Rh5AG281700

Exopolygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0002146
Physical Location & Seq
Forward (+)
38191628 .. 38194432
2805 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG281700.1

Sequence Viewer

Length: 981 bp
ATGTCTTTGTTCATAAAGAGCTCGAGCATGGTTATTAAATGTGTTTGGTTATTGTTGTTGGTATTACTCATCAACAATGTTCAAGCTCAGATGAAAACTTTCAATGTAAACCAATATGGTGGTGTTGCAGATGGAAAAACTGATAACAGCAAGGCTTTTACTGATGCATGGAATCAAGCTTGCCAAAACAATGGAGGTGGTGTGGTCTTGTTTCAGCAAGGGATATATTTGGTGAACCCTTTGGTTATAGAAGGCTCTTGCAAGGGACCGATGGAGTTGCAGATCCAGGGTACCTTATTGGCTTCAAGGGAGTACCAGTACTCGGTTGGTATTGACCATTGGATTGTCTTCCGTTACATTGACAACTTAGTAATTAGTGGTGGAGGGACGTTCGATGGCCAAGGAGCCTCTTCTTGGCCCTATAACGACTGTCACAAAAACCCACAGTGCAAGGCACTGCCTGCGTCATTGAGGTTCGACTTTGCCAATAATACAAAGATCGACAACATAACTCTCATCAACAGCAAGAACACCAACATCCACCTTTTCGCAGGTCTTAATGTGATAATCAGCAACATTAACATAAGTGCCCCGGCCAACAGCCCCAACACCGATGGAATCAAAGTCGGTAGTTCAAGCATCGTCCAAATATATGATTCTGTAATATCCACCGGAGATGACTGCATAGCTTTCCTTCCTGAATCAACCAACCTTAACGTTACTAACGTTCACTGCGGGCCTGGCCATGGAATTAGTGTAGGAAGCATTTCCAGTAACTCTATTACTGGCTTGAACGTAAGGAATTGCAGCTTCGTAGGTACTCAGAATGGTGTTAGAATCAAGACGAGGAGTCCCTCTCAACCAGGAACTGTTGCACAAGTTACATTTGAAAACATTGAAATGGATAAGGTCGATAATCCCATCATCATTGATCAACAATATTGCGCTAGTAGTGGCTGTAGTCCACGGGTAAGCAATTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00040 ko01100 map00040 map01100
Pfam Domains
Protein Families
Glyco_hydro_28

Protein Analysis

326

Amino Acids

35.06

Weight (kDa)

6.18

Isoelectric Point (pI)

35.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 34 - 270 4.8e-07 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 75 - 322 2e-74 Glycosyl hydrolases family 28
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)
Acc36I ACCTGC 1 cut(s) 542
Acc65I GGTACC 1 cut(s) 290
AccB1I GGYRCC 1 cut(s) 290
AciI CCGC 1 cut(s) 735
AclI AACGTT 2 cut(s) 717, 726
AclWI GGATC 1 cut(s) 277
AcoI YGGCCR 3 cut(s) 397, 594, 742
AfaI GTAC 4 cut(s) 292, 314, 320, 820
AfiI CCNNNNNNNGG 3 cut(s) 322, 414, 746
AgsI TTSAA 7 cut(s) 83, 103, 306, 636, 793, 890, 899
AhdI GACNNNNNGTC 1 cut(s) 849
AjnI CCWGG 3 cut(s) 285, 739, 862
AluBI AGCT 5 cut(s) 21, 86, 179, 689, 810
AluI AGCT 5 cut(s) 21, 86, 179, 689, 810
Alw21I GWGCWC 1 cut(s) 23
AlwI GGATC 1 cut(s) 277
AlwNI CAGNNNCTG 1 cut(s) 869
Ama87I CYCGRG 1 cut(s) 22
AoxI GGCC 5 cut(s) 397, 416, 594, 737, 742
ApeKI GCWGC 1 cut(s) 807
Asp700I GAANNNNTTC 2 cut(s) 98, 766
Asp718I GGTACC 1 cut(s) 290
AspLEI GCGC 1 cut(s) 947
AspS9I GGNCC 3 cut(s) 266, 417, 737
AsuC2I CCSGG 1 cut(s) 593
AsuHPI GGTGA 1 cut(s) 244
AvaI CYCGRG 1 cut(s) 22
AvaII GGWCC 1 cut(s) 266
BaeGI GKGCMC 1 cut(s) 592
BalI TGGCCA 2 cut(s) 399, 744
BanI GGYRCC 1 cut(s) 290
BanII GRGCYC 1 cut(s) 23
BbsI GAAGAC 1 cut(s) 340
Bbv12I GWGCWC 1 cut(s) 23
BbvI GCAGC 1 cut(s) 819
BccI CCATC 5 cut(s) 125, 265, 389, 608, 929
BcgI CGANNNNNNTGC 2 cut(s) 259, 293
BciT130I CCWGG 3 cut(s) 287, 741, 864
BclI TGATCA 1 cut(s) 931
BcnI CCSGG 1 cut(s) 593
BfaI CTAG 1 cut(s) 948
BfmI CTRYAG 1 cut(s) 958
BfuAI ACCTGC 1 cut(s) 542
BisI GCNGC 1 cut(s) 808
BlsI GCNGC 1 cut(s) 809
BmcAI AGTACT 1 cut(s) 320
Bme1390I CCNGG 4 cut(s) 287, 593, 741, 864
Bme18I GGWCC 1 cut(s) 266
BmeRI GACNNNNNGTC 1 cut(s) 849
BmeT110I CYCGRG 1 cut(s) 22
BmgT120I GGNCC 3 cut(s) 266, 417, 737
BmiI GGNNCC 3 cut(s) 267, 292, 406
BmrFI CCNGG 4 cut(s) 287, 593, 741, 864
BmsI GCATC 2 cut(s) 154, 648
BpiI GAAGAC 1 cut(s) 340
BplI GAGNNNNNCTC 2 cut(s) 841, 873
BpuMI CCSGG 1 cut(s) 593
BsaJI CCNNGG 5 cut(s) 286, 400, 591, 745, 965
BsaWI WCCGGW 1 cut(s) 671
BsaXI ACNNNNNCTCC 4 cut(s) 186, 216, 302, 332
Bsc4I CCNNNNNNNGG 3 cut(s) 322, 414, 746
Bse1I ACTGG 3 cut(s) 316, 771, 790
BseBI CCWGG 3 cut(s) 287, 741, 864
BseDI CCNNGG 5 cut(s) 286, 400, 591, 745, 965
BseGI GGATG 1 cut(s) 537
BseLI CCNNNNNNNGG 3 cut(s) 322, 414, 746
BseMII CTCAG 2 cut(s) 101, 836
BseNI ACTGG 3 cut(s) 316, 771, 790
BseRI GAGGAG 1 cut(s) 862
BseSI GKGCMC 1 cut(s) 592
BseXI GCAGC 1 cut(s) 819
BshFI GGCC 5 cut(s) 399, 418, 596, 739, 744
BshNI GGYRCC 1 cut(s) 290
BsiHKAI GWGCWC 1 cut(s) 23
BsiHKCI CYCGRG 1 cut(s) 22
BsiSI CCGG 2 cut(s) 593, 672
BslFI GGGAC 3 cut(s) 279, 400, 837
BslI CCNNNNNNNGG 3 cut(s) 322, 414, 746
BsmFI GGGAC 3 cut(s) 279, 400, 837
BsnI GGCC 5 cut(s) 399, 418, 596, 739, 744
BsoBI CYCGRG 1 cut(s) 22
Bsp1286I GDGCHC 2 cut(s) 23, 592
Bsp143I GATC 3 cut(s) 282, 498, 931
Bsp19I CCATGG 1 cut(s) 745
BspACI CCGC 1 cut(s) 735
BspANI GGCC 5 cut(s) 399, 418, 596, 739, 744
BspCNI CTCAG 2 cut(s) 100, 835
BspLI GGNNCC 3 cut(s) 267, 292, 406
BspMI ACCTGC 1 cut(s) 542
BspPI GGATC 1 cut(s) 277
BspT107I GGYRCC 1 cut(s) 290
BsrI ACTGG 3 cut(s) 316, 771, 790
BssECI CCNNGG 5 cut(s) 286, 400, 591, 745, 965
BssMI GATC 3 cut(s) 282, 498, 931
BssT1I CCWWGG 2 cut(s) 400, 745
Bst2UI CCWGG 3 cut(s) 287, 741, 864
Bst4CI ACNGT 3 cut(s) 431, 447, 871
Bst6I CTCTTC 1 cut(s) 415
BstAPI GCANNNNNTGC 1 cut(s) 461
BstC8I GCNNGC 3 cut(s) 181, 462, 737
BstDEI CTNAG 3 cut(s) 87, 367, 822
BstDSI CCRYGG 2 cut(s) 745, 965
BstF5I GGATG 1 cut(s) 537
BstHHI GCGC 1 cut(s) 947
BstKTI GATC 3 cut(s) 285, 501, 934
BstMBI GATC 3 cut(s) 282, 498, 931
BstMWI GCNNNNNNNGC 2 cut(s) 461, 741
BstNI CCWGG 3 cut(s) 287, 741, 864
BstSCI CCNGG 4 cut(s) 285, 591, 739, 862
BstSFI CTRYAG 1 cut(s) 958
BstSLI GKGCMC 1 cut(s) 592
BstV1I GCAGC 1 cut(s) 819
BstV2I GAAGAC 1 cut(s) 340
BstX2I RGATCY 1 cut(s) 282
BstXI CCANNNNNNTGG 2 cut(s) 119, 191
BstYI RGATCY 1 cut(s) 282
BsuRI GGCC 5 cut(s) 399, 418, 596, 739, 744
BtgI CCRYGG 2 cut(s) 745, 965
BtsCI GGATG 1 cut(s) 537
BtsI GCAGTG 2 cut(s) 455, 730
BtsIMutI CAGTG 3 cut(s) 452, 455, 730
BveI ACCTGC 1 cut(s) 542
Cac8I GCNNGC 3 cut(s) 181, 462, 737
CaiI CAGNNNCTG 1 cut(s) 869
CfoI GCGC 1 cut(s) 947
Cfr13I GGNCC 3 cut(s) 266, 417, 737
CseI GACGC 1 cut(s) 453
Csp6I GTAC 4 cut(s) 291, 313, 319, 819
CspCI CAANNNNNGTGG 2 cut(s) 178, 213
CviAII CATG 3 cut(s) 28, 168, 746
CviQI GTAC 4 cut(s) 291, 313, 319, 819
DdeI CTNAG 3 cut(s) 87, 367, 822
DpnI GATC 3 cut(s) 284, 500, 933
DpnII GATC 3 cut(s) 282, 498, 931
DriI GACNNNNNGTC 1 cut(s) 849
EaeI YGGCCR 3 cut(s) 397, 594, 742
Eam1104I CTCTTC 1 cut(s) 415
Eam1105I GACNNNNNGTC 1 cut(s) 849
EarI CTCTTC 1 cut(s) 415
Ecl136II GAGCTC 1 cut(s) 21
Eco130I CCWWGG 2 cut(s) 400, 745
Eco24I GRGCYC 1 cut(s) 23
Eco47I GGWCC 1 cut(s) 266
Eco53kI GAGCTC 1 cut(s) 21
Eco88I CYCGRG 1 cut(s) 22
EcoICRI GAGCTC 1 cut(s) 21
EcoRII CCWGG 3 cut(s) 285, 739, 862
EcoT14I CCWWGG 2 cut(s) 400, 745
EcoT22I ATGCAT 1 cut(s) 169
EcoT38I GRGCYC 1 cut(s) 23
ErhI CCWWGG 2 cut(s) 400, 745
FaeI CATG 3 cut(s) 31, 171, 749
FaqI GGGAC 3 cut(s) 279, 400, 837
FatI CATG 3 cut(s) 27, 167, 745
FauI CCCGC 1 cut(s) 728
FbaI TGATCA 1 cut(s) 931
Fnu4HI GCNGC 1 cut(s) 808
FokI GGATG 1 cut(s) 524
FriOI GRGCYC 1 cut(s) 23
Fsp4HI GCNGC 1 cut(s) 808
FspBI CTAG 1 cut(s) 948
GlaI GCGC 1 cut(s) 946
GluI GCNGC 1 cut(s) 808
HaeIII GGCC 5 cut(s) 399, 418, 596, 739, 744
HapII CCGG 2 cut(s) 593, 672
HgaI GACGC 1 cut(s) 453
HhaI GCGC 1 cut(s) 947
Hin1II CATG 3 cut(s) 31, 171, 749
Hin6I GCGC 1 cut(s) 945
HinP1I GCGC 1 cut(s) 945
HindIII AAGCTT 1 cut(s) 177
HinfI GANTC 6 cut(s) 172, 618, 656, 701, 837, 850
HpaII CCGG 2 cut(s) 593, 672
HphI GGTGA 1 cut(s) 244
Hpy166II GTNNAC 4 cut(s) 109, 235, 730, 965
Hpy188I TCNGA 2 cut(s) 90, 825
Hpy188III TCNNGA 2 cut(s) 698, 841
Hpy8I GTNNAC 4 cut(s) 109, 235, 730, 965
HpyAV CCTTC 2 cut(s) 245, 704
HpyCH4III ACNGT 3 cut(s) 431, 447, 871
HpyCH4IV ACGT 4 cut(s) 389, 717, 726, 795
HpyCH4V TGCA 8 cut(s) 128, 167, 261, 280, 450, 684, 807, 875
HpyF10VI GCNNNNNNNGC 2 cut(s) 461, 741
HpyF3I CTNAG 3 cut(s) 87, 367, 822
HpySE526I ACGT 4 cut(s) 389, 717, 726, 795
Hsp92II CATG 3 cut(s) 31, 171, 749
HspAI GCGC 1 cut(s) 945
KpnI GGTACC 1 cut(s) 294
Ksp22I TGATCA 1 cut(s) 931
Kzo9I GATC 3 cut(s) 282, 498, 931
LmnI GCTCC 1 cut(s) 404
Lsp1109I GCAGC 1 cut(s) 819
LweI GCATC 2 cut(s) 154, 648
MaeI CTAG 1 cut(s) 948
MaeII ACGT 4 cut(s) 389, 717, 726, 795
MaeIII GTNAC 5 cut(s) 353, 431, 718, 773, 880
MalI GATC 3 cut(s) 284, 500, 933
MboI GATC 3 cut(s) 282, 498, 931
MboII GAAGA 2 cut(s) 340, 402
MflI RGATCY 1 cut(s) 282
MhlI GDGCHC 2 cut(s) 23, 592
MlsI TGGCCA 2 cut(s) 399, 744
MluCI AATT 4 cut(s) 372, 750, 802, 976
MluNI TGGCCA 2 cut(s) 399, 744
MlyI GAGTC 1 cut(s) 859
MnlI CCTC 6 cut(s) 188, 377, 418, 465, 840, 865
Mox20I TGGCCA 2 cut(s) 399, 744
Mph1103I ATGCAT 1 cut(s) 169
MroXI GAANNNNTTC 2 cut(s) 98, 766
MscI TGGCCA 2 cut(s) 399, 744
MseI TTAA 5 cut(s) 36, 558, 579, 714, 979
MslI CAYNNNNRTG 1 cut(s) 899
Msp20I TGGCCA 2 cut(s) 399, 744
MspI CCGG 2 cut(s) 593, 672
MspR9I CCNGG 4 cut(s) 287, 593, 741, 864
MvaI CCWGG 3 cut(s) 287, 741, 864
MwoI GCNNNNNNNGC 2 cut(s) 461, 741
NciI CCSGG 1 cut(s) 593
NcoI CCATGG 1 cut(s) 745
NdeII GATC 3 cut(s) 282, 498, 931
NlaIII CATG 3 cut(s) 31, 171, 749
NlaIV GGNNCC 3 cut(s) 267, 292, 406
NmuCI GTSAC 1 cut(s) 431
NsiI ATGCAT 1 cut(s) 169
PaeR7I CTCGAG 1 cut(s) 22
PcsI WCGNNNNNNNCGW 1 cut(s) 723
PdmI GAANNNNTTC 2 cut(s) 98, 766
PfeI GAWTC 5 cut(s) 172, 618, 656, 701, 837
PkrI GCNGC 1 cut(s) 809
PleI GAGTC 1 cut(s) 858
PpsI GAGTC 1 cut(s) 858
Psp124BI GAGCTC 1 cut(s) 23
Psp1406I AACGTT 2 cut(s) 717, 726
Psp6I CCWGG 3 cut(s) 285, 739, 862
PspGI CCWGG 3 cut(s) 285, 739, 862
PspN4I GGNNCC 3 cut(s) 267, 292, 406
PspPI GGNCC 3 cut(s) 266, 417, 737
PspXI VCTCGAGB 1 cut(s) 22
PstNI CAGNNNCTG 1 cut(s) 869
PsuI RGATCY 1 cut(s) 282
RsaI GTAC 4 cut(s) 292, 314, 320, 820
RsaNI GTAC 4 cut(s) 291, 313, 319, 819
RseI CAYNNNNRTG 1 cut(s) 899
SacI GAGCTC 1 cut(s) 23
SaqAI TTAA 5 cut(s) 36, 558, 579, 714, 979
SatI GCNGC 1 cut(s) 808
Sau3AI GATC 3 cut(s) 282, 498, 931
Sau96I GGNCC 3 cut(s) 266, 417, 737
ScaI AGTACT 1 cut(s) 320
SchI GAGTC 1 cut(s) 859
ScrFI CCNGG 4 cut(s) 287, 593, 741, 864
SduI GDGCHC 2 cut(s) 23, 592
SfaNI GCATC 2 cut(s) 154, 648
SfcI CTRYAG 1 cut(s) 958
Sfr274I CTCGAG 1 cut(s) 22
SinI GGWCC 1 cut(s) 266
SlaI CTCGAG 1 cut(s) 22
SmiMI CAYNNNNRTG 1 cut(s) 899
SmlI CTYRAG 1 cut(s) 22
SmoI CTYRAG 1 cut(s) 22
Sse9I AATT 4 cut(s) 372, 750, 802, 976
SsiI CCGC 1 cut(s) 735
SspI AATATT 1 cut(s) 941
SspMI CTAG 1 cut(s) 948
SstI GAGCTC 1 cut(s) 23
StyD4I CCNGG 4 cut(s) 285, 591, 739, 862
StyI CCWWGG 2 cut(s) 400, 745
TaaI ACNGT 3 cut(s) 431, 447, 871
TaiI ACGT 4 cut(s) 392, 720, 729, 798
TaqI TCGA 5 cut(s) 23, 393, 477, 501, 912
TaqII GACCGA 1 cut(s) 283
TasI AATT 4 cut(s) 372, 750, 802, 976
TatI WGTACW 1 cut(s) 318
TfiI GAWTC 5 cut(s) 172, 618, 656, 701, 837
Tru1I TTAA 5 cut(s) 36, 558, 579, 714, 979
Tru9I TTAA 5 cut(s) 36, 558, 579, 714, 979
TscAI CASTG 3 cut(s) 452, 462, 737
TseFI GTSAC 1 cut(s) 431
TseI GCWGC 1 cut(s) 807
Tsp45I GTSAC 1 cut(s) 431
TspDTI ATGAA 1 cut(s) 107
TspGWI ACGGA 1 cut(s) 341
TspRI CASTG 3 cut(s) 452, 462, 737
VpaK11BI GGWCC 1 cut(s) 266
XcmI CCANNNNNNNNNTGG 1 cut(s) 323
XhoI CTCGAG 1 cut(s) 22
XmnI GAANNNNTTC 2 cut(s) 98, 766
XspI CTAG 1 cut(s) 948
ZrmI AGTACT 1 cut(s) 320
Zsp2I ATGCAT 1 cut(s) 169
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.