Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0010334

Physical Location & Seq

Genomic Coordinates Forward (+)

8876128 .. 8880511

Gene Structure 4384 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00006890.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 975 bp

ATGTCTGAGGTCCCAACAACACCAATTACAGGAAAGGAGGCTTCTTTGGCTATTGTTCCAGCTCCACAACACCAAGTGCTCACTCACAGCGCTAATGGGTCTTCTTCATCCCTCACCTCTACTTCAAAGGTGTACCCTCCAGCCTCGGCCAAGTTTGAGGATGTGGTTCAAAGCTCGGACCTTTTCTGGCAAAAGCTCAAGGAGTTTCACGATTCCCTAGGAACCAAAAAATTCATGATTCCTACTGTTGGAGGAAAAGCTCTGGATATGCATCTCCTTTTTGTAGAAGTCACATCTCGTGGTGGCATTGAAAAGGTGATTAGAGATCGCCAATGGAAAGAAGTGATTGTGGTCTTCAATTTCCCAACAACTATTACCAGTGCATCATTTGTCTTACGGAAGTACTACTTGTCTTTGCTCTATGACTTTGAGCAGGTCTATTATTTCCATAAAGAAGTTATTAGAATCCCAGTGCATGATCCAGAAGGCAGGAACCTTGACAATGGGTCAGCACGGGAGCAAGGTACCATCCGGTTTCAAGGTCAGGCCACCCCGATAGTAATGCAACCGGGCGGTTCCATTATGGGAACCATTGACAGAAAATGTGAGGAGGGATATGTTATTACTGTAAACTTGGGTTCTGAGGTGCTGACTGGTATCTTGTACCATCATCCTGTGGCTGGGTCTCAGAATTTTTCTGAGATGCCTACTCAACGGAACCGAAAGAGATCTAGGTTGGCGACACGTGATCCCTCTCGGCCTAAGTCCAACAGGAGTGGCTATAATTTCTTCTTCGCTGAGCACTATGCCAGCTTAAAGCCTTTGTATTATGGCCAAGAGAGAGCCATTAGTAAGCAAATTGGGTATCTATGGAACAATCTTACAGAAGATGAGAAACAGGTTTATCAGGAAAAGGGTTTGCAGGACAAGGAGCGATACAAGTCTGAGATGATGGAATATAGAGCACAGCAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006355 GO:0008150 GO:0009507 GO:0009536 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ARID HMG_box

Protein Analysis

324

Amino Acids

36.88

Weight (kDa)

9.02

Isoelectric Point (pI)

42.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ARID	PF01388	59 - 144	7.3e-21	ARID/BRIGHT DNA binding domain
HMG_box_2	PF09011	251 - 320	1e-09	HMG-box domain
HMG_box	PF00505	254 - 321	1.5e-10	HMG (high mobility group) box

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010334)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G13350
fragaria_vesca	FvH4_3g41610
malus_domestica	MD03G1042900.v1.1 MD11G1045900.v1.1 MD13G1138800.v1.1
prunus_persica	Prupe.6G035300_v2.0.a1 Prupe.6G035300_v2.0.a1
pyrus_communis	pycom02g14660 pycom03g03310 pycom11g03720
rosa_chinensis	RchiOBHm_Chr5g0074651
rosa_laevigata	RLG00000036494
rosa_multiflora	Rmu_sc0000909.1_g000033 Rmu_sc0008028.1_g000006
rosa_roxburghii	Rroxscaffold_1G00006890
rosa_rugosa	Rorug05G0433500
rosa_samantha	Rh5AG490500 Rh5BG511600 Rh5CG535400 Rh5DG524000
rosa_wichuraiana	Rw5G045430

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	424
Acc65I	GGTACC	1 cut(s)	524
AccB1I	GGYRCC	1 cut(s)	524
AciI	CCGC	1 cut(s)	573
AclWI	GGATC	2 cut(s)	473, 743
AcoI	YGGCCR	2 cut(s)	147, 832
AcsI	RAATTY	2 cut(s)	230, 691
AcvI	CACGTG	1 cut(s)	746
AdeI	CACNNNGTG	1 cut(s)	76
AfaI	GTAC	4 cut(s)	134, 404, 526, 665
AfeI	AGCGCT	1 cut(s)	91
AfiI	CCNNNNNNNGG	3 cut(s)	29, 248, 680
AflIII	ACRYGT	1 cut(s)	743
AgsI	TTSAA	5 cut(s)	126, 170, 311, 358, 539
AhdI	GACNNNNNGTC	1 cut(s)	505
AluBI	AGCT	5 cut(s)	62, 174, 196, 260, 813
AluI	AGCT	5 cut(s)	62, 174, 196, 260, 813
Alw21I	GWGCWC	3 cut(s)	81, 804, 967
Alw26I	GTCTC	1 cut(s)	690
AlwI	GGATC	2 cut(s)	473, 743
Aor51HI	AGCGCT	1 cut(s)	91
AoxI	GGCC	4 cut(s)	147, 546, 758, 832
ApoI	RAATTY	2 cut(s)	230, 691
Asp718I	GGTACC	1 cut(s)	524
AspA2I	CCTAGG	1 cut(s)	217
AspLEI	GCGC	1 cut(s)	92
AspS9I	GGNCC	2 cut(s)	10, 178
AsuC2I	CCSGG	1 cut(s)	570
AsuHPI	GGTGA	2 cut(s)	106, 328
AvaII	GGWCC	2 cut(s)	10, 178
AvrII	CCTAGG	1 cut(s)	217
BalI	TGGCCA	1 cut(s)	834
BanI	GGYRCC	1 cut(s)	524
BauI	CACGAG	1 cut(s)	297
BbrPI	CACGTG	1 cut(s)	746
BbsI	GAAGAC	2 cut(s)	93, 346
Bbv12I	GWGCWC	3 cut(s)	81, 804, 967
BccI	CCATC	3 cut(s)	536, 675, 946
BcgI	CGANNNNNNTGC	2 cut(s)	544, 578
BcnI	CCSGG	1 cut(s)	570
BcoDI	GTCTC	1 cut(s)	690
BfaI	CTAG	2 cut(s)	218, 732
BfoI	RGCGCY	1 cut(s)	93
BfuAI	ACCTGC	1 cut(s)	424
BglII	AGATCT	1 cut(s)	728
BlnI	CCTAGG	1 cut(s)	217
BlpI	GCTNAGC	1 cut(s)	798
BmcAI	AGTACT	1 cut(s)	404
Bme1390I	CCNGG	1 cut(s)	570
Bme18I	GGWCC	2 cut(s)	10, 178
BmeRI	GACNNNNNGTC	1 cut(s)	505
BmgT120I	GGNCC	2 cut(s)	10, 178
BmiI	GGNNCC	7 cut(s)	12, 223, 494, 526, 577, 589, 719
BmrFI	CCNGG	1 cut(s)	570
BmrI	ACTGGG	1 cut(s)	464
BmsI	GCATC	3 cut(s)	280, 392, 693
BmuI	ACTGGG	1 cut(s)	464
BpiI	GAAGAC	2 cut(s)	93, 346
BpmI	CTGGAG	1 cut(s)	123
Bpu1102I	GCTNAGC	1 cut(s)	798
BpuEI	CTTGAG	1 cut(s)	182
BpuMI	CCSGG	1 cut(s)	570
BsaAI	YACGTR	1 cut(s)	746
BsaBI	GATNNNNATC	1 cut(s)	270
BsaI	GGTCTC	1 cut(s)	690
BsaJI	CCNNGG	2 cut(s)	144, 217
BsaWI	WCCGGW	1 cut(s)	531
Bsc4I	CCNNNNNNNGG	3 cut(s)	29, 248, 680
Bse1I	ACTGG	3 cut(s)	378, 470, 658
Bse8I	GATNNNNATC	1 cut(s)	270
BseDI	CCNNGG	2 cut(s)	144, 217
BseGI	GGATG	4 cut(s)	107, 166, 528, 670
BseJI	GATNNNNATC	1 cut(s)	270
BseLI	CCNNNNNNNGG	3 cut(s)	29, 248, 680
BseMII	CTCAG	5 cut(s)	633, 690, 701, 789, 936
BseNI	ACTGG	3 cut(s)	378, 470, 658
BseRI	GAGGAG	1 cut(s)	623
BseYI	CCCAGC	1 cut(s)	680
BshFI	GGCC	4 cut(s)	149, 548, 760, 834
BshNI	GGYRCC	1 cut(s)	524
BsiHKAI	GWGCWC	3 cut(s)	81, 804, 967
BsiSI	CCGG	2 cut(s)	532, 569
BslI	CCNNNNNNNGG	3 cut(s)	29, 248, 680
BsmAI	GTCTC	1 cut(s)	690
BsnI	GGCC	4 cut(s)	149, 548, 760, 834
Bso31I	GGTCTC	1 cut(s)	690
Bsp1286I	GDGCHC	3 cut(s)	81, 804, 967
Bsp143I	GATC	4 cut(s)	325, 478, 728, 748
Bsp1720I	GCTNAGC	1 cut(s)	798
BspACI	CCGC	1 cut(s)	573
BspANI	GGCC	4 cut(s)	149, 548, 760, 834
BspCNI	CTCAG	5 cut(s)	634, 691, 700, 790, 937
BspHI	TCATGA	1 cut(s)	234
BspLI	GGNNCC	7 cut(s)	12, 223, 494, 526, 577, 589, 719
BspMI	ACCTGC	1 cut(s)	424
BspPI	GGATC	2 cut(s)	473, 743
BspT107I	GGYRCC	1 cut(s)	524
BspTNI	GGTCTC	1 cut(s)	690
BsrI	ACTGG	3 cut(s)	378, 470, 658
BssECI	CCNNGG	2 cut(s)	144, 217
BssMI	GATC	4 cut(s)	325, 478, 728, 748
BssSI	CACGAG	1 cut(s)	297
BssT1I	CCWWGG	1 cut(s)	217
Bst2BI	CACGAG	1 cut(s)	297
Bst4CI	ACNGT	2 cut(s)	247, 628
BstBAI	YACGTR	1 cut(s)	746
BstC8I	GCNNGC	1 cut(s)	811
BstDEI	CTNAG	7 cut(s)	6, 642, 687, 699, 762, 798, 945
BstF5I	GGATG	4 cut(s)	107, 166, 528, 670
BstH2I	RGCGCY	1 cut(s)	93
BstHHI	GCGC	1 cut(s)	92
BstKTI	GATC	4 cut(s)	328, 481, 731, 751
BstMAI	GTCTC	1 cut(s)	690
BstMBI	GATC	4 cut(s)	325, 478, 728, 748
BstMWI	GCNNNNNNNGC	1 cut(s)	47
BstSCI	CCNGG	1 cut(s)	568
BstV2I	GAAGAC	2 cut(s)	93, 346
BstX2I	RGATCY	1 cut(s)	728
BstYI	RGATCY	1 cut(s)	728
BsuRI	GGCC	4 cut(s)	149, 548, 760, 834
BtsCI	GGATG	4 cut(s)	107, 166, 528, 670
BtsIMutI	CAGTG	2 cut(s)	385, 477
BveI	ACCTGC	1 cut(s)	424
Cac8I	GCNNGC	1 cut(s)	811
CciI	TCATGA	1 cut(s)	234
CfoI	GCGC	1 cut(s)	92
Cfr13I	GGNCC	2 cut(s)	10, 178
Csp6I	GTAC	4 cut(s)	133, 403, 525, 664
CspCI	CAANNNNNGTGG	2 cut(s)	757, 792
CviAII	CATG	2 cut(s)	235, 476
CviQI	GTAC	4 cut(s)	133, 403, 525, 664
DdeI	CTNAG	7 cut(s)	6, 642, 687, 699, 762, 798, 945
DpnI	GATC	4 cut(s)	327, 480, 730, 750
DpnII	GATC	4 cut(s)	325, 478, 728, 748
DraIII	CACNNNGTG	1 cut(s)	76
DriI	GACNNNNNGTC	1 cut(s)	505
EaeI	YGGCCR	2 cut(s)	147, 832
Eam1105I	GACNNNNNGTC	1 cut(s)	505
Eco130I	CCWWGG	1 cut(s)	217
Eco31I	GGTCTC	1 cut(s)	690
Eco47I	GGWCC	2 cut(s)	10, 178
Eco47III	AGCGCT	1 cut(s)	91
Eco72I	CACGTG	1 cut(s)	746
EcoO109I	RGGNCCY	1 cut(s)	10
EcoT14I	CCWWGG	1 cut(s)	217
EcoT22I	ATGCAT	1 cut(s)	273
ErhI	CCWWGG	1 cut(s)	217
FaeI	CATG	2 cut(s)	238, 479
FalI	AAGNNNNNCTT	2 cut(s)	392, 424
FatI	CATG	2 cut(s)	234, 475
FokI	GGATG	4 cut(s)	94, 173, 515, 657
FspBI	CTAG	2 cut(s)	218, 732
GlaI	GCGC	1 cut(s)	91
GsaI	CCCAGC	1 cut(s)	684
GsuI	CTGGAG	1 cut(s)	123
HaeII	RGCGCY	1 cut(s)	93
HaeIII	GGCC	4 cut(s)	149, 548, 760, 834
HapII	CCGG	2 cut(s)	532, 569
HhaI	GCGC	1 cut(s)	92
Hin1II	CATG	2 cut(s)	238, 479
Hin6I	GCGC	1 cut(s)	90
HinP1I	GCGC	1 cut(s)	90
HinfI	GANTC	3 cut(s)	212, 238, 465
HpaII	CCGG	2 cut(s)	532, 569
HphI	GGTGA	2 cut(s)	106, 328
Hpy166II	GTNNAC	2 cut(s)	133, 631
Hpy188I	TCNGA	6 cut(s)	7, 178, 643, 690, 700, 946
Hpy188III	TCNNGA	5 cut(s)	209, 235, 263, 482, 908
Hpy8I	GTNNAC	2 cut(s)	133, 631
HpyAV	CCTTC	1 cut(s)	479
HpyCH4III	ACNGT	2 cut(s)	247, 628
HpyCH4IV	ACGT	1 cut(s)	745
HpyCH4V	TGCA	5 cut(s)	271, 383, 475, 565, 922
HpyF10VI	GCNNNNNNNGC	1 cut(s)	47
HpyF3I	CTNAG	7 cut(s)	6, 642, 687, 699, 762, 798, 945
HpySE526I	ACGT	1 cut(s)	745
Hsp92II	CATG	2 cut(s)	238, 479
HspAI	GCGC	1 cut(s)	90
KpnI	GGTACC	1 cut(s)	528
Kzo9I	GATC	4 cut(s)	325, 478, 728, 748
LmnI	GCTCC	3 cut(s)	67, 517, 931
LweI	GCATC	3 cut(s)	280, 392, 693
MaeI	CTAG	2 cut(s)	218, 732
MaeII	ACGT	1 cut(s)	745
MaeIII	GTNAC	1 cut(s)	289
MalI	GATC	4 cut(s)	327, 480, 730, 750
MboI	GATC	4 cut(s)	325, 478, 728, 748
MboII	GAAGA	6 cut(s)	93, 96, 346, 781, 784, 899
MflI	RGATCY	1 cut(s)	728
MhlI	GDGCHC	3 cut(s)	81, 804, 967
MlsI	TGGCCA	1 cut(s)	834
MluCI	AATT	6 cut(s)	24, 230, 358, 691, 784, 858
MluNI	TGGCCA	1 cut(s)	834
MmeI	TCCRAC	2 cut(s)	229, 792
Mox20I	TGGCCA	1 cut(s)	834
Mph1103I	ATGCAT	1 cut(s)	273
MscI	TGGCCA	1 cut(s)	834
MseI	TTAA	1 cut(s)	815
Msp20I	TGGCCA	1 cut(s)	834
MspI	CCGG	2 cut(s)	532, 569
MspR9I	CCNGG	1 cut(s)	570
MwoI	GCNNNNNNNGC	1 cut(s)	47
NciI	CCSGG	1 cut(s)	570
NdeII	GATC	4 cut(s)	325, 478, 728, 748
NlaIII	CATG	2 cut(s)	238, 479
NlaIV	GGNNCC	7 cut(s)	12, 223, 494, 526, 577, 589, 719
NmeAIII	GCCGAG	2 cut(s)	125, 736
NmuCI	GTSAC	1 cut(s)	289
NsiI	ATGCAT	1 cut(s)	273
PagI	TCATGA	1 cut(s)	234
PfeI	GAWTC	3 cut(s)	212, 238, 465
PmaCI	CACGTG	1 cut(s)	746
PmlI	CACGTG	1 cut(s)	746
Ppu21I	YACGTR	1 cut(s)	746
PpuMI	RGGWCCY	1 cut(s)	10
Psp5II	RGGWCCY	1 cut(s)	10
PspCI	CACGTG	1 cut(s)	746
PspFI	CCCAGC	1 cut(s)	680
PspN4I	GGNNCC	7 cut(s)	12, 223, 494, 526, 577, 589, 719
PspPI	GGNCC	2 cut(s)	10, 178
PspPPI	RGGWCCY	1 cut(s)	10
PsuI	RGATCY	1 cut(s)	728
RsaI	GTAC	4 cut(s)	134, 404, 526, 665
RsaNI	GTAC	4 cut(s)	133, 403, 525, 664
SaqAI	TTAA	1 cut(s)	815
Sau3AI	GATC	4 cut(s)	325, 478, 728, 748
Sau96I	GGNCC	2 cut(s)	10, 178
ScaI	AGTACT	1 cut(s)	404
ScrFI	CCNGG	1 cut(s)	570
SduI	GDGCHC	3 cut(s)	81, 804, 967
SfaNI	GCATC	3 cut(s)	280, 392, 693
SinI	GGWCC	2 cut(s)	10, 178
SmlI	CTYRAG	1 cut(s)	197
SmoI	CTYRAG	1 cut(s)	197
Sse9I	AATT	6 cut(s)	24, 230, 358, 691, 784, 858
SsiI	CCGC	1 cut(s)	573
SspMI	CTAG	2 cut(s)	218, 732
StyD4I	CCNGG	1 cut(s)	568
StyI	CCWWGG	1 cut(s)	217
TaaI	ACNGT	2 cut(s)	247, 628
TaiI	ACGT	1 cut(s)	748
TasI	AATT	6 cut(s)	24, 230, 358, 691, 784, 858
TatI	WGTACW	1 cut(s)	402
TfiI	GAWTC	3 cut(s)	212, 238, 465
Tru1I	TTAA	1 cut(s)	815
Tru9I	TTAA	1 cut(s)	815
TscAI	CASTG	2 cut(s)	385, 477
TseFI	GTSAC	1 cut(s)	289
Tsp45I	GTSAC	1 cut(s)	289
TspDTI	ATGAA	2 cut(s)	96, 223
TspGWI	ACGGA	2 cut(s)	412, 730
TspRI	CASTG	2 cut(s)	385, 477
VpaK11BI	GGWCC	2 cut(s)	10, 178
XapI	RAATTY	2 cut(s)	230, 691
XmaJI	CCTAGG	1 cut(s)	217
XspI	CTAG	2 cut(s)	218, 732
ZrmI	AGTACT	1 cut(s)	404
Zsp2I	ATGCAT	1 cut(s)	273

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