Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Contig00043

Orthogroup ID

OG0002146

Physical Location & Seq

Genomic Coordinates Forward (+)

48555 .. 52149

Gene Structure 3595 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw0G001350.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1200 bp

ATGTCTTTGTTCATAAAGAGCTCGAGCATGGTTATTAAATGTGTTTGGTTATTGTTGTTGGTATTACTCATCAACAATGTTCAAGCTCAGATGAAAACTTTCAATGTAAACCAATATGGTGGTGTTGCAGATGGAAAAACTGATAACAGCAAGGCTTTTACTGATGCATGGAATCAAGCTTGCCAAAACAATGGAGGTGGTGTGGTCTTGTTTCAGCAAGGGATATATTTGGTGAACCCTTTGGTTGTAGAAGGCTCTTGCAAGGGACCGATGGAGTTGCAGATCCAGGGTACCTTATTGGCTTCAAGCGAGTACCAGTACTCGGTTGGTATTGACCATTGGATCGTCTTCCAATACATTGACAACTTAGTAATTAGTGGTGGAGGGACGTTCGATGGCCAAGGAGCCTCTTCTTGGCCCTATAACGACTGTCGCAAAAACCCACAGTGCAAGGCACTGCCTGCGTCATTGAGGTTCAACTTTGCCAATAATACAAAGATCGACAACATAACTCTCATCAACAGCAAGAACACCAACATCCACCTTTTCGCAGGTCTTAATGTGATAATCAGCAACATTAACATAAGTGCCCCGGCCGACAGCCCCAACACCGATGGAATCAAAGTCGGTAGTTCAAGCATCGTCCAAATATATGATTCTGTAATATCCACCGGAGATGACTGCATAGCTTTCCTTCCTGAATCAACCAACCTTAACGTTACTAACGTTCACTGCGGGCCTGGCCATGGAATTAGTGTAGGAAGCATTTCCAGTAACTCTATTACTGGCTTGAACGTAAGGAATTGCAGCTTCGTAGGTACTCAGAATGGTGTTAGAATCAAGACGAAGAGTCCCTCTCAACCAGGAACTGTTGCACAAGTTACATTTGAAAACATTGAAATGGATAAGGTCAATAATCCCATCATCATTGATCAACAATATTGCGCTAGTAGTGGCTGTATTCCTCAGAAAACTTCGGAGATTCAGATTACTGATGTGAAGTACAATAACATTTGGGGTACTTCAAACACAAAAATTGCAGTTTTATTCAAATGTAGCAAAAATAAACCTTGCCAGAACATCGAGTTGAGGGATATTGACCTAAATTACAGAGGTAAAAAACCGGCAAAAGCGTCGTGTTTGAATGCAAAAGGAGTAGCTTACGGCAAACAAAACCCTGCTTCTTGCCTGCAGAGTTAA

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

399

Amino Acids

43.04

Weight (kDa)

8.45

Isoelectric Point (pI)

34.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	34 - 270	1.4e-07	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	75 - 384	2.1e-90	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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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002146)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g12491 FvH4_1g12500 FvH4_3g23740 FvH4_4g28770
malus_domestica	MD03G1196500.v1.1 MD11G1207000.v1.1
prunus_persica	Prupe.4G218900_v2.0.a1 Prupe.4G228600_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0100401 RchiOBHm_Chr4g0436881 RchiOBHm_Chr5g0041901 RchiOBHm_Chr5g0041941
rosa_laevigata	RLG00000006489 RLG00000016970 RLG00000016994 RLG00000034104
rosa_multiflora	Rmu_sc0001095.1_g000011 Rmu_sc0001464.1_g000018 Rmu_sc0009443.1_g000011 Rmu_sc0010997.1_g000006
rosa_roxburghii	Rroxscaffold_2G00142280 Rroxscaffold_5G00377950
rosa_rugosa	Rorug02G0087800 Rorug04G0297000 Rorug05G0197100
rosa_samantha	Rh2AG137300 Rh2AG137500 Rh2BG140500 Rh2BG140700 Rh2CG142600 Rh2DG142500 Rh4AG351300 Rh4BG360300 Rh4CG374600 Rh4DG354600 Rh5AG281700 Rh5AG281900 Rh5BG287500 Rh5CG318800 Rh5DG296100 Rh5DG296400
rosa_wichuraiana	Rw0G001350 Rw2G010740 Rw4G030760

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	2 cut(s)	277, 350
AcoI	YGGCCR	3 cut(s)	397, 594, 742
AfaI	GTAC	6 cut(s)	292, 314, 320, 820, 1004, 1021
AfiI	CCNNNNNNNGG	3 cut(s)	322, 414, 746
AhdI	GACNNNNNGTC	1 cut(s)	849
AjnI	CCWGG	3 cut(s)	285, 739, 862
AluBI	AGCT	6 cut(s)	21, 86, 179, 689, 810, 1160
AluI	AGCT	6 cut(s)	21, 86, 179, 689, 810, 1160
Alw21I	GWGCWC	1 cut(s)	23
AlwI	GGATC	2 cut(s)	277, 350
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
BceAI	ACGGC	1 cut(s)	1180
BcgI	CGANNNNNNTGC	4 cut(s)	259, 293, 1116, 1150
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)	1190
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	4 cut(s)	286, 400, 591, 745
BsaWI	WCCGGW	1 cut(s)	671
BsaXI	ACNNNNNCTCC	2 cut(s)	186, 216
Bsc4I	CCNNNNNNNGG	3 cut(s)	322, 414, 746
Bse118I	RCCGGY	1 cut(s)	1123
Bse1I	ACTGG	3 cut(s)	316, 771, 790
BseBI	CCWGG	3 cut(s)	287, 741, 864
BseDI	CCNNGG	4 cut(s)	286, 400, 591, 745
BseGI	GGATG	1 cut(s)	537
BseLI	CCNNNNNNNGG	3 cut(s)	322, 414, 746
BseMII	CTCAG	3 cut(s)	101, 836, 980
BseNI	ACTGG	3 cut(s)	316, 771, 790
BseSI	GKGCMC	1 cut(s)	592
BseX3I	CGGCCG	1 cut(s)	594
BseXI	GCAGC	1 cut(s)	819
Bsh1285I	CGRYCG	1 cut(s)	597
BshFI	GGCC	5 cut(s)	399, 418, 596, 739, 744
BshNI	GGYRCC	1 cut(s)	290
BsiEI	CGRYCG	1 cut(s)	597
BsiHKAI	GWGCWC	1 cut(s)	23
BsiHKCI	CYCGRG	1 cut(s)	22
BsiSI	CCGG	3 cut(s)	593, 672, 1124
BslFI	GGGAC	3 cut(s)	279, 400, 837
BslI	CCNNNNNNNGG	3 cut(s)	322, 414, 746
BsmFI	GGGAC	3 cut(s)	279, 400, 837
BsmI	GAATGC	1 cut(s)	1150
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	4 cut(s)	282, 342, 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	3 cut(s)	100, 835, 979
BspLI	GGNNCC	3 cut(s)	267, 292, 406
BspMAI	CTGCAG	1 cut(s)	1194
BspMI	ACCTGC	1 cut(s)	542
BspPI	GGATC	2 cut(s)	277, 350
BspT107I	GGYRCC	1 cut(s)	290
BsrFI	RCCGGY	1 cut(s)	1123
BsrI	ACTGG	3 cut(s)	316, 771, 790
BssAI	RCCGGY	1 cut(s)	1123
BssECI	CCNNGG	4 cut(s)	286, 400, 591, 745
BssMI	GATC	4 cut(s)	282, 342, 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	2 cut(s)	415, 842
BstAPI	GCANNNNNTGC	1 cut(s)	461
BstC8I	GCNNGC	4 cut(s)	181, 462, 737, 1190
BstDEI	CTNAG	4 cut(s)	87, 367, 822, 966
BstDSI	CCRYGG	1 cut(s)	745
BstF5I	GGATG	1 cut(s)	537
BstHHI	GCGC	1 cut(s)	947
BstKTI	GATC	4 cut(s)	285, 345, 501, 934
BstMBI	GATC	4 cut(s)	282, 342, 498, 931
BstMCI	CGRYCG	1 cut(s)	597
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)	1190
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
BstZI	CGGCCG	1 cut(s)	594
BsuRI	GGCC	5 cut(s)	399, 418, 596, 739, 744
BtgI	CCRYGG	1 cut(s)	745
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	4 cut(s)	181, 462, 737, 1190
CaiI	CAGNNNCTG	1 cut(s)	869
CfoI	GCGC	1 cut(s)	947
Cfr10I	RCCGGY	1 cut(s)	1123
Cfr13I	GGNCC	3 cut(s)	266, 417, 737
CseI	GACGC	2 cut(s)	453, 1122
Csp6I	GTAC	6 cut(s)	291, 313, 319, 819, 1003, 1020
CspCI	CAANNNNNGTGG	2 cut(s)	178, 213
CviAII	CATG	3 cut(s)	28, 168, 746
CviQI	GTAC	6 cut(s)	291, 313, 319, 819, 1003, 1020
DdeI	CTNAG	4 cut(s)	87, 367, 822, 966
DpnI	GATC	4 cut(s)	284, 344, 500, 933
DpnII	GATC	4 cut(s)	282, 342, 498, 931
DriI	GACNNNNNGTC	1 cut(s)	849
EaeI	YGGCCR	3 cut(s)	397, 594, 742
EagI	CGGCCG	1 cut(s)	594
Eam1104I	CTCTTC	2 cut(s)	415, 842
Eam1105I	GACNNNNNGTC	1 cut(s)	849
EarI	CTCTTC	2 cut(s)	415, 842
Ecl136II	GAGCTC	1 cut(s)	21
EclXI	CGGCCG	1 cut(s)	594
Eco130I	CCWWGG	2 cut(s)	400, 745
Eco24I	GRGCYC	1 cut(s)	23
Eco47I	GGWCC	1 cut(s)	266
Eco52I	CGGCCG	1 cut(s)	594
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	3 cut(s)	593, 672, 1124
HgaI	GACGC	2 cut(s)	453, 1122
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	7 cut(s)	172, 618, 656, 701, 837, 850, 982
HpaII	CCGG	3 cut(s)	593, 672, 1124
HphI	GGTGA	1 cut(s)	244
Hpy166II	GTNNAC	3 cut(s)	109, 235, 730
Hpy188I	TCNGA	5 cut(s)	90, 825, 969, 979, 987
Hpy188III	TCNNGA	2 cut(s)	698, 841
Hpy8I	GTNNAC	3 cut(s)	109, 235, 730
Hpy99I	CGWCG	1 cut(s)	1138
HpyAV	CCTTC	2 cut(s)	245, 704
HpyCH4III	ACNGT	3 cut(s)	431, 447, 871
HpyCH4IV	ACGT	4 cut(s)	389, 717, 726, 795
HpyF10VI	GCNNNNNNNGC	2 cut(s)	461, 741
HpyF3I	CTNAG	4 cut(s)	87, 367, 822, 966
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	4 cut(s)	282, 342, 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	3 cut(s)	718, 773, 880
MalI	GATC	4 cut(s)	284, 344, 500, 933
MboI	GATC	4 cut(s)	282, 342, 498, 931
MboII	GAAGA	3 cut(s)	340, 402, 859
MflI	RGATCY	1 cut(s)	282
MhlI	GDGCHC	2 cut(s)	23, 592
MlsI	TGGCCA	2 cut(s)	399, 744
MluCI	AATT	5 cut(s)	372, 750, 802, 1035, 1105
MluNI	TGGCCA	2 cut(s)	399, 744
MlyI	GAGTC	1 cut(s)	859
MnlI	CCTC	8 cut(s)	188, 377, 418, 465, 865, 975, 1083, 1106
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, 1198
MslI	CAYNNNNRTG	1 cut(s)	899
Msp20I	TGGCCA	2 cut(s)	399, 744
MspI	CCGG	3 cut(s)	593, 672, 1124
MspR9I	CCNGG	4 cut(s)	287, 593, 741, 864
Mva1269I	GAATGC	1 cut(s)	1150
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	4 cut(s)	282, 342, 498, 931
NlaIII	CATG	3 cut(s)	31, 171, 749
NlaIV	GGNNCC	3 cut(s)	267, 292, 406
NsiI	ATGCAT	1 cut(s)	169
PaeR7I	CTCGAG	1 cut(s)	22
PcsI	WCGNNNNNNNCGW	1 cut(s)	723
PctI	GAATGC	1 cut(s)	1150
PdmI	GAANNNNTTC	2 cut(s)	98, 766
PfeI	GAWTC	6 cut(s)	172, 618, 656, 701, 837, 982
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
PstI	CTGCAG	1 cut(s)	1194
PstNI	CAGNNNCTG	1 cut(s)	869
PsuI	RGATCY	1 cut(s)	282
RsaI	GTAC	6 cut(s)	292, 314, 320, 820, 1004, 1021
RsaNI	GTAC	6 cut(s)	291, 313, 319, 819, 1003, 1020
RseI	CAYNNNNRTG	1 cut(s)	899
SacI	GAGCTC	1 cut(s)	23
SaqAI	TTAA	5 cut(s)	36, 558, 579, 714, 1198
SatI	GCNGC	1 cut(s)	808
Sau3AI	GATC	4 cut(s)	282, 342, 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)	1190
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	5 cut(s)	372, 750, 802, 1035, 1105
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	4 cut(s)	23, 393, 501, 1083
TaqII	GACCGA	1 cut(s)	283
TasI	AATT	5 cut(s)	372, 750, 802, 1035, 1105
TatI	WGTACW	2 cut(s)	318, 1002
TfiI	GAWTC	6 cut(s)	172, 618, 656, 701, 837, 982
Tru1I	TTAA	5 cut(s)	36, 558, 579, 714, 1198
Tru9I	TTAA	5 cut(s)	36, 558, 579, 714, 1198
TscAI	CASTG	3 cut(s)	452, 462, 737
TseI	GCWGC	1 cut(s)	807
TspDTI	ATGAA	1 cut(s)	107
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.