pycom08g17800

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr8
OG0008923
Physical Location & Seq
Reverse (-)
17926130 .. 17930719
4590 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1227 bp
ATGTATACAATAATCTATCTATTGCCAAAGAGATTACCTTTGTACATTACTTATCAGGTAATGATGGATAATGGGATTGTCCAAGTGACGCTATCAAAGCCAGACGGAATCGTGACTGGAATCCGATACAATGGCATCGATAACTTGCTTGAAATTCGTAACGAGGAATCTAACAGAGGGATCAAAGGAACAAGCTTTACGGTTATAATGCAAAATGATGAACAGGTGGAGCTCTCTTTCACAAGAACCTGGGATCCCTCCCAAGAGGGACAACTCGTACCCTTAAATATTGATAAAAGGTTCATTATGCTTCGAGGGTGCTCAGGCTTCTACTCCTATGCCATTTACGAGCACTTGAAGGACTGGCCTGCTTTCCAGCTTGCAGAAACCAGAATTGCCTTCAAACTCCGGAAAGACAAGTACACAAATTCTCTCAATTTTTTATATACGAAAGAGAAACAAAATTATGTGCACTGTAATGCCACTACGTGGTATTACTGTTTCACACTTACAATATGGTCGAAAGATAGAGCAAGGGTGGATGATAAGTACCAATATTCATGTGACAACAAGGATAGTAAGGTACATGGGTGGATATGCACCGAGCCGCCGGTAGGGTTCTGGCTAATTACACCAAGCCAAGAGTTCCGATCTGGTGGACCCTTTAAACAAAACCTCACCTCCCATGTTGGCCCCACCACCCTTGCGGTAAGTGACCCAAAAAACTCAACCATCTATGTTTGTTACAGTGTGTTTCTAAGCGCACACTATTCTGGAGAAGATTTGGTGCCAAAATTTGCAGCTGGTGAGGAATGGAAGAAAGTCTTTGGGCCAGTTTTTATGTATGTTAATTCTGCATATGAAGGAAATGATCCACTTTCGTTATGGGAGGATGCTAAATCACAGATGGTGATGGAAGTCCAGTGCTGGCCCTACAGCTTCCCAGCATCTGAGGATTTTCCCAAGTCACGCCAACGGGGTAATGTTAGGGGCCGACTACTTATTCAAGACAGATACGTTAGCGATGATTATGTATCCGTCAATGGTGCATATGTTGGGTTAGCCCCGCCAGGAGATGTTGGATCGTGGCAAAGAGAGTGCAAGGACTATCAATTCTGGACCACAACCGATGAAGATGGCTACTTTTGCATCAACGGGGTTGTGACATTGATATGGGTGATCTCGTATATAAGCCTCCCAGAGATGGCCCTACTTTATGGGAAATAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
CBM-like Rhamnogal_lyase fn3_3

Protein Analysis

409

Amino Acids

47.05

Weight (kDa)

5.68

Isoelectric Point (pI)

28.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rhamnogal_lyase PF06045 19 - 60 6.3e-16 Rhamnogalacturonate lyase family
Rhamnogal_lyase PF06045 61 - 142 2.3e-38 Rhamnogalacturonate lyase family
fn3_3 PF14686 348 - 388 9.9e-13 Polysaccharide lyase family 4, domain II
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 206
AccB1I GGYRCC 1 cut(s) 787
AccB7I CCANNNNNTGG 1 cut(s) 489
AccI GTMKAC 1 cut(s) 5
AccIII TCCGGA 1 cut(s) 408
AciI CCGC 3 cut(s) 608, 707, 1067
AclWI GGATC 5 cut(s) 188, 248, 261, 866, 1090
AcsI RAATTY 3 cut(s) 153, 427, 794
AdeI CACNNNGTG 1 cut(s) 489
AfaI GTAC 5 cut(s) 44, 279, 422, 551, 585
AfiI CCNNNNNNNGG 3 cut(s) 489, 614, 1204
AgsI TTSAA 4 cut(s) 152, 358, 403, 1007
AjnI CCWGG 2 cut(s) 248, 1069
AloI GAACNNNNNNTCC 2 cut(s) 238, 270
AluBI AGCT 5 cut(s) 195, 232, 379, 803, 939
AluI AGCT 5 cut(s) 195, 232, 379, 803, 939
Alw21I GWGCWC 4 cut(s) 234, 323, 354, 474
Alw44I GTGCAC 1 cut(s) 470
AlwI GGATC 5 cut(s) 188, 248, 261, 866, 1090
AlwNI CAGNNNCTG 1 cut(s) 950
Aor13HI TCCGGA 1 cut(s) 408
AoxI GGCC 6 cut(s) 365, 691, 830, 929, 991, 1206
ApaLI GTGCAC 1 cut(s) 470
ApeKI GCWGC 1 cut(s) 800
ApoI RAATTY 3 cut(s) 153, 427, 794
AspLEI GCGC 1 cut(s) 764
AspS9I GGNCC 7 cut(s) 659, 692, 830, 930, 991, 1119, 1207
AsuHPI GGTGA 4 cut(s) 670, 818, 922, 1189
AvaII GGWCC 2 cut(s) 659, 1119
BaeGI GKGCMC 1 cut(s) 474
BaeI ACNNNNGTAYC 2 cut(s) 575, 608
BamHI GGATCC 1 cut(s) 253
BanI GGYRCC 1 cut(s) 787
BanII GRGCYC 1 cut(s) 234
Bbv12I GWGCWC 4 cut(s) 234, 323, 354, 474
BbvI GCAGC 1 cut(s) 812
BccI CCATC 6 cut(s) 58, 740, 901, 907, 1130, 1198
BciT130I CCWGG 2 cut(s) 250, 1071
BciVI GTATCC 1 cut(s) 1045
BfmI CTRYAG 1 cut(s) 934
BfuI GTATCC 1 cut(s) 1045
BisI GCNGC 2 cut(s) 608, 801
BlsI GCNGC 2 cut(s) 609, 802
Bme1390I CCNGG 2 cut(s) 250, 1071
Bme18I GGWCC 2 cut(s) 659, 1119
BmgT120I GGNCC 7 cut(s) 659, 692, 830, 930, 991, 1119, 1207
BmiI GGNNCC 5 cut(s) 255, 661, 694, 789, 992
BmrFI CCNGG 2 cut(s) 250, 1071
BmsI GCATC 4 cut(s) 144, 883, 956, 1158
BpmI CTGGAG 1 cut(s) 795
Bpu10I CCTNAGC 1 cut(s) 322
Bsa29I ATCGAT 1 cut(s) 138
BsaAI YACGTR 1 cut(s) 489
BsaJI CCNNGG 1 cut(s) 249
BsaWI WCCGGW 1 cut(s) 408
BsaXI ACNNNNNCTCC 2 cut(s) 665, 695
Bsc4I CCNNNNNNNGG 3 cut(s) 489, 614, 1204
Bse118I RCCGGY 1 cut(s) 610
Bse1I ACTGG 4 cut(s) 121, 368, 833, 922
BseAI TCCGGA 1 cut(s) 408
BseBI CCWGG 2 cut(s) 250, 1071
BseCI ATCGAT 1 cut(s) 138
BseDI CCNNGG 1 cut(s) 249
BseGI GGATG 2 cut(s) 547, 898
BseLI CCNNNNNNNGG 3 cut(s) 489, 614, 1204
BseMII CTCAG 2 cut(s) 336, 942
BseNI ACTGG 4 cut(s) 121, 368, 833, 922
BseSI GKGCMC 1 cut(s) 474
BseXI GCAGC 1 cut(s) 812
BseYI CCCAGC 1 cut(s) 943
BshFI GGCC 6 cut(s) 367, 693, 832, 931, 993, 1208
BshNI GGYRCC 1 cut(s) 787
BshVI ATCGAT 1 cut(s) 138
BsiHKAI GWGCWC 4 cut(s) 234, 323, 354, 474
BsiSI CCGG 2 cut(s) 409, 611
BslFI GGGAC 1 cut(s) 282
BslI CCNNNNNNNGG 3 cut(s) 489, 614, 1204
BsmFI GGGAC 1 cut(s) 282
BsnI GGCC 6 cut(s) 367, 693, 832, 931, 993, 1208
Bsp1286I GDGCHC 4 cut(s) 234, 323, 354, 474
Bsp13I TCCGGA 1 cut(s) 408
Bsp1407I TGTACA 1 cut(s) 42
Bsp143I GATC 6 cut(s) 180, 253, 650, 871, 1082, 1179
BspACI CCGC 3 cut(s) 608, 707, 1067
BspANI GGCC 6 cut(s) 367, 693, 832, 931, 993, 1208
BspCNI CTCAG 2 cut(s) 335, 943
BspDI ATCGAT 1 cut(s) 138
BspEI TCCGGA 1 cut(s) 408
BspLI GGNNCC 5 cut(s) 255, 661, 694, 789, 992
BspPI GGATC 5 cut(s) 188, 248, 261, 866, 1090
BspT107I GGYRCC 1 cut(s) 787
BsrFI RCCGGY 1 cut(s) 610
BsrGI TGTACA 1 cut(s) 42
BsrI ACTGG 4 cut(s) 121, 368, 833, 922
BssAI RCCGGY 1 cut(s) 610
BssECI CCNNGG 1 cut(s) 249
BssMI GATC 6 cut(s) 180, 253, 650, 871, 1082, 1179
BssNAI GTATAC 1 cut(s) 6
Bst1107I GTATAC 1 cut(s) 6
Bst2UI CCWGG 2 cut(s) 250, 1071
Bst4CI ACNGT 4 cut(s) 202, 476, 500, 749
BstAUI TGTACA 1 cut(s) 42
BstBAI YACGTR 1 cut(s) 489
BstC8I GCNNGC 3 cut(s) 369, 381, 929
BstDEI CTNAG 3 cut(s) 322, 758, 951
BstF5I GGATG 2 cut(s) 547, 898
BstHHI GCGC 1 cut(s) 764
BstKTI GATC 6 cut(s) 183, 256, 653, 874, 1085, 1182
BstMBI GATC 6 cut(s) 180, 253, 650, 871, 1082, 1179
BstMWI GCNNNNNNNGC 2 cut(s) 97, 1146
BstNI CCWGG 2 cut(s) 250, 1071
BstSCI CCNGG 2 cut(s) 248, 1069
BstSFI CTRYAG 1 cut(s) 934
BstSLI GKGCMC 1 cut(s) 474
BstV1I GCAGC 1 cut(s) 812
BstX2I RGATCY 1 cut(s) 253
BstYI RGATCY 1 cut(s) 253
BstZ17I GTATAC 1 cut(s) 6
Bsu15I ATCGAT 1 cut(s) 138
BsuI GTATCC 1 cut(s) 1045
BsuRI GGCC 6 cut(s) 367, 693, 832, 931, 993, 1208
BsuTUI ATCGAT 1 cut(s) 138
BtgZI GCGATG 1 cut(s) 1038
BtsCI GGATG 2 cut(s) 547, 898
BtsIMutI CAGTG 3 cut(s) 472, 754, 929
Cac8I GCNNGC 3 cut(s) 369, 381, 929
CaiI CAGNNNCTG 1 cut(s) 950
CfoI GCGC 1 cut(s) 764
Cfr10I RCCGGY 1 cut(s) 610
Cfr13I GGNCC 7 cut(s) 659, 692, 830, 930, 991, 1119, 1207
ClaI ATCGAT 1 cut(s) 138
CseI GACGC 1 cut(s) 97
Csp6I GTAC 5 cut(s) 43, 278, 421, 550, 584
CspCI CAANNNNNGTGG 2 cut(s) 685, 720
CviAII CATG 3 cut(s) 561, 587, 686
CviQI GTAC 5 cut(s) 43, 278, 421, 550, 584
DdeI CTNAG 3 cut(s) 322, 758, 951
DpnI GATC 6 cut(s) 182, 255, 652, 873, 1084, 1181
DpnII GATC 6 cut(s) 180, 253, 650, 871, 1082, 1179
DraI TTTAAA 1 cut(s) 667
DraIII CACNNNGTG 1 cut(s) 489
Ecl136II GAGCTC 1 cut(s) 232
Eco24I GRGCYC 1 cut(s) 234
Eco47I GGWCC 2 cut(s) 659, 1119
Eco53kI GAGCTC 1 cut(s) 232
EcoICRI GAGCTC 1 cut(s) 232
EcoRII CCWGG 2 cut(s) 248, 1069
EcoT38I GRGCYC 1 cut(s) 234
FaeI CATG 3 cut(s) 564, 590, 689
FalI AAGNNNNNCTT 2 cut(s) 809, 841
FaqI GGGAC 1 cut(s) 282
FatI CATG 3 cut(s) 560, 586, 685
FauI CCCGC 1 cut(s) 1074
FauNDI CATATG 2 cut(s) 859, 1051
FblI GTMKAC 1 cut(s) 5
Fnu4HI GCNGC 2 cut(s) 608, 801
FokI GGATG 2 cut(s) 554, 905
FriOI GRGCYC 1 cut(s) 234
Fsp4HI GCNGC 2 cut(s) 608, 801
GlaI GCGC 1 cut(s) 763
GluI GCNGC 2 cut(s) 608, 801
GsaI CCCAGC 1 cut(s) 947
GsuI CTGGAG 1 cut(s) 795
HaeIII GGCC 6 cut(s) 367, 693, 832, 931, 993, 1208
HapII CCGG 2 cut(s) 409, 611
HgaI GACGC 1 cut(s) 97
HhaI GCGC 1 cut(s) 764
Hin1II CATG 3 cut(s) 564, 590, 689
Hin6I GCGC 1 cut(s) 762
HinP1I GCGC 1 cut(s) 762
HindIII AAGCTT 1 cut(s) 193
HinfI GANTC 3 cut(s) 108, 120, 167
HpaII CCGG 2 cut(s) 409, 611
HphI GGTGA 4 cut(s) 670, 818, 922, 1189
Hpy166II GTNNAC 4 cut(s) 6, 423, 472, 659
Hpy188I TCNGA 3 cut(s) 125, 650, 952
Hpy188III TCNNGA 5 cut(s) 112, 409, 774, 1007, 1117
Hpy8I GTNNAC 4 cut(s) 6, 423, 472, 659
HpyAV CCTTC 3 cut(s) 352, 409, 857
HpyCH4III ACNGT 4 cut(s) 202, 476, 500, 749
HpyCH4IV ACGT 2 cut(s) 488, 1017
HpyCH4V TGCA 9 cut(s) 211, 383, 472, 600, 800, 857, 1049, 1101, 1149
HpyF10VI GCNNNNNNNGC 2 cut(s) 97, 1146
HpyF3I CTNAG 3 cut(s) 322, 758, 951
HpySE526I ACGT 2 cut(s) 488, 1017
Hsp92II CATG 3 cut(s) 564, 590, 689
HspAI GCGC 1 cut(s) 762
Kpn2I TCCGGA 1 cut(s) 408
Kzo9I GATC 6 cut(s) 180, 253, 650, 871, 1082, 1179
LmnI GCTCC 1 cut(s) 229
Lsp1109I GCAGC 1 cut(s) 812
LweI GCATC 4 cut(s) 144, 883, 956, 1158
MaeII ACGT 2 cut(s) 488, 1017
MaeIII GTNAC 8 cut(s) 85, 112, 158, 563, 713, 743, 966, 1162
MalI GATC 6 cut(s) 182, 255, 652, 873, 1084, 1181
MboI GATC 6 cut(s) 180, 253, 650, 871, 1082, 1179
MboII GAAGA 3 cut(s) 791, 829, 1145
MflI RGATCY 1 cut(s) 253
MhlI GDGCHC 4 cut(s) 234, 323, 354, 474
MluCI AATT 9 cut(s) 153, 393, 427, 436, 463, 627, 794, 850, 1112
MmeI TCCRAC 1 cut(s) 1060
MroI TCCGGA 1 cut(s) 408
MseI TTAA 3 cut(s) 284, 666, 849
MslI CAYNNNNRTG 2 cut(s) 477, 1171
MspA1I CMGCKG 1 cut(s) 803
MspI CCGG 2 cut(s) 409, 611
MspR9I CCNGG 2 cut(s) 250, 1071
MvaI CCWGG 2 cut(s) 250, 1071
MwoI GCNNNNNNNGC 2 cut(s) 97, 1146
NdeI CATATG 2 cut(s) 859, 1051
NdeII GATC 6 cut(s) 180, 253, 650, 871, 1082, 1179
NlaIII CATG 3 cut(s) 564, 590, 689
NlaIV GGNNCC 5 cut(s) 255, 661, 694, 789, 992
NmuCI GTSAC 6 cut(s) 85, 112, 563, 713, 966, 1162
PfeI GAWTC 3 cut(s) 108, 120, 167
PflMI CCANNNNNTGG 1 cut(s) 489
PkrI GCNGC 2 cut(s) 609, 802
Ppu21I YACGTR 1 cut(s) 489
PsiI TTATAA 1 cut(s) 206
Psp124BI GAGCTC 1 cut(s) 234
Psp6I CCWGG 2 cut(s) 248, 1069
PspFI CCCAGC 1 cut(s) 943
PspGI CCWGG 2 cut(s) 248, 1069
PspN4I GGNNCC 5 cut(s) 255, 661, 694, 789, 992
PspPI GGNCC 7 cut(s) 659, 692, 830, 930, 991, 1119, 1207
PsrI GAACNNNNNNTAC 2 cut(s) 181, 213
PstNI CAGNNNCTG 1 cut(s) 950
PsuI RGATCY 1 cut(s) 253
PvuII CAGCTG 1 cut(s) 803
RsaI GTAC 5 cut(s) 44, 279, 422, 551, 585
RsaNI GTAC 5 cut(s) 43, 278, 421, 550, 584
RseI CAYNNNNRTG 2 cut(s) 477, 1171
SacI GAGCTC 1 cut(s) 234
SaqAI TTAA 3 cut(s) 284, 666, 849
SatI GCNGC 2 cut(s) 608, 801
Sau3AI GATC 6 cut(s) 180, 253, 650, 871, 1082, 1179
Sau96I GGNCC 7 cut(s) 659, 692, 830, 930, 991, 1119, 1207
ScrFI CCNGG 2 cut(s) 250, 1071
SduI GDGCHC 4 cut(s) 234, 323, 354, 474
SfaNI GCATC 4 cut(s) 144, 883, 956, 1158
SfcI CTRYAG 1 cut(s) 934
SinI GGWCC 2 cut(s) 659, 1119
SmiMI CAYNNNNRTG 2 cut(s) 477, 1171
Sse9I AATT 9 cut(s) 153, 393, 427, 436, 463, 627, 794, 850, 1112
SsiI CCGC 3 cut(s) 608, 707, 1067
SspI AATATT 2 cut(s) 289, 557
SstI GAGCTC 1 cut(s) 234
StyD4I CCNGG 2 cut(s) 248, 1069
TaaI ACNGT 4 cut(s) 202, 476, 500, 749
TaiI ACGT 2 cut(s) 491, 1020
TaqI TCGA 3 cut(s) 138, 313, 521
TasI AATT 9 cut(s) 153, 393, 427, 436, 463, 627, 794, 850, 1112
TatI WGTACW 2 cut(s) 42, 420
TauI GCSGC 1 cut(s) 610
TfiI GAWTC 3 cut(s) 108, 120, 167
Tru1I TTAA 3 cut(s) 284, 666, 849
Tru9I TTAA 3 cut(s) 284, 666, 849
TscAI CASTG 3 cut(s) 479, 754, 929
TseFI GTSAC 6 cut(s) 85, 112, 563, 713, 966, 1162
TseI GCWGC 1 cut(s) 800
Tsp45I GTSAC 6 cut(s) 85, 112, 563, 713, 966, 1162
TspDTI ATGAA 5 cut(s) 234, 292, 549, 876, 1146
TspGWI ACGGA 2 cut(s) 120, 1027
TspRI CASTG 3 cut(s) 479, 754, 929
Van91I CCANNNNNTGG 1 cut(s) 489
VneI GTGCAC 1 cut(s) 470
VpaK11BI GGWCC 2 cut(s) 659, 1119
XapI RAATTY 3 cut(s) 153, 427, 794
XcmI CCANNNNNNNNNTGG 1 cut(s) 882
XmiI GTMKAC 1 cut(s) 5
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.