Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0005510

Physical Location & Seq

Genomic Coordinates Forward (+)

263461 .. 267381

Gene Structure 3921 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG002700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1224 bp

ATGGTGGTTTTCGAAATTTTATTTGCGACACCGGAGAGTAGTCAAGTAAGCGCGGAAGTCAACACCAACGAAAGAGAATGGGCGATGCAAGATTTCTATACATTGAGAAGGGAGGTAGAAATTGCGGCAGGACGTGTTGAAGAGATAAGAGCTTCCGCTTGTCTGGAACAGTTGGAAAAAGAAGTTGCCGAGTTGGAATCCGAAGCAGCTGATAGCTCCTTTTGGGATGATCGAGCTAAGGCTCAAGAGAACCTTTTGGCCCTCACTGATGTCAAAGACAGAATAAAATCGCTTACTCACTTCAAGACACAGGTTGAAGATGCAGAAACAATAGTCAAGCTAACTGAAGAGATGGACTCCACAGATAATGCACTTCTTGAAGAGGCTGCCAGTATCATCAAGGAATTGAACAAGGGAATGGATCGGTTTGAGTTAACTCAACTTCTTTCAGGGCCTTATGACAAAGAAGGTGCTGTTATTTCTGTTACAGCCGGTGCTGGAGGCACTGACGCACAGGATTGGGCTGAAATGTTACTCAGGATGTATATGAGGTGGGGAGAAAAGCAGAGATACAAAACTCGAGTGGTTGAGAGATCCCCAGGAGAGGAAGCTGGAATTAAGTCGGCGACACTCGAAGTTGAAGGTCGTTATGCTTATGGTTATTTGTCTGGGGAGAAAGGCACACACCGCATTGTACGACAGTCTCCTTTTAATGCCAAAGGACTTCGCCAGACAAGCTTCTCTGGTGTGGAAGTGATGCCTCTCCTACCTGAGGAATCACTGAAAGTTGAAATACCTGAAGAAGACCTGGAGATAACCACTTCAAGGGCAGGTGGGAAAGGAGGTCAGAATGTGAATAAAATTGAAAGTGCTGTCCGGATTACTCATATCCCCACTGGTGTTACCGTTCGCTGCACAGAAGAGAGATCCCAGCTTGCAAACAGAATAAAGGCTCTAAGCAGGTTGAAAGCGAAGCTGTTGGTGATAGCTGAGGAGCAACGAGCATCGGAAATTAAGCAAATACGAGGAGATGCAGTGAAGGCAGAGTGGGGGCAACAAATAAGGAACTATGTGTTCCATCCGTACAAACTCGTCAAGGATGTAAGGACAGGATATGAGACATCTGATATCACTTCTGTGATGGACGGTGATTTGGAGCCTTACATCAAAGCCTACCTCAAACATAAATACAGTATGAAAATCAGTGCATCAAGTAAAGCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006396 GO:0006412 GO:0006415 GO:0006518 GO:0006725 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009657 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0019538 GO:0022411 GO:0032984 GO:0034641 GO:0034645 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043603 GO:0043604 GO:0043624 GO:0043933 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0071704 GO:0071840 GO:0090304 GO:1901360 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PCRF RF-1

Protein Analysis

407

Amino Acids

45.69

Weight (kDa)

5.25

Isoelectric Point (pI)

43.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PCRF	PF03462	58 - 250	1.7e-51	PCRF domain
RF-1	PF00472	261 - 369	2.2e-36	RF-1 domain

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: OG0005510)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G36170 AT5G36170 AT5G36170 AT5G36170
fragaria_vesca	FvH4_6g00190 FvH4_6g00190 FvH4_6g00190 FvH4_6g00190 FvH4_6g00190 FvH4_6g00190 FvH4_6g00190
malus_domestica	MD04G1247400.v1.1 MD12G1263000.v1.1
prunus_persica	Prupe.6G363800_v2.0.a1 Prupe.6G363800_v2.0.a1
pyrus_communis	pycom04g21810
rosa_chinensis	RchiOBHm_Chr3g0447561
rosa_laevigata	RLG00000025989
rosa_multiflora	Rmu_co8330713.1_g000001 Rmu_co8444065.1_g000001 Rmu_sc0031754.1_g000001 Rmu_sc0037294.1_g000002
rosa_roxburghii	Rroxscaffold_6G00425770
rosa_rugosa	Rorug02G0602900
rosa_samantha	Rh3AG003200 Rh3BG002700 Rh3CG003000 Rh3DG003000
rosa_wichuraiana	Rw3G000210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	821
Acc36I	ACCTGC	2 cut(s)	821, 951
AccII	CGCG	1 cut(s)	53
AccIII	TCCGGA	1 cut(s)	876
AciI	CCGC	4 cut(s)	53, 125, 156, 688
AclWI	GGATC	3 cut(s)	429, 588, 921
AcsI	RAATTY	1 cut(s)	15
AcuI	CTGAAG	2 cut(s)	366, 819
AfaI	GTAC	2 cut(s)	696, 1085
AfiI	CCNNNNNNNGG	3 cut(s)	604, 772, 825
AflIII	ACRYGT	1 cut(s)	133
AjiI	CACGTC	1 cut(s)	134
AjnI	CCWGG	2 cut(s)	598, 807
AleI	CACNNNNGTG	1 cut(s)	1136
Alw26I	GTCTC	2 cut(s)	708, 1112
AlwI	GGATC	3 cut(s)	429, 588, 921
Ama87I	CYCGRG	1 cut(s)	579
Aor13HI	TCCGGA	1 cut(s)	876
AoxI	GGCC	2 cut(s)	258, 452
ApeKI	GCWGC	3 cut(s)	206, 386, 912
ApoI	RAATTY	1 cut(s)	15
AspLEI	GCGC	1 cut(s)	53
AspS9I	GGNCC	2 cut(s)	259, 452
AsuHPI	GGTGA	2 cut(s)	994, 1160
AsuII	TTCGAA	1 cut(s)	12
AvaI	CYCGRG	1 cut(s)	579
AxyI	CCTNAGG	1 cut(s)	771
BbsI	GAAGAC	1 cut(s)	810
BbvCI	CCTCAGC	1 cut(s)	990
BbvI	GCAGC	3 cut(s)	218, 373, 899
BccI	CCATC	3 cut(s)	346, 1086, 1135
BciT130I	CCWGG	2 cut(s)	600, 809
BcoDI	GTCTC	2 cut(s)	708, 1112
BfaI	CTAG	1 cut(s)	1222
BfuAI	ACCTGC	2 cut(s)	821, 951
BisI	GCNGC	4 cut(s)	126, 207, 387, 913
BlsI	GCNGC	4 cut(s)	127, 208, 388, 914
Bme1390I	CCNGG	2 cut(s)	600, 809
BmeT110I	CYCGRG	1 cut(s)	579
BmgBI	CACGTC	1 cut(s)	134
BmgT120I	GGNCC	2 cut(s)	259, 452
BmiI	GGNNCC	1 cut(s)	1158
BmrFI	CCNGG	2 cut(s)	600, 809
BmsI	GCATC	6 cut(s)	75, 310, 747, 1013, 1021, 1217
BpiI	GAAGAC	1 cut(s)	810
BplI	GAGNNNNNCTC	2 cut(s)	341, 373
BpmI	CTGGAG	2 cut(s)	519, 830
Bpu10I	CCTNAGC	2 cut(s)	237, 990
Bpu14I	TTCGAA	1 cut(s)	12
BpuEI	CTTGAG	1 cut(s)	228
BsaJI	CCNNGG	1 cut(s)	598
BsaWI	WCCGGW	2 cut(s)	31, 876
BsaXI	ACNNNNNCTCC	2 cut(s)	1020, 1050
Bsc4I	CCNNNNNNNGG	3 cut(s)	604, 772, 825
Bse118I	RCCGGY	1 cut(s)	491
Bse1I	ACTGG	2 cut(s)	390, 901
Bse21I	CCTNAGG	1 cut(s)	771
BseAI	TCCGGA	1 cut(s)	876
BseBI	CCWGG	2 cut(s)	600, 809
BseDI	CCNNGG	1 cut(s)	598
BseGI	GGATG	4 cut(s)	232, 546, 1078, 1105
BseLI	CCNNNNNNNGG	3 cut(s)	604, 772, 825
BseMII	CTCAG	3 cut(s)	550, 762, 981
BseNI	ACTGG	2 cut(s)	390, 901
BseRI	GAGGAG	2 cut(s)	1007, 1041
BseXI	GCAGC	3 cut(s)	218, 373, 899
BseYI	CCCAGC	1 cut(s)	930
BsgI	GTGCAG	1 cut(s)	898
Bsh1236I	CGCG	1 cut(s)	53
BshFI	GGCC	2 cut(s)	260, 454
BsiHKCI	CYCGRG	1 cut(s)	579
BsiSI	CCGG	3 cut(s)	32, 492, 877
BslI	CCNNNNNNNGG	3 cut(s)	604, 772, 825
BsmAI	GTCTC	2 cut(s)	708, 1112
BsnI	GGCC	2 cut(s)	260, 454
BsoBI	CYCGRG	1 cut(s)	579
Bsp119I	TTCGAA	1 cut(s)	12
Bsp13I	TCCGGA	1 cut(s)	876
Bsp143I	GATC	4 cut(s)	229, 421, 593, 926
BspACI	CCGC	4 cut(s)	53, 125, 156, 688
BspANI	GGCC	2 cut(s)	260, 454
BspCNI	CTCAG	3 cut(s)	549, 763, 982
BspEI	TCCGGA	1 cut(s)	876
BspFNI	CGCG	1 cut(s)	53
BspLI	GGNNCC	1 cut(s)	1158
BspMI	ACCTGC	2 cut(s)	821, 951
BspPI	GGATC	3 cut(s)	429, 588, 921
BspT104I	TTCGAA	1 cut(s)	12
BsrFI	RCCGGY	1 cut(s)	491
BsrI	ACTGG	2 cut(s)	390, 901
BssAI	RCCGGY	1 cut(s)	491
BssECI	CCNNGG	1 cut(s)	598
BssMI	GATC	4 cut(s)	229, 421, 593, 926
Bst2UI	CCWGG	2 cut(s)	600, 809
Bst4CI	ACNGT	5 cut(s)	171, 702, 907, 1148, 1193
Bst6I	CTCTTC	4 cut(s)	135, 342, 375, 915
BstBI	TTCGAA	1 cut(s)	12
BstC8I	GCNNGC	1 cut(s)	936
BstDEI	CTNAG	5 cut(s)	237, 536, 771, 956, 990
BstENI	CCTNNNNNAGG	1 cut(s)	770
BstF5I	GGATG	4 cut(s)	232, 546, 1078, 1105
BstFNI	CGCG	1 cut(s)	53
BstHHI	GCGC	1 cut(s)	53
BstKTI	GATC	4 cut(s)	232, 424, 596, 929
BstMAI	GTCTC	2 cut(s)	708, 1112
BstMBI	GATC	4 cut(s)	229, 421, 593, 926
BstMWI	GCNNNNNNNGC	3 cut(s)	687, 735, 1040
BstNI	CCWGG	2 cut(s)	600, 809
BstSCI	CCNGG	2 cut(s)	598, 807
BstUI	CGCG	1 cut(s)	53
BstV1I	GCAGC	3 cut(s)	218, 373, 899
BstV2I	GAAGAC	1 cut(s)	810
BstX2I	RGATCY	2 cut(s)	593, 926
BstYI	RGATCY	2 cut(s)	593, 926
Bsu36I	CCTNAGG	1 cut(s)	771
BsuRI	GGCC	2 cut(s)	260, 454
BtgZI	GCGATG	1 cut(s)	98
BtrI	CACGTC	1 cut(s)	134
BtsCI	GGATG	4 cut(s)	232, 546, 1078, 1105
BtsI	GCAGTG	1 cut(s)	1041
BtsIMutI	CAGTG	6 cut(s)	264, 504, 779, 894, 1041, 1210
BveI	ACCTGC	2 cut(s)	821, 951
Cac8I	GCNNGC	1 cut(s)	936
CfoI	GCGC	1 cut(s)	53
Cfr10I	RCCGGY	1 cut(s)	491
Cfr13I	GGNCC	2 cut(s)	259, 452
CseI	GACGC	1 cut(s)	518
Csp6I	GTAC	2 cut(s)	695, 1084
CviQI	GTAC	2 cut(s)	695, 1084
DdeI	CTNAG	5 cut(s)	237, 536, 771, 956, 990
DpnI	GATC	4 cut(s)	231, 423, 595, 928
DpnII	GATC	4 cut(s)	229, 421, 593, 926
Eam1104I	CTCTTC	4 cut(s)	135, 342, 375, 915
EarI	CTCTTC	4 cut(s)	135, 342, 375, 915
Eco32I	GATATC	1 cut(s)	1129
Eco57I	CTGAAG	2 cut(s)	366, 819
Eco81I	CCTNAGG	1 cut(s)	771
Eco88I	CYCGRG	1 cut(s)	579
EcoNI	CCTNNNNNAGG	1 cut(s)	770
EcoO109I	RGGNCCY	1 cut(s)	452
EcoRII	CCWGG	2 cut(s)	598, 807
EcoRV	GATATC	1 cut(s)	1129
FalI	AAGNNNNNCTT	2 cut(s)	237, 269
Fnu4HI	GCNGC	4 cut(s)	126, 207, 387, 913
FokI	GGATG	4 cut(s)	239, 553, 1065, 1112
Fsp4HI	GCNGC	4 cut(s)	126, 207, 387, 913
FspBI	CTAG	1 cut(s)	1222
GlaI	GCGC	1 cut(s)	52
GluI	GCNGC	4 cut(s)	126, 207, 387, 913
GsaI	CCCAGC	1 cut(s)	934
GsuI	CTGGAG	2 cut(s)	519, 830
HaeIII	GGCC	2 cut(s)	260, 454
HapII	CCGG	3 cut(s)	32, 492, 877
HgaI	GACGC	1 cut(s)	518
HhaI	GCGC	1 cut(s)	53
Hin6I	GCGC	1 cut(s)	51
HinP1I	GCGC	1 cut(s)	51
HincII	GTYRAC	2 cut(s)	61, 435
HindII	GTYRAC	2 cut(s)	61, 435
HindIII	AAGCTT	1 cut(s)	736
HinfI	GANTC	3 cut(s)	197, 356, 776
HpaI	GTTAAC	1 cut(s)	435
HpaII	CCGG	3 cut(s)	32, 492, 877
HphI	GGTGA	2 cut(s)	994, 1160
Hpy166II	GTNNAC	2 cut(s)	61, 435
Hpy188I	TCNGA	4 cut(s)	202, 849, 1009, 1126
Hpy188III	TCNNGA	6 cut(s)	164, 245, 304, 377, 538, 877
Hpy8I	GTNNAC	2 cut(s)	61, 435
HpyAV	CCTTC	4 cut(s)	102, 461, 635, 1033
HpyCH4III	ACNGT	5 cut(s)	171, 702, 907, 1148, 1193
HpyCH4IV	ACGT	1 cut(s)	133
HpyCH4V	TGCA	7 cut(s)	88, 323, 371, 915, 938, 1034, 1208
HpyF10VI	GCNNNNNNNGC	3 cut(s)	687, 735, 1040
HpyF3I	CTNAG	5 cut(s)	237, 536, 771, 956, 990
HpySE526I	ACGT	1 cut(s)	133
HspAI	GCGC	1 cut(s)	51
Kpn2I	TCCGGA	1 cut(s)	876
KspAI	GTTAAC	1 cut(s)	435
Kzo9I	GATC	4 cut(s)	229, 421, 593, 926
LmnI	GCTCC	3 cut(s)	221, 994, 1156
Lsp1109I	GCAGC	3 cut(s)	218, 373, 899
LweI	GCATC	6 cut(s)	75, 310, 747, 1013, 1021, 1217
MaeI	CTAG	1 cut(s)	1222
MaeII	ACGT	1 cut(s)	133
MaeIII	GTNAC	3 cut(s)	484, 531, 901
MalI	GATC	4 cut(s)	231, 423, 595, 928
MboI	GATC	4 cut(s)	229, 421, 593, 926
MboII	GAAGA	7 cut(s)	152, 329, 359, 392, 812, 815, 932
MflI	RGATCY	2 cut(s)	593, 926
MluCI	AATT	6 cut(s)	15, 120, 404, 615, 861, 1011
MlyI	GAGTC	1 cut(s)	350
MmeI	TCCRAC	2 cut(s)	153, 174
MroI	TCCGGA	1 cut(s)	876
MseI	TTAA	4 cut(s)	434, 618, 711, 1014
MslI	CAYNNNNRTG	1 cut(s)	1136
MspA1I	CMGCKG	1 cut(s)	209
MspI	CCGG	3 cut(s)	32, 492, 877
MspR9I	CCNGG	2 cut(s)	600, 809
MvaI	CCWGG	2 cut(s)	600, 809
MvnI	CGCG	1 cut(s)	53
MwoI	GCNNNNNNNGC	3 cut(s)	687, 735, 1040
NdeII	GATC	4 cut(s)	229, 421, 593, 926
NlaIV	GGNNCC	1 cut(s)	1158
NmeAIII	GCCGAG	1 cut(s)	214
NspV	TTCGAA	1 cut(s)	12
OliI	CACNNNNGTG	1 cut(s)	1136
PaeR7I	CTCGAG	1 cut(s)	579
PaqCI	CACCTGC	1 cut(s)	821
PfeI	GAWTC	2 cut(s)	197, 776
PkrI	GCNGC	4 cut(s)	127, 208, 388, 914
PleI	GAGTC	1 cut(s)	350
PpsI	GAGTC	1 cut(s)	350
Psp6I	CCWGG	2 cut(s)	598, 807
PspFI	CCCAGC	1 cut(s)	930
PspGI	CCWGG	2 cut(s)	598, 807
PspN4I	GGNNCC	1 cut(s)	1158
PspPI	GGNCC	2 cut(s)	259, 452
PspXI	VCTCGAGB	1 cut(s)	579
PsuI	RGATCY	2 cut(s)	593, 926
PvuII	CAGCTG	1 cut(s)	209
RsaI	GTAC	2 cut(s)	696, 1085
RsaNI	GTAC	2 cut(s)	695, 1084
RseI	CAYNNNNRTG	1 cut(s)	1136
SaqAI	TTAA	4 cut(s)	434, 618, 711, 1014
SatI	GCNGC	4 cut(s)	126, 207, 387, 913
Sau3AI	GATC	4 cut(s)	229, 421, 593, 926
Sau96I	GGNCC	2 cut(s)	259, 452
SchI	GAGTC	1 cut(s)	350
ScrFI	CCNGG	2 cut(s)	600, 809
SfaNI	GCATC	6 cut(s)	75, 310, 747, 1013, 1021, 1217
Sfr274I	CTCGAG	1 cut(s)	579
SfuI	TTCGAA	1 cut(s)	12
SlaI	CTCGAG	1 cut(s)	579
SmiMI	CAYNNNNRTG	1 cut(s)	1136
SmlI	CTYRAG	2 cut(s)	243, 579
SmoI	CTYRAG	2 cut(s)	243, 579
Sse9I	AATT	6 cut(s)	15, 120, 404, 615, 861, 1011
SsiI	CCGC	4 cut(s)	53, 125, 156, 688
SspMI	CTAG	1 cut(s)	1222
StyD4I	CCNGG	2 cut(s)	598, 807
TaaI	ACNGT	5 cut(s)	171, 702, 907, 1148, 1193
TaiI	ACGT	1 cut(s)	136
TaqI	TCGA	4 cut(s)	12, 232, 580, 633
TasI	AATT	6 cut(s)	15, 120, 404, 615, 861, 1011
TauI	GCSGC	1 cut(s)	128
TfiI	GAWTC	2 cut(s)	197, 776
Tru1I	TTAA	4 cut(s)	434, 618, 711, 1014
Tru9I	TTAA	4 cut(s)	434, 618, 711, 1014
TscAI	CASTG	6 cut(s)	271, 511, 786, 901, 1041, 1210
TseI	GCWGC	3 cut(s)	206, 386, 912
TspDTI	ATGAA	1 cut(s)	1211
TspGWI	ACGGA	1 cut(s)	1071
TspRI	CASTG	6 cut(s)	271, 511, 786, 901, 1041, 1210
XagI	CCTNNNNNAGG	1 cut(s)	770
XapI	RAATTY	1 cut(s)	15
XhoI	CTCGAG	1 cut(s)	579
XspI	CTAG	1 cut(s)	1222

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