Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0009066

Physical Location & Seq

Genomic Coordinates Reverse (-)

274433 .. 275967

Gene Structure 1535 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG003200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1188 bp

ATGGCTATCAATCACTGCGCGTGCCTACTACTTATCTCTCTCTTCTTCATGATATCCTTGTTCGGGTTATCGAATGCAGCCACAACTTATAATGTGATGAAATATGGTGCAAAAGCAGATGGGAAAACAGACTCAACCCAAGCATTTGTCAAGACATGGGCAGCAGCGTGCAGCTCTGCTCAGACAGCCACCATGTACGTTCCCAAAGGAAGGTTCTTGCTAAAAGCTGCAGTGTTCAGAGGCCCTTGCAAGAGTAGAATTAACGTTCAGATATACGGAACCCTGATTGCCCCTACTGATTATTGGGCTCTGGGAAACTCCGGCTATTGGATCTTATTCATTAAGGTCAATAGACTTGCAGTTTTCGGTGGTACACTCGACGCCAAGGGAGCCGGCTTTTGGGCTTGCAGGAAATCCGGAAAGAGCTGCCCTGTTGGAGCTAGGTCGATAACGTTCAATTGGGCAAATGACGTTGTGATTAGTGGTTTAGTATCCATCAACAGTCAGCAAACTCATCTTGTGATCAACAGCTGCAACAATGTAGTGGTCAGAAACGTTAAGCTGGTTGCTCCGGATGACAGCCCCAACACTGATGGCATTCATGTGCAGAGCTCAACTGGTGTTACTATCACTGGCGCAACCTTGCAAACCGGAGACGATTGTGTATCAATTGGTCCGGGCACCAAAAACCTCTACATGAGTAACATCAAGTGCGGCCCAGGACATGGCGTAAGCATTGGTAGTCTAGGCAAGGCAGTGAACGAAGCTGGGGTCCAAAATGTGACGTTGACGAATGCAGTTTTCACTGGATCGGACAATGGTGTAAGAATAAAGTCATGGGCCAGGCCCAGCAATAGTTTTGTGACCAACATTCTCTTCCAGAACATCATGATGCGGAACGTTGAGAACCCCATCATCATCGATCAGAACTATTGCCCAAATAACGAAGGTTGCCCTAACCAGAGTTCTGGTGTGAAGATTAGTCGAGTGACATACAAGAATATACAAGGGACGTCGGCAACGGCGGAGGCAGTGACATTTGATTGCAGCCCAAGTAATCCGTGCAGAGGGATTAGATTGCAAGACATCAAGCTTACATACATGAATACGGTAGCCACATCTTCATGCAAGAACATTGGTGGAAGCAGCACCGGAGTACTCATGCCCCAGAGTTGCGTGAGAAGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005576 GO:0005618 GO:0005623 GO:0030312 GO:0044464 GO:0071944

KEGG Pathways

Metabolic & Signaling

ko00040 ko01100 map00040 map01100

Pfam Domains

Protein Families

Glyco_hydro_28

Protein Analysis

395

Amino Acids

42.02

Weight (kDa)

9.3

Isoelectric Point (pI)

36.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	31 - 278	2.4e-10	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	57 - 380	7.4e-91	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: OG0009066)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G43890
fragaria_vesca	FvH4_1g00260 FvH4_7g26550
malus_domestica	MD00G1087800.v1.1 MD15G1143800.v1.1
prunus_persica	Prupe.7G269400_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0084561 RchiOBHm_Chr2g0149621
rosa_laevigata	RLG00000015627 RLG00000020431
rosa_multiflora	Rmu_sc0006867.1_g000032
rosa_roxburghii	Rroxscaffold_2G00097870 Rroxscaffold_2G00155960
rosa_rugosa	Rorug01G0455100 Rorug02G0413500
rosa_samantha	Rh2BG485700 Rh2CG003200 Rh2DG003200
rosa_wichuraiana	Rw2G000280 Rw2G038630 Rw7G041010 Rw7G041030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	90
AatII	GACGTC	1 cut(s)	1016
AccB1I	GGYRCC	1 cut(s)	680
AccB7I	CCANNNNNTGG	1 cut(s)	725
AccII	CGCG	1 cut(s)	20
AccIII	TCCGGA	2 cut(s)	416, 571
AciI	CCGC	3 cut(s)	714, 895, 1025
AclI	AACGTT	4 cut(s)	264, 452, 555, 900
AclWI	GGATC	2 cut(s)	338, 817
AcyI	GRCGYC	2 cut(s)	381, 1013
AfaI	GTAC	3 cut(s)	197, 373, 1158
AfiI	CCNNNNNNNGG	6 cut(s)	63, 210, 327, 399, 725, 1067
AgsI	TTSAA	1 cut(s)	457
AjnI	CCWGG	2 cut(s)	718, 842
AjuI	GAANNNNNNNTTGG	4 cut(s)	197, 229, 860, 892
AluBI	AGCT	9 cut(s)	174, 227, 426, 440, 531, 562, 612, 767, 1093
AluI	AGCT	9 cut(s)	174, 227, 426, 440, 531, 562, 612, 767, 1093
Alw21I	GWGCWC	1 cut(s)	614
Alw26I	GTCTC	1 cut(s)	648
AlwI	GGATC	2 cut(s)	338, 817
Aor13HI	TCCGGA	2 cut(s)	416, 571
AoxI	GGCC	4 cut(s)	241, 715, 840, 845
ApeKI	GCWGC	9 cut(s)	77, 161, 164, 171, 227, 426, 531, 1047, 1146
ArsI	GACNNNNNNTTYG	2 cut(s)	756, 788
AspLEI	GCGC	2 cut(s)	20, 638
AspS9I	GGNCC	6 cut(s)	242, 674, 716, 772, 840, 846
AsuC2I	CCSGG	1 cut(s)	678
AvaII	GGWCC	2 cut(s)	674, 772
BaeGI	GKGCMC	1 cut(s)	683
BanI	GGYRCC	1 cut(s)	680
BanII	GRGCYC	2 cut(s)	310, 614
Bbv12I	GWGCWC	1 cut(s)	614
BbvI	GCAGC	9 cut(s)	89, 173, 176, 183, 214, 413, 518, 1059, 1158
BccI	CCATC	4 cut(s)	113, 503, 587, 920
BceAI	ACGGC	1 cut(s)	1038
BciT130I	CCWGG	2 cut(s)	720, 844
BciVI	GTATCC	1 cut(s)	502
BclI	TGATCA	1 cut(s)	522
BcnI	CCSGG	1 cut(s)	678
BcoDI	GTCTC	1 cut(s)	648
BfaI	CTAG	2 cut(s)	441, 746
BfmI	CTRYAG	1 cut(s)	228
BfuI	GTATCC	1 cut(s)	502
BmcAI	AGTACT	1 cut(s)	1158
Bme1390I	CCNGG	3 cut(s)	678, 720, 844
Bme18I	GGWCC	2 cut(s)	674, 772
BmgT120I	GGNCC	6 cut(s)	242, 674, 716, 772, 840, 846
BmiI	GGNNCC	4 cut(s)	280, 391, 682, 773
BmrFI	CCNGG	3 cut(s)	678, 720, 844
BmsI	GCATC	1 cut(s)	882
BpuMI	CCSGG	1 cut(s)	678
Bsa29I	ATCGAT	1 cut(s)	921
BsaHI	GRCGYC	2 cut(s)	381, 1013
BsaJI	CCNNGG	2 cut(s)	384, 718
BsaWI	WCCGGW	4 cut(s)	416, 571, 650, 1151
Bsc4I	CCNNNNNNNGG	6 cut(s)	63, 210, 327, 399, 725, 1067
Bse118I	RCCGGY	1 cut(s)	392
Bse1I	ACTGG	3 cut(s)	622, 637, 811
BseAI	TCCGGA	2 cut(s)	416, 571
BseBI	CCWGG	2 cut(s)	720, 844
BseCI	ATCGAT	1 cut(s)	921
BseDI	CCNNGG	2 cut(s)	384, 718
BseGI	GGATG	1 cut(s)	580
BseLI	CCNNNNNNNGG	6 cut(s)	63, 210, 327, 399, 725, 1067
BseMII	CTCAG	1 cut(s)	194
BseNI	ACTGG	3 cut(s)	622, 637, 811
BseSI	GKGCMC	1 cut(s)	683
BseXI	GCAGC	9 cut(s)	89, 173, 176, 183, 214, 413, 518, 1059, 1158
BseYI	CCCAGC	2 cut(s)	767, 848
BsgI	GTGCAG	3 cut(s)	190, 626, 1084
Bsh1236I	CGCG	1 cut(s)	20
BshFI	GGCC	4 cut(s)	243, 717, 842, 847
BshNI	GGYRCC	1 cut(s)	680
BshVI	ATCGAT	1 cut(s)	921
BsiHKAI	GWGCWC	1 cut(s)	614
BsiSI	CCGG	7 cut(s)	321, 393, 417, 572, 651, 677, 1152
BslFI	GGGAC	1 cut(s)	1024
BslI	CCNNNNNNNGG	6 cut(s)	63, 210, 327, 399, 725, 1067
BsmAI	GTCTC	1 cut(s)	648
BsmBI	CGTCTC	1 cut(s)	648
BsmFI	GGGAC	1 cut(s)	1024
BsmI	GAATGC	3 cut(s)	79, 597, 799
BsnI	GGCC	4 cut(s)	243, 717, 842, 847
Bsp1286I	GDGCHC	3 cut(s)	310, 614, 683
Bsp13I	TCCGGA	2 cut(s)	416, 571
Bsp143I	GATC	4 cut(s)	330, 522, 809, 922
BspACI	CCGC	3 cut(s)	714, 895, 1025
BspANI	GGCC	4 cut(s)	243, 717, 842, 847
BspCNI	CTCAG	1 cut(s)	193
BspDI	ATCGAT	1 cut(s)	921
BspEI	TCCGGA	2 cut(s)	416, 571
BspFNI	CGCG	1 cut(s)	20
BspHI	TCATGA	2 cut(s)	48, 888
BspLI	GGNNCC	4 cut(s)	280, 391, 682, 773
BspMAI	CTGCAG	1 cut(s)	232
BspPI	GGATC	2 cut(s)	338, 817
BspT107I	GGYRCC	1 cut(s)	680
BsrFI	RCCGGY	1 cut(s)	392
BsrI	ACTGG	3 cut(s)	622, 637, 811
BssAI	RCCGGY	1 cut(s)	392
BssECI	CCNNGG	2 cut(s)	384, 718
BssMI	GATC	4 cut(s)	330, 522, 809, 922
BssNI	GRCGYC	2 cut(s)	381, 1013
BssT1I	CCWWGG	1 cut(s)	384
Bst2UI	CCWGG	2 cut(s)	720, 844
Bst4CI	ACNGT	2 cut(s)	503, 1111
Bst6I	CTCTTC	2 cut(s)	47, 881
BstACI	GRCGYC	2 cut(s)	381, 1013
BstC8I	GCNNGC	4 cut(s)	22, 169, 394, 406
BstDEI	CTNAG	1 cut(s)	180
BstF5I	GGATG	1 cut(s)	580
BstFNI	CGCG	1 cut(s)	20
BstHHI	GCGC	2 cut(s)	20, 638
BstKTI	GATC	4 cut(s)	333, 525, 812, 925
BstMAI	GTCTC	1 cut(s)	648
BstMBI	GATC	4 cut(s)	330, 522, 809, 922
BstMWI	GCNNNNNNNGC	2 cut(s)	185, 389
BstNI	CCWGG	2 cut(s)	720, 844
BstSCI	CCNGG	3 cut(s)	676, 718, 842
BstSFI	CTRYAG	1 cut(s)	228
BstSLI	GKGCMC	1 cut(s)	683
BstUI	CGCG	1 cut(s)	20
BstV1I	GCAGC	9 cut(s)	89, 173, 176, 183, 214, 413, 518, 1059, 1158
BstX2I	RGATCY	1 cut(s)	330
BstXI	CCANNNNNNTGG	1 cut(s)	968
BstYI	RGATCY	1 cut(s)	330
Bsu15I	ATCGAT	1 cut(s)	921
BsuI	GTATCC	1 cut(s)	502
BsuRI	GGCC	4 cut(s)	243, 717, 842, 847
BsuTUI	ATCGAT	1 cut(s)	921
BtsCI	GGATG	1 cut(s)	580
BtsI	GCAGTG	4 cut(s)	13, 237, 762, 1038
BtsIMutI	CAGTG	7 cut(s)	13, 237, 588, 630, 762, 804, 1038
Cac8I	GCNNGC	4 cut(s)	22, 169, 394, 406
CciI	TCATGA	2 cut(s)	48, 888
CfoI	GCGC	2 cut(s)	20, 638
Cfr10I	RCCGGY	1 cut(s)	392
Cfr13I	GGNCC	6 cut(s)	242, 674, 716, 772, 840, 846
ClaI	ATCGAT	1 cut(s)	921
CseI	GACGC	1 cut(s)	389
Csp6I	GTAC	3 cut(s)	196, 372, 1157
CviQI	GTAC	3 cut(s)	196, 372, 1157
DdeI	CTNAG	1 cut(s)	180
DpnI	GATC	4 cut(s)	332, 524, 811, 924
DpnII	GATC	4 cut(s)	330, 522, 809, 922
Eam1104I	CTCTTC	2 cut(s)	47, 881
EarI	CTCTTC	2 cut(s)	47, 881
EciI	GGCGGA	1 cut(s)	1040
Ecl136II	GAGCTC	1 cut(s)	612
Eco130I	CCWWGG	1 cut(s)	384
Eco24I	GRGCYC	2 cut(s)	310, 614
Eco32I	GATATC	1 cut(s)	54
Eco47I	GGWCC	2 cut(s)	674, 772
Eco53kI	GAGCTC	1 cut(s)	612
EcoICRI	GAGCTC	1 cut(s)	612
EcoO109I	RGGNCCY	1 cut(s)	242
EcoRII	CCWGG	2 cut(s)	718, 842
EcoRV	GATATC	1 cut(s)	54
EcoT14I	CCWWGG	1 cut(s)	384
EcoT38I	GRGCYC	2 cut(s)	310, 614
ErhI	CCWWGG	1 cut(s)	384
Esp3I	CGTCTC	1 cut(s)	648
FaqI	GGGAC	1 cut(s)	1024
FbaI	TGATCA	1 cut(s)	522
FokI	GGATG	1 cut(s)	587
FriOI	GRGCYC	2 cut(s)	310, 614
FspBI	CTAG	2 cut(s)	441, 746
GlaI	GCGC	2 cut(s)	19, 637
GsaI	CCCAGC	2 cut(s)	771, 852
HaeIII	GGCC	4 cut(s)	243, 717, 842, 847
HapII	CCGG	7 cut(s)	321, 393, 417, 572, 651, 677, 1152
HgaI	GACGC	1 cut(s)	389
HhaI	GCGC	2 cut(s)	20, 638
Hin1I	GRCGYC	2 cut(s)	381, 1013
Hin6I	GCGC	2 cut(s)	18, 636
HinP1I	GCGC	2 cut(s)	18, 636
HincII	GTYRAC	1 cut(s)	789
HindII	GTYRAC	1 cut(s)	789
HindIII	AAGCTT	1 cut(s)	1091
HinfI	GANTC	1 cut(s)	131
HpaII	CCGG	7 cut(s)	321, 393, 417, 572, 651, 677, 1152
Hpy166II	GTNNAC	3 cut(s)	374, 760, 789
Hpy188I	TCNGA	6 cut(s)	183, 239, 270, 551, 814, 927
Hpy188III	TCNNGA	6 cut(s)	49, 151, 417, 572, 880, 889
Hpy8I	GTNNAC	3 cut(s)	374, 760, 789
Hpy99I	CGWCG	2 cut(s)	383, 1018
HpyAV	CCTTC	2 cut(s)	204, 941
HpyCH4III	ACNGT	2 cut(s)	503, 1111
HpyCH4IV	ACGT	8 cut(s)	198, 264, 452, 471, 555, 785, 900, 1013
HpyF10VI	GCNNNNNNNGC	2 cut(s)	185, 389
HpyF3I	CTNAG	1 cut(s)	180
HpySE526I	ACGT	8 cut(s)	198, 264, 452, 471, 555, 785, 900, 1013
Hsp92I	GRCGYC	2 cut(s)	381, 1013
HspAI	GCGC	2 cut(s)	18, 636
Kpn2I	TCCGGA	2 cut(s)	416, 571
KroI	GCCGGC	1 cut(s)	392
KroNI	GCCGGC	1 cut(s)	394
Ksp22I	TGATCA	1 cut(s)	522
Kzo9I	GATC	4 cut(s)	330, 522, 809, 922
LmnI	GCTCC	3 cut(s)	389, 437, 574
Lsp1109I	GCAGC	9 cut(s)	89, 173, 176, 183, 214, 413, 518, 1059, 1158
LweI	GCATC	1 cut(s)	882
MaeI	CTAG	2 cut(s)	441, 746
MaeII	ACGT	8 cut(s)	198, 264, 452, 471, 555, 785, 900, 1013
MaeIII	GTNAC	6 cut(s)	622, 701, 781, 862, 988, 1033
MalI	GATC	4 cut(s)	332, 524, 811, 924
MboI	GATC	4 cut(s)	330, 522, 809, 922
MboII	GAAGA	5 cut(s)	34, 37, 868, 988, 1113
MfeI	CAATTG	2 cut(s)	457, 669
MflI	RGATCY	1 cut(s)	330
MhlI	GDGCHC	3 cut(s)	310, 614, 683
MluCI	AATT	3 cut(s)	258, 457, 669
MlyI	GAGTC	1 cut(s)	125
MmeI	TCCRAC	1 cut(s)	415
MnlI	CCTC	4 cut(s)	233, 701, 1021, 1061
MroI	TCCGGA	2 cut(s)	416, 571
MroNI	GCCGGC	1 cut(s)	392
MseI	TTAA	3 cut(s)	261, 342, 558
MslI	CAYNNNNRTG	3 cut(s)	602, 890, 1123
MspA1I	CMGCKG	1 cut(s)	531
MspI	CCGG	7 cut(s)	321, 393, 417, 572, 651, 677, 1152
MspR9I	CCNGG	3 cut(s)	678, 720, 844
MunI	CAATTG	2 cut(s)	457, 669
Mva1269I	GAATGC	3 cut(s)	79, 597, 799
MvaI	CCWGG	2 cut(s)	720, 844
MvnI	CGCG	1 cut(s)	20
MwoI	GCNNNNNNNGC	2 cut(s)	185, 389
NaeI	GCCGGC	1 cut(s)	394
NciI	CCSGG	1 cut(s)	678
NdeII	GATC	4 cut(s)	330, 522, 809, 922
NgoMIV	GCCGGC	1 cut(s)	392
NlaIV	GGNNCC	4 cut(s)	280, 391, 682, 773
NmuCI	GTSAC	4 cut(s)	781, 862, 988, 1033
PagI	TCATGA	2 cut(s)	48, 888
PctI	GAATGC	3 cut(s)	79, 597, 799
PdiI	GCCGGC	1 cut(s)	394
PflMI	CCANNNNNTGG	1 cut(s)	725
PleI	GAGTC	1 cut(s)	125
PpsI	GAGTC	1 cut(s)	125
PsiI	TTATAA	1 cut(s)	90
Psp124BI	GAGCTC	1 cut(s)	614
Psp1406I	AACGTT	4 cut(s)	264, 452, 555, 900
Psp6I	CCWGG	2 cut(s)	718, 842
PspFI	CCCAGC	2 cut(s)	767, 848
PspGI	CCWGG	2 cut(s)	718, 842
PspN4I	GGNNCC	4 cut(s)	280, 391, 682, 773
PspPI	GGNCC	6 cut(s)	242, 674, 716, 772, 840, 846
PstI	CTGCAG	1 cut(s)	232
PsuI	RGATCY	1 cut(s)	330
PvuII	CAGCTG	1 cut(s)	531
RsaI	GTAC	3 cut(s)	197, 373, 1158
RsaNI	GTAC	3 cut(s)	196, 372, 1157
RseI	CAYNNNNRTG	3 cut(s)	602, 890, 1123
SacI	GAGCTC	1 cut(s)	614
SaqAI	TTAA	3 cut(s)	261, 342, 558
Sau3AI	GATC	4 cut(s)	330, 522, 809, 922
Sau96I	GGNCC	6 cut(s)	242, 674, 716, 772, 840, 846
ScaI	AGTACT	1 cut(s)	1158
SchI	GAGTC	1 cut(s)	125
ScrFI	CCNGG	3 cut(s)	678, 720, 844
SduI	GDGCHC	3 cut(s)	310, 614, 683
SfaNI	GCATC	1 cut(s)	882
SfcI	CTRYAG	1 cut(s)	228
SinI	GGWCC	2 cut(s)	674, 772
SmiMI	CAYNNNNRTG	3 cut(s)	602, 890, 1123
Sse9I	AATT	3 cut(s)	258, 457, 669
SsiI	CCGC	3 cut(s)	714, 895, 1025
SspMI	CTAG	2 cut(s)	441, 746
SstI	GAGCTC	1 cut(s)	614
StyD4I	CCNGG	3 cut(s)	676, 718, 842
StyI	CCWWGG	1 cut(s)	384
TaaI	ACNGT	2 cut(s)	503, 1111
TaiI	ACGT	8 cut(s)	201, 267, 455, 474, 558, 788, 903, 1016
TaqI	TCGA	5 cut(s)	71, 378, 446, 921, 985
TasI	AATT	3 cut(s)	258, 457, 669
TatI	WGTACW	1 cut(s)	1156
TauI	GCSGC	1 cut(s)	717
Tru1I	TTAA	3 cut(s)	261, 342, 558
Tru9I	TTAA	3 cut(s)	261, 342, 558
TscAI	CASTG	7 cut(s)	20, 237, 595, 637, 762, 811, 1038
TseFI	GTSAC	4 cut(s)	781, 862, 988, 1033
TseI	GCWGC	9 cut(s)	77, 161, 164, 171, 227, 426, 531, 1047, 1146
Tsp45I	GTSAC	4 cut(s)	781, 862, 988, 1033
TspDTI	ATGAA	6 cut(s)	37, 113, 328, 590, 1113, 1118
TspGWI	ACGGA	2 cut(s)	291, 1050
TspRI	CASTG	7 cut(s)	20, 237, 595, 637, 762, 811, 1038
Van91I	CCANNNNNTGG	1 cut(s)	725
VpaK11BI	GGWCC	2 cut(s)	674, 772
XspI	CTAG	2 cut(s)	441, 746
ZraI	GACGTC	1 cut(s)	1014
ZrmI	AGTACT	1 cut(s)	1158

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.