Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001485

Physical Location & Seq

Genomic Coordinates Forward (+)

35008453 .. 35009839

Gene Structure 1387 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG322300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1098 bp

ATGGCACCCAAGCGCCCCTCCAATGCAATGAACAATCCCCAGTCGTCATCGGAGGAGGAGGACGAGGAACCGTCGTCGGCGGAATATAAAACAGCCTCTGAATCCGACTCCGAAACGGAGTCCGAGTCCGAGTCCGGCTCCGTCGGGGAGACAGGAGTGGCCAATTTCAAGCCTATTGCTTCCAAGCACGTGGAGAAGGTTACTCCACCGCCCAAGGCCACCAAGCCCTCAGCTAGTCAGGCTAAACCCGGTACCAAGCGGCTCGGCGGCGAGAGTGAGTTGATTAAGGACTCCAAGAAGGCTAAGAAGAAGAAGGGAAATGATGAAGAGGACTTGAAGAAGGCCAAGAAGAAGAAGGGAAATGATGAAGAGGACTTGAAGAAGGCCAAGAAGAGGAAGGGAAATGATGGAGAGGACTTGAAGAAGGCCAAGAAGAAGAAGGGAAATGATGAAGAGGACTTGAAGAAGGCCAAGAAGAAGGGGATTGATAAAGAGGACGATGGTGTAGAAGAGGAGTTGGAGAAACCCAAACAGCTGTTCCAGAGGGTTTGGAGCGAGGAAGATGAGATCATTTTGCTTAAAGGCATGAATGAGTACACTATGGAGAAAAGGTTGGACCCTAGTGCAGATGTGAATGCATTTCTTAACTTCATCAAAGGCAAGTTGAAGTTGAATGTTAGCAAGAGCCAGTTACAGGACAAAATTCGCAGAATGAAGAAAAAGTTTGAGAACATTGTGAACAACAAGTACAAACCGACCAATCCTCATGAATGGGCGGCTTTCGAGTTGTCGAAGAATGTGTGGGGAGATGGTGAAGATCTAGATGGGAAGGTGGAACAGCTCAAGTCTAATGGGAATTCTCAGAATATGTTGAGGGAGGTTCTTTGGTTTGATAACGGTTTCAAAGAGCTTCGGTTGTCTGAAACTATTGTGAACCAAGGTCTGGAGTGGATTGAGGAATCAAACTGTGCTGAACTGCTAAAGGATAGGTGGAACAAGCTGCATGTTGCTGAATTGGAGCATTTTGTTATGAAGGCTGAGCTTATGAGAGATCAGGCCAAGTTGATATTGGAGGCCCTTAAGTCATCAAATCATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001067 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0005737 GO:0005829 GO:0006082 GO:0006355 GO:0006790 GO:0006807 GO:0008150 GO:0008152 GO:0009507 GO:0009536 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0016143 GO:0016592 GO:0019219 GO:0019222 GO:0019748 GO:0019757 GO:0019760 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032991 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043436 GO:0043565 GO:0044212 GO:0044237 GO:0044281 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0070013 GO:0071704 GO:0080090 GO:0097159 GO:1901135 GO:1901363 GO:1901564 GO:1901657 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF573

Protein Analysis

365

Amino Acids

41.41

Weight (kDa)

7.64

Isoelectric Point (pI)

42.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GeBP-like_DBD	PF04504	180 - 269	2.7e-27	Glabrous-enhancer-binding protein-like family, DBD 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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001485)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11510 AT1G11510 AT1G44810 AT1G55950 AT1G61730 AT1G66420 AT2G01370 AT2G20805 AT2G25650 AT2G36340 AT3G07710 AT4G00232 AT4G00238 AT4G00250 AT4G00270 AT4G00390 AT4G00610 AT5G14280 AT5G41530 AT5G41765
fragaria_vesca	FvH4_1g25320 FvH4_3g02930 FvH4_5g33230
malus_domestica	MD05G1335900.v1.1
prunus_persica	Prupe.3G046700_v2.0.a1 Prupe.4G029400_v2.0.a1 Prupe.7G003400_v2.0.a1
pyrus_communis	pycom05g30730 pycom10g26270
rosa_chinensis	RchiOBHm_Chr5g0004541
rosa_laevigata	RLG00000022926 RLG00000031238
rosa_multiflora	Rmu_co8441915.1_g000001 Rmu_sc0000265.1_g000017 Rmu_sc0001208.1_g000073 Rmu_sc0002354.1_g000016
rosa_roxburghii	Rroxscaffold_1G00016900 Rroxscaffold_1G00070990 Rroxscaffold_6G00393920
rosa_rugosa	Rorug04G0412200
rosa_samantha	Rh3BG326200 Rh3CG323900 Rh3DG322300 Rh5AG040100 Rh5BG039500 Rh5CG043300 Rh5DG039000 Rh6CG160000
rosa_wichuraiana	Rw1G006950 Rw3G025620 Rw5G003850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	251
AccB1I	GGYRCC	2 cut(s)	4, 251
AccB7I	CCANNNNNTGG	1 cut(s)	943
AciI	CCGC	5 cut(s)	80, 209, 259, 267, 776
AcoI	YGGCCR	1 cut(s)	159
AcsI	RAATTY	2 cut(s)	702, 856
AcvI	CACGTG	1 cut(s)	190
AfaI	GTAC	3 cut(s)	253, 596, 749
AfiI	CCNNNNNNNGG	3 cut(s)	393, 694, 943
AflII	CTTAAG	1 cut(s)	1079
AgsI	TTSAA	8 cut(s)	169, 337, 379, 421, 463, 667, 673, 904
AjuI	GAANNNNNNNTTGG	2 cut(s)	521, 553
AluBI	AGCT	6 cut(s)	233, 535, 841, 910, 1000, 1042
AluI	AGCT	6 cut(s)	233, 535, 841, 910, 1000, 1042
Alw26I	GTCTC	1 cut(s)	143
AlwNI	CAGNNNCTG	1 cut(s)	98
AoxI	GGCC	8 cut(s)	159, 216, 342, 384, 426, 468, 1056, 1074
ApeKI	GCWGC	1 cut(s)	1000
ApoI	RAATTY	2 cut(s)	702, 856
Asp718I	GGTACC	1 cut(s)	251
AspLEI	GCGC	1 cut(s)	15
AspS9I	GGNCC	2 cut(s)	616, 1075
AsuC2I	CCSGG	1 cut(s)	249
AsuHPI	GGTGA	1 cut(s)	824
AvaII	GGWCC	1 cut(s)	616
BalI	TGGCCA	1 cut(s)	161
BanI	GGYRCC	2 cut(s)	4, 251
BbrPI	CACGTG	1 cut(s)	190
BbvCI	CCTCAGC	1 cut(s)	229
BbvI	GCAGC	1 cut(s)	987
BccI	CCATC	4 cut(s)	401, 494, 803, 818
BcnI	CCSGG	1 cut(s)	249
BcoDI	GTCTC	1 cut(s)	143
BfaI	CTAG	3 cut(s)	234, 621, 821
BfoI	RGCGCY	1 cut(s)	16
BfrI	CTTAAG	1 cut(s)	1079
BglII	AGATCT	1 cut(s)	817
BisI	GCNGC	4 cut(s)	260, 268, 777, 1001
BlpI	GCTNAGC	1 cut(s)	1038
BlsI	GCNGC	4 cut(s)	261, 269, 778, 1002
Bme1390I	CCNGG	1 cut(s)	249
Bme18I	GGWCC	1 cut(s)	616
BmgT120I	GGNCC	2 cut(s)	616, 1075
BmiI	GGNNCC	5 cut(s)	6, 69, 139, 253, 618
BmrFI	CCNGG	1 cut(s)	249
BmrI	ACTGGG	1 cut(s)	34
BmuI	ACTGGG	1 cut(s)	34
BplI	GAGNNNNNCTC	2 cut(s)	122, 154
BpmI	CTGGAG	1 cut(s)	965
Bpu10I	CCTNAGC	1 cut(s)	229
Bpu1102I	GCTNAGC	1 cut(s)	1038
BpuEI	CTTGAG	1 cut(s)	827
BpuMI	CCSGG	1 cut(s)	249
BsaAI	YACGTR	1 cut(s)	190
BsaJI	CCNNGG	2 cut(s)	213, 937
BsaXI	ACNNNNNCTCC	4 cut(s)	110, 140, 596, 626
Bsc4I	CCNNNNNNNGG	3 cut(s)	393, 694, 943
Bse1I	ACTGG	2 cut(s)	40, 688
Bse3DI	GCAATG	1 cut(s)	33
BseDI	CCNNGG	2 cut(s)	213, 937
BseLI	CCNNNNNNNGG	3 cut(s)	393, 694, 943
BseMI	GCAATG	1 cut(s)	33
BseMII	CTCAG	3 cut(s)	243, 875, 1029
BseNI	ACTGG	2 cut(s)	40, 688
BseRI	GAGGAG	3 cut(s)	68, 71, 527
BseXI	GCAGC	1 cut(s)	987
BsgI	GTGCAG	1 cut(s)	645
BshFI	GGCC	8 cut(s)	161, 218, 344, 386, 428, 470, 1058, 1076
BshNI	GGYRCC	2 cut(s)	4, 251
BsiSI	CCGG	2 cut(s)	135, 249
BslI	CCNNNNNNNGG	3 cut(s)	393, 694, 943
BsmAI	GTCTC	1 cut(s)	143
BsmI	GAATGC	1 cut(s)	640
BsnI	GGCC	8 cut(s)	161, 218, 344, 386, 428, 470, 1058, 1076
Bsp143I	GATC	3 cut(s)	567, 817, 1051
Bsp1720I	GCTNAGC	1 cut(s)	1038
BspACI	CCGC	5 cut(s)	80, 209, 259, 267, 776
BspANI	GGCC	8 cut(s)	161, 218, 344, 386, 428, 470, 1058, 1076
BspCNI	CTCAG	3 cut(s)	242, 874, 1030
BspHI	TCATGA	1 cut(s)	766
BspLI	GGNNCC	5 cut(s)	6, 69, 139, 253, 618
BspT107I	GGYRCC	2 cut(s)	4, 251
BspTI	CTTAAG	1 cut(s)	1079
BsrDI	GCAATG	1 cut(s)	33
BsrI	ACTGG	2 cut(s)	40, 688
BssECI	CCNNGG	2 cut(s)	213, 937
BssMI	GATC	3 cut(s)	567, 817, 1051
BssT1I	CCWWGG	2 cut(s)	213, 937
Bst4CI	ACNGT	3 cut(s)	72, 899, 968
Bst6I	CTCTTC	5 cut(s)	321, 363, 386, 447, 504
BstAFI	CTTAAG	1 cut(s)	1079
BstBAI	YACGTR	1 cut(s)	190
BstDEI	CTNAG	4 cut(s)	229, 303, 861, 1038
BstH2I	RGCGCY	1 cut(s)	16
BstHHI	GCGC	1 cut(s)	15
BstKTI	GATC	3 cut(s)	570, 820, 1054
BstMAI	GTCTC	1 cut(s)	143
BstMBI	GATC	3 cut(s)	567, 817, 1051
BstMWI	GCNNNNNNNGC	1 cut(s)	239
BstNSI	RCATGY	1 cut(s)	1007
BstSCI	CCNGG	1 cut(s)	247
BstV1I	GCAGC	1 cut(s)	987
BstX2I	RGATCY	1 cut(s)	817
BstXI	CCANNNNNNTGG	1 cut(s)	190
BstYI	RGATCY	1 cut(s)	817
BsuRI	GGCC	8 cut(s)	161, 218, 344, 386, 428, 470, 1058, 1076
CaiI	CAGNNNCTG	1 cut(s)	98
CciI	TCATGA	1 cut(s)	766
CfoI	GCGC	1 cut(s)	15
Cfr13I	GGNCC	2 cut(s)	616, 1075
Csp6I	GTAC	3 cut(s)	252, 595, 748
CviAII	CATG	3 cut(s)	586, 767, 1004
CviQI	GTAC	3 cut(s)	252, 595, 748
DdeI	CTNAG	4 cut(s)	229, 303, 861, 1038
DpnI	GATC	3 cut(s)	569, 819, 1053
DpnII	GATC	3 cut(s)	567, 817, 1051
EaeI	YGGCCR	1 cut(s)	159
Eam1104I	CTCTTC	5 cut(s)	321, 363, 386, 447, 504
EarI	CTCTTC	5 cut(s)	321, 363, 386, 447, 504
EciI	GGCGGA	1 cut(s)	95
Eco130I	CCWWGG	2 cut(s)	213, 937
Eco47I	GGWCC	1 cut(s)	616
Eco72I	CACGTG	1 cut(s)	190
EcoO109I	RGGNCCY	1 cut(s)	1075
EcoRI	GAATTC	1 cut(s)	856
EcoT14I	CCWWGG	2 cut(s)	213, 937
EcoT22I	ATGCAT	1 cut(s)	640
ErhI	CCWWGG	2 cut(s)	213, 937
FaeI	CATG	3 cut(s)	589, 770, 1007
FaiI	YATR	8 cut(s)	87, 587, 602, 768, 869, 1005, 1031, 1046
FatI	CATG	3 cut(s)	585, 766, 1003
Fnu4HI	GCNGC	4 cut(s)	260, 268, 777, 1001
Fsp4HI	GCNGC	4 cut(s)	260, 268, 777, 1001
FspBI	CTAG	3 cut(s)	234, 621, 821
GlaI	GCGC	1 cut(s)	14
GluI	GCNGC	4 cut(s)	260, 268, 777, 1001
GsuI	CTGGAG	1 cut(s)	965
HaeII	RGCGCY	1 cut(s)	16
HaeIII	GGCC	8 cut(s)	161, 218, 344, 386, 428, 470, 1058, 1076
HapII	CCGG	2 cut(s)	135, 249
HhaI	GCGC	1 cut(s)	15
Hin1II	CATG	3 cut(s)	589, 770, 1007
Hin6I	GCGC	1 cut(s)	13
HinP1I	GCGC	1 cut(s)	13
HinfI	GANTC	7 cut(s)	101, 107, 119, 125, 131, 290, 959
HpaII	CCGG	2 cut(s)	135, 249
HphI	GGTGA	1 cut(s)	824
Hpy166II	GTNNAC	3 cut(s)	597, 739, 934
Hpy188I	TCNGA	8 cut(s)	52, 100, 106, 112, 124, 130, 864, 922
Hpy188III	TCNNGA	4 cut(s)	541, 767, 821, 944
Hpy8I	GTNNAC	3 cut(s)	597, 739, 934
Hpy99I	CGWCG	3 cut(s)	76, 79, 146
HpyCH4III	ACNGT	3 cut(s)	72, 899, 968
HpyCH4IV	ACGT	1 cut(s)	189
HpyCH4V	TGCA	4 cut(s)	26, 626, 638, 1003
HpyF10VI	GCNNNNNNNGC	1 cut(s)	239
HpyF3I	CTNAG	4 cut(s)	229, 303, 861, 1038
HpySE526I	ACGT	1 cut(s)	189
Hsp92II	CATG	3 cut(s)	589, 770, 1007
HspAI	GCGC	1 cut(s)	13
KpnI	GGTACC	1 cut(s)	255
Kzo9I	GATC	3 cut(s)	567, 817, 1051
LmnI	GCTCC	3 cut(s)	143, 552, 1018
Lsp1109I	GCAGC	1 cut(s)	987
MaeI	CTAG	3 cut(s)	234, 621, 821
MaeII	ACGT	1 cut(s)	189
MaeIII	GTNAC	2 cut(s)	199, 690
MalI	GATC	3 cut(s)	569, 819, 1053
MboI	GATC	3 cut(s)	567, 817, 1051
MflI	RGATCY	1 cut(s)	817
MlsI	TGGCCA	1 cut(s)	161
MluCI	AATT	4 cut(s)	163, 702, 856, 1013
MluNI	TGGCCA	1 cut(s)	161
MlyI	GAGTC	5 cut(s)	101, 128, 134, 140, 284
MmeI	TCCRAC	3 cut(s)	129, 498, 594
Mox20I	TGGCCA	1 cut(s)	161
Mph1103I	ATGCAT	1 cut(s)	640
MscI	TGGCCA	1 cut(s)	161
MseI	TTAA	4 cut(s)	285, 579, 645, 1080
Msp20I	TGGCCA	1 cut(s)	161
MspA1I	CMGCKG	1 cut(s)	535
MspCI	CTTAAG	1 cut(s)	1079
MspI	CCGG	2 cut(s)	135, 249
MspR9I	CCNGG	1 cut(s)	249
Mva1269I	GAATGC	1 cut(s)	640
MwoI	GCNNNNNNNGC	1 cut(s)	239
NciI	CCSGG	1 cut(s)	249
NdeII	GATC	3 cut(s)	567, 817, 1051
NlaIII	CATG	3 cut(s)	589, 770, 1007
NlaIV	GGNNCC	5 cut(s)	6, 69, 139, 253, 618
NmeAIII	GCCGAG	1 cut(s)	243
NsiI	ATGCAT	1 cut(s)	640
NspI	RCATGY	1 cut(s)	1007
PagI	TCATGA	1 cut(s)	766
PctI	GAATGC	1 cut(s)	640
PfeI	GAWTC	2 cut(s)	101, 959
PflMI	CCANNNNNTGG	1 cut(s)	943
PkrI	GCNGC	4 cut(s)	261, 269, 778, 1002
PleI	GAGTC	5 cut(s)	101, 127, 133, 139, 284
PmaCI	CACGTG	1 cut(s)	190
PmlI	CACGTG	1 cut(s)	190
PpsI	GAGTC	5 cut(s)	101, 127, 133, 139, 284
Ppu21I	YACGTR	1 cut(s)	190
PspCI	CACGTG	1 cut(s)	190
PspN4I	GGNNCC	5 cut(s)	6, 69, 139, 253, 618
PspPI	GGNCC	2 cut(s)	616, 1075
PsrI	GAACNNNNNNTAC	2 cut(s)	731, 763
PstNI	CAGNNNCTG	1 cut(s)	98
PsuI	RGATCY	1 cut(s)	817
PvuII	CAGCTG	1 cut(s)	535
RsaI	GTAC	3 cut(s)	253, 596, 749
RsaNI	GTAC	3 cut(s)	252, 595, 748
SaqAI	TTAA	4 cut(s)	285, 579, 645, 1080
SatI	GCNGC	4 cut(s)	260, 268, 777, 1001
Sau3AI	GATC	3 cut(s)	567, 817, 1051
Sau96I	GGNCC	2 cut(s)	616, 1075
SchI	GAGTC	5 cut(s)	101, 128, 134, 140, 284
ScrFI	CCNGG	1 cut(s)	249
SinI	GGWCC	1 cut(s)	616
SmlI	CTYRAG	2 cut(s)	842, 1079
SmoI	CTYRAG	2 cut(s)	842, 1079
Sse9I	AATT	4 cut(s)	163, 702, 856, 1013
SsiI	CCGC	5 cut(s)	80, 209, 259, 267, 776
SspMI	CTAG	3 cut(s)	234, 621, 821
StyD4I	CCNGG	1 cut(s)	247
StyI	CCWWGG	2 cut(s)	213, 937
TaaI	ACNGT	3 cut(s)	72, 899, 968
TaiI	ACGT	1 cut(s)	192
TaqI	TCGA	2 cut(s)	783, 791
TasI	AATT	4 cut(s)	163, 702, 856, 1013
TatI	WGTACW	2 cut(s)	594, 747
TauI	GCSGC	3 cut(s)	262, 270, 779
TfiI	GAWTC	2 cut(s)	101, 959
Tru1I	TTAA	4 cut(s)	285, 579, 645, 1080
Tru9I	TTAA	4 cut(s)	285, 579, 645, 1080
TseI	GCWGC	1 cut(s)	1000
TspDTI	ATGAA	9 cut(s)	44, 339, 381, 465, 602, 640, 728, 783, 1046
TspGWI	ACGGA	2 cut(s)	130, 131
Van91I	CCANNNNNTGG	1 cut(s)	943
Vha464I	CTTAAG	1 cut(s)	1079
VpaK11BI	GGWCC	1 cut(s)	616
XapI	RAATTY	2 cut(s)	702, 856
XbaI	TCTAGA	1 cut(s)	820
XceI	RCATGY	1 cut(s)	1007
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1066
XspI	CTAG	3 cut(s)	234, 621, 821
Zsp2I	ATGCAT	1 cut(s)	640

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