Lsi04G001010 (gene) Bottle gourd (USVL1VR-Ls) v1

Overview
NameLsi04G001010
Typegene
OrganismLagenaria siceraria (Bottle gourd (USVL1VR-Ls) v1)
DescriptionPectate lyase
Locationchr04: 1150984 .. 1152418 (-)
RNA-Seq ExpressionLsi04G001010
SyntenyLsi04G001010
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
ATGGGTTTGCTTTTCTTTCTCTTCTTTGCAAATCCTCTATATGTGTGTGTAATTTCTCTTCATAATATTCTATTCCTTTTGCTTTCCAACCATATGGCCCTCCTCCCCTCCCCTTTATGATATAGGACAACTCAATTTAAGACAATGGAAGATGACCTATCCATTAAAAAGTAAATACTACTCATGACTTTTCTAATATATATATATATATATATATAGATTGTGTGTGGTGGACATATATGTTAAGTATCTTGCATCATACAGATGAAAAGATTTCGTAATCTTTATAAGATACATGAGTTACTGCTCTTATTGTCAATTGATTTTGAGATGAAACCACATGTGTGTGTACCTGATACCAGTATTAGAGCCCATGAAGTTCAAATGGGTATTTGGTTCGAAATCTAGATCGAATCCAAGGATTGTAAACTTAATGAGGTATTATCCCTTGAGGAAGCATGTCGAGGATCTCACATCGAAAAAATTGAAAATAATCTTTATAAAATAACATGAGTTACTCCTCTCAATGCTAATTAATTTTGAGATTGAACCTCATGTTTATAAAATAATAATATGAAAATTTAGAGTTGGAACAAGAAAGCAACTTTTTGATATATATATATATATATAAAAAATGAAGAGCACAAGTCATTCAAAATTTTGTGTCTATTAAATCCCAAAATTATAAATCTTAGGTCTTTAAACTTTCAATTTTGTATTTAATAAGTTTATGATATAATCAATATCTTTAAAAAAATTAATTGATAATCGATTTATTAGATATGAAATCAAATTCTATTTAAAAAAAGAGAGAGAGGTTGAATTTTGTGACTAAACGAACACCTTGAATACCCTAAAATTTCTAAAAAATGACAAATAAGTTAAGAACTCATTAAATACAAAATTAAAAAAAAAAATCTATTAGACACAAAATTGAAAGTCTAAAAGTCTAATAGATACTTCTAAAAGTTCAAAAACTTAACATAATATTAAAAAGTTAAAAATCAATCAATACTTTTTAAAGTTCATGAACGTTTTAGACAAATTGAAAGTTTATTGACCAAATAAATACAAACTCGAAATTGTAGAGACTAAACTTGTAATTTAACCAATTATATTTTTTTAAATCTTTTAAAATATTTAATTATTATTATTATTATTTTGCAGGTATAATGCTGGTCAAGGAATTGTATATCCAGGATTTAGCGGTGGGAATGGTGGGAATGGTGATGAGGGATATGGGGGTAATACTGTCATAAATAATAGTCCAATTTATGAAAATGGTGGTGGCAATGGTAATGATGACTACTACGGCATGATATTTAAAGCGGCTGGTTATAGTGTATTGCCGATATTGCCCTCCATAAACTTATGTACTCAAATTCTAATACTTTTGTACATAGTCACAAATTATAGTGGTCTATTCGCATTATAG

mRNA sequence

ATGGGATTTAGCGGTGGGAATGGTGGGAATGGTGATGAGGGATATGGGGGTAATACTGTCATAAATAATAGTCCAATTTATGAAAATGGTGGTGGCAATGGTAATGATGACTACTACGGCATGATATTTAAAGCGGCTGGTTATAGTGTATTGCCGATATTGCCCTCCATAAACTTATGTACTCAAATTCTAATACTTTTGTACATAGTCACAAATTATAGTGGTCTATTCGCATTATAG

Coding sequence (CDS)

ATGGGATTTAGCGGTGGGAATGGTGGGAATGGTGATGAGGGATATGGGGGTAATACTGTCATAAATAATAGTCCAATTTATGAAAATGGTGGTGGCAATGGTAATGATGACTACTACGGCATGATATTTAAAGCGGCTGGTTATAGTGTATTGCCGATATTGCCCTCCATAAACTTATGTACTCAAATTCTAATACTTTTGTACATAGTCACAAATTATAGTGGTCTATTCGCATTATAG

Protein sequence

MGFSGGNGGNGDEGYGGNTVINNSPIYENGGGNGNDDYYGMIFKAAGYSVLPILPSINLCTQILILLYIVTNYSGLFAL
Homology
[Close]
BLAST of Lsi04G001010 vs. ExPASy TrEMBL
Match: A0A1S3BGT0 (Pectate lyase OS=Cucumis melo OX=3656 GN=LOC103489433 PE=3 SV=1)

HSP 1 Score: 106.7 bits (265), Expect = 4.6e-20
Identity = 61/85 (71.76%), Postives = 68/85 (80.00%), Query Frame = 0 

Query: 2   GFSGGNGGNGDEGYGGNTVINNSPIYENGGG-----NGNDDYYGMIFKAAGYSVLPILPS 61
           GFSGGNGGNGDEGYGGNTVINNSPIYENGGG     NGNDDY+GMIFKA G  + PI  S
Sbjct: 427 GFSGGNGGNGDEGYGGNTVINNSPIYENGGGGNGNSNGNDDYFGMIFKANGNRIFPIFSS 486

Query: 62  IN-LCTQILI-LLYIVTNYSGLFAL 80
           +N LCT ++I L+YIV  YS LF+L
Sbjct: 487 VNYLCTLLIIFLMYIVAYYSALFSL 511

[Close]
BLAST of Lsi04G001010 vs. ExPASy TrEMBL
Match: A0A0A0KRG9 (Pectate lyase OS=Cucumis sativus OX=3659 GN=Csa_5G622520 PE=3 SV=1)

HSP 1 Score: 104.8 bits (260), Expect = 1.7e-19
Identity = 60/82 (73.17%), Postives = 66/82 (80.49%), Query Frame = 0 

Query: 2   GFSGGNGGNGDEGYGGNTVINNSPIYENGG-------GNGNDDYYGMIFKAAGYSVLPIL 61
           GFSGG+GGNGDEGYGGNTVINNSPIYENGG       GNGNDDY+GMIFKA G+   PI 
Sbjct: 428 GFSGGSGGNGDEGYGGNTVINNSPIYENGGGSGGYGNGNGNDDYFGMIFKANGHRTFPIF 487

Query: 62  PSIN-LCTQILI-LLYIVTNYS 75
            S+N LCT ++I LLYIVTNYS
Sbjct: 488 SSLNYLCTLLIIFLLYIVTNYS 509

[Close]
BLAST of Lsi04G001010 vs. ExPASy TrEMBL
Match: A0A6J1CBN1 (Pectate lyase OS=Momordica charantia OX=3673 GN=LOC111010036 PE=3 SV=1)

HSP 1 Score: 87.4 bits (215), Expect = 2.9e-14
Identity = 54/79 (68.35%), Postives = 59/79 (74.68%), Query Frame = 0 

Query: 2   GFSGGNGGNGDEGYGGNTVINNSPIYENGGGNGNDDYYGMIFKAAGYSVLPILP-SINLC 61
           GFSG N G+G   YGGNTVINNSPI  NGGG G DD+YGMIFKA GY V  + P SINL 
Sbjct: 426 GFSGNNDGSGIGEYGGNTVINNSPIGGNGGG-GEDDFYGMIFKAGGYRVSSLPPLSINLW 485

Query: 62  TQILILLYIVTNYSGLFAL 80
            QI+I+LYIV NY GLF L
Sbjct: 486 IQIVIILYIVMNYCGLFTL 503

[Close]
BLAST of Lsi04G001010 vs. ExPASy TrEMBL
Match: A0A6J1GWH9 (Pectate lyase OS=Cucurbita moschata OX=3662 GN=LOC111458162 PE=3 SV=1)

HSP 1 Score: 82.8 bits (203), Expect = 7.0e-13
Identity = 50/79 (63.29%), Postives = 59/79 (74.68%), Query Frame = 0 

Query: 2   GFSGGNGGNGDEGYGGNTVINNSPIYENGGGNGNDDYYGMIFKAAGYSVLPI-LPSINLC 61
           GF+G N G+GD G GGNT I+NSPIY NGGG+ ND+YYGM+FK  GY    +   S NLC
Sbjct: 460 GFNGSNHGDGD-GDGGNTAISNSPIYGNGGGS-NDEYYGMVFKGNGYRASSLSSSSTNLC 519

Query: 62  TQILILLYIVTNYSGLFAL 80
            QI+I+LYIVTNYSGL  L
Sbjct: 520 IQIIIVLYIVTNYSGLLTL 536

[Close]
BLAST of Lsi04G001010 vs. ExPASy TrEMBL
Match: A0A6J1ISI7 (Pectate lyase OS=Cucurbita maxima OX=3661 GN=LOC111478161 PE=3 SV=1)

HSP 1 Score: 80.1 bits (196), Expect = 4.6e-12
Identity = 50/83 (60.24%), Postives = 57/83 (68.67%), Query Frame = 0 

Query: 2   GFSGGNGGNG-----DEGYGGNTVINNSPIYENGGGNGNDDYYGMIFKAAGYSVLPILPS 61
           GF+G NG NG     D GYGGNT INN+PIY NGGGN +DDY+ MIFK  GY    +  S
Sbjct: 426 GFNGSNGSNGSDGDDDGGYGGNTAINNNPIYGNGGGN-DDDYHRMIFKGDGYRSSSLSWS 485

Query: 62  INLCTQILILLYIVTNYSGLFAL 80
            NL  QI+I+LYIV NYS LF L
Sbjct: 486 SNLYIQIIIILYIVKNYSTLFTL 507

[Close]
BLAST of Lsi04G001010 vs. NCBI nr
Match: XP_038893100.1 (probable pectate lyase 18 isoform X1 [Benincasa hispida] >XP_038893101.1 probable pectate lyase 18 isoform X1 [Benincasa hispida])

HSP 1 Score: 135.2 bits (339), Expect = 2.5e-28
Identity = 68/78 (87.18%), Postives = 73/78 (93.59%), Query Frame = 0 

Query: 2   GFSGGNGGNGDEGYGGNTVINNSPIYENGGGNGNDDYYGMIFKAAGYSVLPILPSINLCT 61
           GF+G NGGNGDEGYGGNTVINNSPIYENGG NGNDDYYGMIFKA G+ VLP+LPSINLCT
Sbjct: 426 GFNGENGGNGDEGYGGNTVINNSPIYENGGANGNDDYYGMIFKANGHRVLPLLPSINLCT 485

Query: 62  QILILLYIVTNYSGLFAL 80
           QI+ILLYIVTNYSGLF +
Sbjct: 486 QIIILLYIVTNYSGLFTI 503

[Close]
BLAST of Lsi04G001010 vs. NCBI nr
Match: XP_008446817.1 (PREDICTED: probable pectate lyase 18 [Cucumis melo])

HSP 1 Score: 106.7 bits (265), Expect = 9.4e-20
Identity = 61/85 (71.76%), Postives = 68/85 (80.00%), Query Frame = 0 

Query: 2   GFSGGNGGNGDEGYGGNTVINNSPIYENGGG-----NGNDDYYGMIFKAAGYSVLPILPS 61
           GFSGGNGGNGDEGYGGNTVINNSPIYENGGG     NGNDDY+GMIFKA G  + PI  S
Sbjct: 427 GFSGGNGGNGDEGYGGNTVINNSPIYENGGGGNGNSNGNDDYFGMIFKANGNRIFPIFSS 486

Query: 62  IN-LCTQILI-LLYIVTNYSGLFAL 80
           +N LCT ++I L+YIV  YS LF+L
Sbjct: 487 VNYLCTLLIIFLMYIVAYYSALFSL 511

[Close]
BLAST of Lsi04G001010 vs. NCBI nr
Match: XP_011655861.1 (probable pectate lyase 18 [Cucumis sativus] >KGN52235.1 hypothetical protein Csa_008983 [Cucumis sativus])

HSP 1 Score: 104.8 bits (260), Expect = 3.6e-19
Identity = 60/82 (73.17%), Postives = 66/82 (80.49%), Query Frame = 0 

Query: 2   GFSGGNGGNGDEGYGGNTVINNSPIYENGG-------GNGNDDYYGMIFKAAGYSVLPIL 61
           GFSGG+GGNGDEGYGGNTVINNSPIYENGG       GNGNDDY+GMIFKA G+   PI 
Sbjct: 428 GFSGGSGGNGDEGYGGNTVINNSPIYENGGGSGGYGNGNGNDDYFGMIFKANGHRTFPIF 487

Query: 62  PSIN-LCTQILI-LLYIVTNYS 75
            S+N LCT ++I LLYIVTNYS
Sbjct: 488 SSLNYLCTLLIIFLLYIVTNYS 509

[Close]
BLAST of Lsi04G001010 vs. NCBI nr
Match: XP_022138994.1 (probable pectate lyase 18 [Momordica charantia])

HSP 1 Score: 87.4 bits (215), Expect = 5.9e-14
Identity = 54/79 (68.35%), Postives = 59/79 (74.68%), Query Frame = 0 

Query: 2   GFSGGNGGNGDEGYGGNTVINNSPIYENGGGNGNDDYYGMIFKAAGYSVLPILP-SINLC 61
           GFSG N G+G   YGGNTVINNSPI  NGGG G DD+YGMIFKA GY V  + P SINL 
Sbjct: 426 GFSGNNDGSGIGEYGGNTVINNSPIGGNGGG-GEDDFYGMIFKAGGYRVSSLPPLSINLW 485

Query: 62  TQILILLYIVTNYSGLFAL 80
            QI+I+LYIV NY GLF L
Sbjct: 486 IQIVIILYIVMNYCGLFTL 503

[Close]
BLAST of Lsi04G001010 vs. NCBI nr
Match: XP_022956421.1 (probable pectate lyase 18 [Cucurbita moschata])

HSP 1 Score: 82.8 bits (203), Expect = 1.5e-12
Identity = 50/79 (63.29%), Postives = 59/79 (74.68%), Query Frame = 0 

Query: 2   GFSGGNGGNGDEGYGGNTVINNSPIYENGGGNGNDDYYGMIFKAAGYSVLPI-LPSINLC 61
           GF+G N G+GD G GGNT I+NSPIY NGGG+ ND+YYGM+FK  GY    +   S NLC
Sbjct: 460 GFNGSNHGDGD-GDGGNTAISNSPIYGNGGGS-NDEYYGMVFKGNGYRASSLSSSSTNLC 519

Query: 62  TQILILLYIVTNYSGLFAL 80
            QI+I+LYIVTNYSGL  L
Sbjct: 520 IQIIIVLYIVTNYSGLLTL 536

The following BLAST results are available for this feature:
BLAST of Lsi04G001010 vs.
Match NameE-valueIdentityDescription
BLAST of Lsi04G001010 vs. ExPASy TrEMBL
Match NameE-valueIdentityDescription
A0A1S3BGT04.6e-2071.76Pectate lyase OS=Cucumis melo OX=3656 GN=LOC103489433 PE=3 SV=1[more]
A0A0A0KRG91.7e-1973.17Pectate lyase OS=Cucumis sativus OX=3659 GN=Csa_5G622520 PE=3 SV=1[more]
A0A6J1CBN12.9e-1468.35Pectate lyase OS=Momordica charantia OX=3673 GN=LOC111010036 PE=3 SV=1[more]
A0A6J1GWH97.0e-1363.29Pectate lyase OS=Cucurbita moschata OX=3662 GN=LOC111458162 PE=3 SV=1[more]
A0A6J1ISI74.6e-1260.24Pectate lyase OS=Cucurbita maxima OX=3661 GN=LOC111478161 PE=3 SV=1[more]
BLAST of Lsi04G001010 vs. NCBI nr
Match NameE-valueIdentityDescription
XP_038893100.12.5e-2887.18probable pectate lyase 18 isoform X1 [Benincasa hispida] >XP_038893101.1 probabl... [more]
XP_008446817.19.4e-2071.76PREDICTED: probable pectate lyase 18 [Cucumis melo][more]
XP_011655861.13.6e-1973.17probable pectate lyase 18 [Cucumis sativus] >KGN52235.1 hypothetical protein Csa... [more]
XP_022138994.15.9e-1468.35probable pectate lyase 18 [Momordica charantia][more]
XP_022956421.11.5e-1263.29probable pectate lyase 18 [Cucurbita moschata][more]
BLAST of Lsi04G001010 vs. NCBI nr
Match NameE-valueIdentityDescription
Relationships

The following mRNA feature(s) are a part of this gene:

Feature NameUnique NameType
Lsi04G001010.1Lsi04G001010.1mRNA


GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0045490 pectin catabolic process
cellular_component GO:0016021 integral component of membrane
molecular_function GO:0046872 metal ion binding
molecular_function GO:0030570 pectate lyase activity