Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0004114

Physical Location & Seq

Genomic Coordinates Reverse (-)

86633342 .. 86634539

Gene Structure 1198 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00149020.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 987 bp

ATGTCTGGCAGTAACCTCATGGACATATGGGACTGTCTATGTAAAAATCTCGAAATAAGGGATGTTACGTTGGAGGATGTTGCCAAGAAAGGGAATGTTGATCTTCGCTTGCTCTGTCGGGTGGCTCACGGAAGATCCTGGTTCGATAGGTGGGGATACAAATTTTGGAGAGGGAGATATGGAGTAGATGAAGTGAAGTATGAGGTTGCCCTATCTTATCTCCGTAACCTTGACATTTATCAGGTTGTTGAAGTGTTTCGCAAGGTGGAGGACCAATATGCTCTAAGAAACATACCATTGCTAGTATACCCCGCAAAAGTTGGACTAGGGAGTGGGGACCAAATAAAGGAGGCGATAACGGTACTGATCAATATACTGGATAAGAGAGGCCCTATAAGAAGGGAGGACCTCAGTGAGGCAGCTAGCTCCGAAGTGAGTCCAAGTGAGCTACTGGACTATGCAATTTCAACAATGAAGAATCTGAAGTGTGGGAAGCACCAAATTGTAGCTTGCAAGGAGAATCCAATCTCAAATGTGATGGAGTATGGACTGGAGACTCTTCCTCTCCTAACAACTGAGCCCCTTGATGTTCACGGTGATGCAGTTTTTGTATATGAAACTGTTGTTCTACAATACCCCGAAGTCGGCAGTGAATATTCAATGGTGAAGTTGTGTGTAGACACCATGTTAAAATACAATTACCTTATGAAGGGAACTGAACCATGTTGCAAAGGCTCTGGTAAAAAGGTGGAGTGCAAGTGTGGCACGTCTAAAGATGATGGAGAAAGATTCTTGCAATGCAACTTGTGTGAGGCCTATGAGCACTTGAAGTGCAGTGGGATGGATAAAACTGACACCGAGGCGTATGTGCATATCTGTGATTGCTGCCTTACAGAACAGAAGGAAAAGCAGCTTGTTGCGGAAGCAAAGGAGAAGAGCAAGGCAGAGCTAGACATTATTGGAGAAGATGAAGTCAGGCAAATCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000212 GO:0000226 GO:0000228 GO:0000280 GO:0000785 GO:0000790 GO:0000791 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003682 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0005719 GO:0006323 GO:0006355 GO:0006996 GO:0007010 GO:0007017 GO:0007049 GO:0007051 GO:0007059 GO:0007060 GO:0007140 GO:0007275 GO:0007276 GO:0008134 GO:0008150 GO:0009555 GO:0009889 GO:0009987 GO:0010032 GO:0010468 GO:0010556 GO:0016043 GO:0019219 GO:0019222 GO:0019953 GO:0022402 GO:0022412 GO:0022414 GO:0030154 GO:0030261 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032504 GO:0033613 GO:0042393 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0044703 GO:0045132 GO:0048229 GO:0048232 GO:0048235 GO:0048285 GO:0048609 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0051276 GO:0051321 GO:0051704 GO:0055046 GO:0060255 GO:0065007 GO:0070013 GO:0070192 GO:0071103 GO:0071840 GO:0080090 GO:0097159 GO:0098813 GO:0140013 GO:1901363 GO:1903046 GO:1903506 GO:1990188 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PHD

Protein Analysis

328

Amino Acids

37.22

Weight (kDa)

5.16

Isoelectric Point (pI)

33.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_plant_repro	PF25874	113 - 186	5.6e-09	Winged helix-turn-helix domain in plant reproductive proteins

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: OG0004114)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G07714 ATMG00550
malus_domestica	MD10G1001200.v1.1
rosa_chinensis	RchiOBHm_Chr2g0092391 RchiOBHm_Chr2g0092501 RchiOBHm_Chr2g0092521 RchiOBHm_Chr2g0134011 RchiOBHm_Chr6g0294291
rosa_laevigata	RLG00000016321
rosa_multiflora	Rmu_co8274023.1_g000001 Rmu_sc0002503.1_g000019 Rmu_sc0004296.1_g000006 Rmu_sc0004296.1_g000007 Rmu_sc0004296.1_g000011 Rmu_sc0004296.1_g000012
rosa_roxburghii	Rroxscaffold_2G00110570 Rroxscaffold_2G00149000 Rroxscaffold_2G00149020
rosa_rugosa	Rorug02G0027300
rosa_samantha	Rh2AG071600 Rh2BG071500 Rh2BG073800 Rh2CG072900 Rh2CG075000 Rh2CG350900 Rh2CG351000 Rh2DG070100 Rh2DG072200 Rh2DG390100 Rh6AG355700 Rh6CG369700
rosa_wichuraiana	Rw2G005990 Rw6G030990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	306, 678
AciI	CCGC	2 cut(s)	312, 920
AclWI	GGATC	1 cut(s)	129
AcsI	RAATTY	1 cut(s)	161
AcuI	CTGAAG	1 cut(s)	503
AfaI	GTAC	1 cut(s)	363
AfiI	CCNNNNNNNGG	5 cut(s)	90, 346, 415, 644, 709
AgsI	TTSAA	4 cut(s)	251, 468, 660, 829
AjiI	CACGTC	1 cut(s)	768
AjnI	CCWGG	1 cut(s)	137
AluBI	AGCT	6 cut(s)	422, 426, 448, 509, 913, 949
AluI	AGCT	6 cut(s)	422, 426, 448, 509, 913, 949
Alw21I	GWGCWC	1 cut(s)	825
Alw26I	GTCTC	1 cut(s)	548
AlwI	GGATC	1 cut(s)	129
AoxI	GGCC	2 cut(s)	388, 813
ApeKI	GCWGC	3 cut(s)	419, 885, 910
ApoI	RAATTY	1 cut(s)	161
Asp700I	GAANNNNTTC	1 cut(s)	255
AspS9I	GGNCC	4 cut(s)	271, 337, 389, 406
AsuHPI	GGTGA	2 cut(s)	608, 676
AsuNHI	GCTAGC	1 cut(s)	422
AvaII	GGWCC	3 cut(s)	271, 337, 406
BanII	GRGCYC	1 cut(s)	582
Bbv12I	GWGCWC	1 cut(s)	825
BbvI	GCAGC	3 cut(s)	431, 872, 922
BccI	CCATC	3 cut(s)	532, 773, 835
BciT130I	CCWGG	1 cut(s)	139
BciVI	GTATCC	1 cut(s)	149
BclI	TGATCA	1 cut(s)	366
BcoDI	GTCTC	1 cut(s)	548
BfaI	CTAG	4 cut(s)	302, 326, 423, 950
BfuI	GTATCC	1 cut(s)	149
BisI	GCNGC	3 cut(s)	420, 886, 911
BlsI	GCNGC	3 cut(s)	421, 887, 912
Bme1390I	CCNGG	1 cut(s)	139
Bme18I	GGWCC	3 cut(s)	271, 337, 406
BmgBI	CACGTC	1 cut(s)	768
BmgT120I	GGNCC	4 cut(s)	271, 337, 389, 406
BmiI	GGNNCC	1 cut(s)	338
BmrFI	CCNGG	1 cut(s)	139
BmsI	GCATC	1 cut(s)	589
BmtI	GCTAGC	1 cut(s)	426
BpmI	CTGGAG	1 cut(s)	572
BsaJI	CCNNGG	1 cut(s)	858
BsaXI	ACNNNNNCTCC	2 cut(s)	743, 773
Bsc4I	CCNNNNNNNGG	5 cut(s)	90, 346, 415, 644, 709
Bse1I	ACTGG	3 cut(s)	381, 456, 555
Bse3DI	GCAATG	2 cut(s)	296, 803
BseBI	CCWGG	1 cut(s)	139
BseDI	CCNNGG	1 cut(s)	858
BseGI	GGATG	3 cut(s)	67, 82, 846
BseLI	CCNNNNNNNGG	5 cut(s)	90, 346, 415, 644, 709
BseMI	GCAATG	2 cut(s)	296, 803
BseMII	CTCAG	2 cut(s)	424, 567
BseNI	ACTGG	3 cut(s)	381, 456, 555
BseXI	GCAGC	3 cut(s)	431, 872, 922
BsgI	GTGCAG	1 cut(s)	853
BshFI	GGCC	2 cut(s)	390, 815
BsiHKAI	GWGCWC	1 cut(s)	825
BslFI	GGGAC	2 cut(s)	44, 350
BslI	CCNNNNNNNGG	5 cut(s)	90, 346, 415, 644, 709
BsmAI	GTCTC	1 cut(s)	548
BsmFI	GGGAC	2 cut(s)	44, 350
BsnI	GGCC	2 cut(s)	390, 815
Bsp1286I	GDGCHC	2 cut(s)	582, 825
Bsp143I	GATC	3 cut(s)	100, 134, 366
BspACI	CCGC	2 cut(s)	312, 920
BspANI	GGCC	2 cut(s)	390, 815
BspCNI	CTCAG	2 cut(s)	423, 568
BspLI	GGNNCC	1 cut(s)	338
BspOI	GCTAGC	1 cut(s)	426
BspPI	GGATC	1 cut(s)	129
BspQI	GCTCTTC	1 cut(s)	929
BsrDI	GCAATG	2 cut(s)	296, 803
BsrI	ACTGG	3 cut(s)	381, 456, 555
BssECI	CCNNGG	1 cut(s)	858
BssMI	GATC	3 cut(s)	100, 134, 366
BssNAI	GTATAC	1 cut(s)	307
Bst1107I	GTATAC	1 cut(s)	307
Bst2UI	CCWGG	1 cut(s)	139
Bst4CI	ACNGT	4 cut(s)	35, 361, 596, 622
Bst6I	CTCTTC	2 cut(s)	564, 929
BstC8I	GCNNGC	3 cut(s)	110, 424, 511
BstDEI	CTNAG	3 cut(s)	284, 410, 576
BstENI	CCTNNNNNAGG	2 cut(s)	413, 707
BstF5I	GGATG	3 cut(s)	67, 82, 846
BstKTI	GATC	3 cut(s)	103, 137, 369
BstMAI	GTCTC	1 cut(s)	548
BstMBI	GATC	3 cut(s)	100, 134, 366
BstMWI	GCNNNNNNNGC	1 cut(s)	762
BstNI	CCWGG	1 cut(s)	139
BstSCI	CCNGG	1 cut(s)	137
BstV1I	GCAGC	3 cut(s)	431, 872, 922
BstX2I	RGATCY	1 cut(s)	134
BstYI	RGATCY	1 cut(s)	134
BstZ17I	GTATAC	1 cut(s)	307
BsuI	GTATCC	1 cut(s)	149
BsuRI	GGCC	2 cut(s)	390, 815
BtrI	CACGTC	1 cut(s)	768
BtsCI	GGATG	3 cut(s)	67, 82, 846
BtsI	GCAGTG	2 cut(s)	655, 841
BtsIMutI	CAGTG	3 cut(s)	418, 655, 841
Cac8I	GCNNGC	3 cut(s)	110, 424, 511
Cfr13I	GGNCC	4 cut(s)	271, 337, 389, 406
Csp6I	GTAC	1 cut(s)	362
CviAII	CATG	3 cut(s)	19, 685, 723
CviQI	GTAC	1 cut(s)	362
DdeI	CTNAG	3 cut(s)	284, 410, 576
DpnI	GATC	3 cut(s)	102, 136, 368
DpnII	GATC	3 cut(s)	100, 134, 366
Eam1104I	CTCTTC	2 cut(s)	564, 929
EarI	CTCTTC	2 cut(s)	564, 929
Eco147I	AGGCCT	1 cut(s)	815
Eco24I	GRGCYC	1 cut(s)	582
Eco47I	GGWCC	3 cut(s)	271, 337, 406
Eco57I	CTGAAG	1 cut(s)	503
EcoNI	CCTNNNNNAGG	2 cut(s)	413, 707
EcoO109I	RGGNCCY	2 cut(s)	389, 406
EcoRII	CCWGG	1 cut(s)	137
EcoT38I	GRGCYC	1 cut(s)	582
FaeI	CATG	3 cut(s)	22, 688, 726
FaqI	GGGAC	2 cut(s)	44, 350
FatI	CATG	3 cut(s)	18, 684, 722
FauI	CCCGC	1 cut(s)	319
FauNDI	CATATG	1 cut(s)	26
FbaI	TGATCA	1 cut(s)	366
FblI	GTMKAC	2 cut(s)	306, 678
Fnu4HI	GCNGC	3 cut(s)	420, 886, 911
FokI	GGATG	3 cut(s)	74, 89, 853
FriOI	GRGCYC	1 cut(s)	582
Fsp4HI	GCNGC	3 cut(s)	420, 886, 911
FspBI	CTAG	4 cut(s)	302, 326, 423, 950
GluI	GCNGC	3 cut(s)	420, 886, 911
GsuI	CTGGAG	1 cut(s)	572
HaeIII	GGCC	2 cut(s)	390, 815
Hin1II	CATG	3 cut(s)	22, 688, 726
HinfI	GANTC	5 cut(s)	436, 478, 520, 556, 789
HphI	GGTGA	2 cut(s)	608, 676
Hpy166II	GTNNAC	3 cut(s)	307, 592, 679
Hpy188I	TCNGA	2 cut(s)	430, 483
Hpy188III	TCNNGA	1 cut(s)	50
Hpy8I	GTNNAC	3 cut(s)	307, 592, 679
HpyAV	CCTTC	3 cut(s)	393, 703, 895
HpyCH4III	ACNGT	4 cut(s)	35, 361, 596, 622
HpyCH4IV	ACGT	2 cut(s)	68, 767
HpyCH4V	TGCA	9 cut(s)	461, 513, 602, 729, 756, 796, 801, 834, 871
HpyF10VI	GCNNNNNNNGC	1 cut(s)	762
HpyF3I	CTNAG	3 cut(s)	284, 410, 576
HpySE526I	ACGT	2 cut(s)	68, 767
Hsp92II	CATG	3 cut(s)	22, 688, 726
Ksp22I	TGATCA	1 cut(s)	366
Kzo9I	GATC	3 cut(s)	100, 134, 366
LguI	GCTCTTC	1 cut(s)	929
LmnI	GCTCC	1 cut(s)	431
LpnPI	CCDG	8 cut(s)	124, 151, 227, 362, 437, 536, 723, 961
Lsp1109I	GCAGC	3 cut(s)	431, 872, 922
LweI	GCATC	1 cut(s)	589
MaeI	CTAG	4 cut(s)	302, 326, 423, 950
MaeII	ACGT	2 cut(s)	68, 767
MaeIII	GTNAC	3 cut(s)	11, 64, 224
MalI	GATC	3 cut(s)	102, 136, 368
MboI	GATC	3 cut(s)	100, 134, 366
MboII	GAAGA	6 cut(s)	95, 144, 487, 551, 946, 977
MflI	RGATCY	1 cut(s)	134
MhlI	GDGCHC	2 cut(s)	582, 825
MluCI	AATT	4 cut(s)	161, 462, 501, 697
MlyI	GAGTC	2 cut(s)	445, 550
MmeI	TCCRAC	2 cut(s)	51, 301
MroXI	GAANNNNTTC	1 cut(s)	255
MseI	TTAA	1 cut(s)	689
MslI	CAYNNNNRTG	2 cut(s)	597, 876
MspR9I	CCNGG	1 cut(s)	139
MvaI	CCWGG	1 cut(s)	139
MwoI	GCNNNNNNNGC	1 cut(s)	762
NdeI	CATATG	1 cut(s)	26
NdeII	GATC	3 cut(s)	100, 134, 366
NheI	GCTAGC	1 cut(s)	422
NlaIII	CATG	3 cut(s)	22, 688, 726
NlaIV	GGNNCC	1 cut(s)	338
PceI	AGGCCT	1 cut(s)	815
PciSI	GCTCTTC	1 cut(s)	929
PdmI	GAANNNNTTC	1 cut(s)	255
PfeI	GAWTC	3 cut(s)	478, 520, 789
PkrI	GCNGC	3 cut(s)	421, 887, 912
PleI	GAGTC	2 cut(s)	444, 550
PpsI	GAGTC	2 cut(s)	444, 550
PpuMI	RGGWCCY	1 cut(s)	406
Psp5II	RGGWCCY	1 cut(s)	406
Psp6I	CCWGG	1 cut(s)	137
PspGI	CCWGG	1 cut(s)	137
PspN4I	GGNNCC	1 cut(s)	338
PspPI	GGNCC	4 cut(s)	271, 337, 389, 406
PspPPI	RGGWCCY	1 cut(s)	406
PsuI	RGATCY	1 cut(s)	134
RsaI	GTAC	1 cut(s)	363
RsaNI	GTAC	1 cut(s)	362
RseI	CAYNNNNRTG	2 cut(s)	597, 876
SapI	GCTCTTC	1 cut(s)	929
SaqAI	TTAA	1 cut(s)	689
SatI	GCNGC	3 cut(s)	420, 886, 911
Sau3AI	GATC	3 cut(s)	100, 134, 366
Sau96I	GGNCC	4 cut(s)	271, 337, 389, 406
SchI	GAGTC	2 cut(s)	445, 550
ScrFI	CCNGG	1 cut(s)	139
SduI	GDGCHC	2 cut(s)	582, 825
SfaNI	GCATC	1 cut(s)	589
SinI	GGWCC	3 cut(s)	271, 337, 406
SmiMI	CAYNNNNRTG	2 cut(s)	597, 876
Sse9I	AATT	4 cut(s)	161, 462, 501, 697
SseBI	AGGCCT	1 cut(s)	815
SsiI	CCGC	2 cut(s)	312, 920
SspI	AATATT	1 cut(s)	656
SspMI	CTAG	4 cut(s)	302, 326, 423, 950
StuI	AGGCCT	1 cut(s)	815
StyD4I	CCNGG	1 cut(s)	137
TaaI	ACNGT	4 cut(s)	35, 361, 596, 622
TaiI	ACGT	2 cut(s)	71, 770
TaqI	TCGA	2 cut(s)	51, 144
TasI	AATT	4 cut(s)	161, 462, 501, 697
TfiI	GAWTC	3 cut(s)	478, 520, 789
Tru1I	TTAA	1 cut(s)	689
Tru9I	TTAA	1 cut(s)	689
TscAI	CASTG	3 cut(s)	418, 655, 841
TseI	GCWGC	3 cut(s)	419, 885, 910
TspDTI	ATGAA	5 cut(s)	204, 488, 630, 722, 984
TspGWI	ACGGA	2 cut(s)	144, 212
TspRI	CASTG	3 cut(s)	418, 655, 841
VpaK11BI	GGWCC	3 cut(s)	271, 337, 406
XagI	CCTNNNNNAGG	2 cut(s)	413, 707
XapI	RAATTY	1 cut(s)	161
XmiI	GTMKAC	2 cut(s)	306, 678
XmnI	GAANNNNTTC	1 cut(s)	255
XspI	CTAG	4 cut(s)	302, 326, 423, 950

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