQ-------------NESDNLPIAKNPT

Query:  FVRSRGSFEYEIQSGKYSIPLFVTTQG
        F+R RGSFEYEIQS KYSIPLF TT G
Subjt:  FVRSRGSFEYEIQSGKYSIPLFVTTQG

A0A7T1WQB9 RNA polymerase beta' subunit

1.5e-20

31.45

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Query:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------
        ++GGSS NP+ I       REIKVGDKVAGRHGN+GI+S+++PR+DM YLQ                                                 
Subjt:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ-------------------------------------------------

Query:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCL
                                                                        K + RS GHY LVTQQPL GRAKQG QRV EME   
Subjt:  ----------------------------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCL

Query:  LINLIILELGKKYLVLRS----LEEEYLNLRILQNLFNS---SFENYDLWLWNGIISLYLRITSRLRGRK---LNQNESDNL--PIAKNPTFVRSRGSFE
        L    +  + ++ L  +S      +E L   I+    ++   + E++ L L   + SL L +   L   K   +N+ E+ +   P+ K PTF+R RGSFE
Subjt:  LINLIILELGKKYLVLRS----LEEEYLNLRILQNLFNS---SFENYDLWLWNGIISLYLRITSRLRGRK---LNQNESDNL--PIAKNPTFVRSRGSFE

Query:  YEIQSGKYSIPLFVTTQG
        YEIQS KYSIPLF TTQG
Subjt:  YEIQSGKYSIPLFVTTQG

A0A803N320 Uncharacterized protein

1.9e-23

36.44

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Query:  REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ--------------------------------------------------------------------
        REIKVGDKVAGRHGN+GI+S+++PR+DM YLQ                                                                    
Subjt:  REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ--------------------------------------------------------------------

Query:  ---------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEME---------RCLLINLIILELG
                                                     K +  S GHY LVTQQPL GRAKQG QRV EME         RCLLIN IIL+L 
Subjt:  ---------------------------------------------KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEME---------RCLLINLIILELG

Query:  KKYLVLRSLEEEYLNLRILQNLFNSSFENYDLWLWN
        +KYLVLRSL E+YL  ++LQNLF+ SFENYDLWLWN
Subjt:  KKYLVLRSLEEEYLNLRILQNLFNSSFENYDLWLWN

SwissProt top hits

e value

%identity

Alignment

A7Y3B9 DNA-directed RNA polymerase subunit beta

1.0e-10

64.71

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Query:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ
        ++GGSS NP+MI       REIKVGDKVAGRHGN+GI+S+++PR+DM YLQ
Subjt:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ

A7Y3B9 DNA-directed RNA polymerase subunit beta

5.0e-05

51.85

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Query:  KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCLLINLIILELGKKYLVLRS
        K + RS GHY LVTQQPL GRAKQG QRV EME   L    +  + ++ L  +S
Subjt:  KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCLLINLIILELGKKYLVLRS

P50546 DNA-directed RNA polymerase subunit beta

3.0e-10

62.75

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Query:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ
        ++GGSS NP++I       REIKVGDKVAGRHGN+GI+S+++PR+DM YLQ
Subjt:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ

P50546 DNA-directed RNA polymerase subunit beta

1.1e-04

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Query:  KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCLLINLIILELGKKYLVLRS
        K + RS GHY LVTQQPL GR+KQG QRV EME   L    +  + ++ L  +S
Subjt:  KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCLLINLIILELGKKYLVLRS

Q06H05 DNA-directed RNA polymerase subunit beta

2.3e-10

67.35

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Query:  GGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ
        GGSS NP+MI       REIKVGDKVAGRHGN+GI+S+++PR+DM YLQ
Subjt:  GGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ

Q06H05 DNA-directed RNA polymerase subunit beta

1.7e-05

51.85

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Query:  KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCLLINLIILELGKKYLVLRS
        K + RS GHY LVTQQPL GRAKQG QRV EME   L    +  + ++ L  +S
Subjt:  KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCLLINLIILELGKKYLVLRS

Q0G9M7 DNA-directed RNA polymerase subunit beta

1.0e-10

64.71

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Query:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ
        ++GGSS NP+MI       REIKVGDKVAGRHGN+GI+S+++PR+DM YLQ
Subjt:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ

Q0G9M7 DNA-directed RNA polymerase subunit beta

1.7e-05

51.85

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Query:  KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCLLINLIILELGKKYLVLRS
        K + RS GHY LVTQQPL GRAKQG QRV EME   L    +  + ++ L  +S
Subjt:  KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCLLINLIILELGKKYLVLRS

Q68S14 DNA-directed RNA polymerase subunit beta

1.4e-10

64.71

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Query:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ
        + GGSS NP+MI       REIKVGDKVAGRHGN+GI+S+++PR+DM YLQ
Subjt:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ

Q68S14 DNA-directed RNA polymerase subunit beta

5.0e-05

51.85

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Query:  KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCLLINLIILELGKKYLVLRS
        K + RS GHY LVTQQPL GRAKQG QRV EME   L    +  + ++ L  +S
Subjt:  KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCLLINLIILELGKKYLVLRS

Arabidopsis top hits

e value

%identity

Alignment

ATCG00180.1 DNA-directed RNA polymerase family protein

9.0e-10

82.35

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Query:  PIAKNPTFVRSRGSFEYEIQSGKYSIPLFVTTQG
        PI K PTF+R RGSFEYEIQS KYSIPLF TTQG
Subjt:  PIAKNPTFVRSRGSFEYEIQSGKYSIPLFVTTQG

ATCG00190.1 RNA polymerase subunit beta

2.1e-11

62.75

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Query:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ
        ++GGSS NP++I       REIKVGDKVAGRHGN+GI+S+++PR+DM YLQ
Subjt:  REGGSSENPDMI-------REIKVGDKVAGRHGNQGILSQMVPREDMSYLQ

ATCG00190.1 RNA polymerase subunit beta

7.9e-06

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Query:  KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCLLINLIILELGKKYLVLRS
        K + RS GHY LVTQQPL GR+KQG QRV EME   L    +  + ++ L  +S
Subjt:  KTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCLLINLIILELGKKYLVLRS

Sequences

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CDS sequence

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ATGGATCCAGAAATCAGGGAAGGGGGTTCGAGTGAGAATCCAGATATGATTCGTGAAATCAAAGTAGGCGATAAGGTAGCGGGAAGACATGGAAATCAAGGTATTCTTTC
ACAAATGGTGCCTAGAGAAGATATGTCTTATTTGCAGAAGACCAACGTTCGTTCCTGTGGACATTATGTACTTGTTACACAACAACCCCTTATAGGAAGGGCCAAGCAAG
GCAGACAACGGGTGGAAGAAATGGAGAGATGCTTACTTATCAATCTAATCATATTAGAGCTCGGCAAGAAGTACTTGGTACTACGATCATTGGAGGAAGAATACCTAAAC
CTGAGGATACTCCAAAATCTTTTCAATTCCTCGTTCGAGAATTACGATCTTTGGCTTTGGAACGGAATAATTTCCTTGTATCTGAGAATAACTTCTAGATTAAGAGGAAG
GAAGCTTAATCAAAATGAATCAGACAATTTGCCCATAGCTAAAAACCCTACTTTCGTACGATCACGGGGTTCATTCGAATATGAAATCCAATCCGGGAAATACAGCATCC
CACTTTTTGTGACTACCCAAGGCTTGCTTCGATACATTTCGAAATCAAGAAATTTCTACCGGAGCAGGTGCTATACGAGAACAATTAGTCGATCCGAATTTGCGACTTAT
TAG

mRNA sequence

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Protein sequence

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MDPEIREGGSSENPDMIREIKVGDKVAGRHGNQGILSQMVPREDMSYLQKTNVRSCGHYVLVTQQPLIGRAKQGRQRVEEMERCLLINLIILELGKKYLVLRSLEEEYLN
LRILQNLFNSSFENYDLWLWNGIISLYLRITSRLRGRKLNQNESDNLPIAKNPTFVRSRGSFEYEIQSGKYSIPLFVTTQGLLRYISKSRNFYRSRCYTRTISRSEFATY

CmaCh04G019580 (gene) of Cucurbita maxima (Rimu) v1.1 genome