Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0012418

Physical Location & Seq

Genomic Coordinates Reverse (-)

62832738 .. 62834898

Gene Structure 2161 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG451500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1032 bp

ATGTCGCCGGTGGCGAAAGGTGAGAGCTCGAGGGGGTTGCAGGGTGTGCATTACTATCCTGCACCGCTTTCGTCTCATGATGAAATTGTTAAGGATTCTGTTGTTTTCTGGGACACTCTCAGACGCTTCCACTTTATGATGAATACCAGGTTTATGATTCCTGTGATTGGAGGAAAGGAGCTAGATTTGCACATGTTGTACGTGGAGGTAACAAGGAGGGGTGGATATGAGAAGGTTGTTGAAGAGAAGAAATGGAGGGAAGTGGGTAATATTTTCATGTTCTCCCCAACAACAACAAGTGCTTCTTTTGTGTTGAGGAAGCACTACAGAAGTCTTCTCTTCAGTTATGAACAAGTTCACTGCTTTAAGAAGCAGGGTCCTATATGTTCCCCTTCAGCGCCGGCTCCAGTTGCCTTTTCCATTAGTAATCGGAACTACTCAGACAAACCTGAACCGGCTCTGGTGGAATATTCCTCCAAAATGCCGAAACCGGCCAAACCCATCAGAGATTGTCCGGTTCCGGGTTCTGAAGGAACAGGAACAATTACTGGGAAGTTTGATTGTGGCTATTTGGTAACTGTGAGGTTGGGTTCGGAGGTTCTCAATGGAGTACTATACCATCCTGAGGAGCCAGTTCTGTCTGATGCAAGCCCTGAACCAATCAATTTCAGAGTACCGGACACCAAAAGATCACGTCGTCGTTCTGGCTTGAAAAGGAGGAGTAGAAGAAGGGAAGACCCCAATCATCCGAAACCTAATCGGAGCGGCTATAATTTCTTCTTTGCTGAGAAGCATTGCAAGTTCAAGTCCCTCTACCCAAACAGAGAAAGAGAGTTTACAAAGATGATAGGGGAGTCTTGGAGCAATCTCACCGCAGAAGACAGGATGGTTTACCAGAATATTGGGGTGAAAGACAAGGAGAGATACAAGAGAGAACTTGAAGAGTACAAGGAAAAGAAGAAGCTCAGGCAGACCACGGAAGTTAACAGAGACACAGAGTTGATTAGTAAAGCTAAAAAAGAGAGCCAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000741 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006996 GO:0006997 GO:0007275 GO:0008150 GO:0009553 GO:0009559 GO:0009561 GO:0009889 GO:0009987 GO:0010197 GO:0010468 GO:0010556 GO:0016043 GO:0019219 GO:0019222 GO:0030154 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048229 GO:0048284 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0071840 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ARID HMG_box

Protein Analysis

343

Amino Acids

39.69

Weight (kDa)

9.59

Isoelectric Point (pI)

64.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ARID	PF01388	35 - 117	3e-22	ARID/BRIGHT DNA binding domain
HMG_box_2	PF09011	247 - 316	1e-09	HMG-box domain
HMG_box	PF00505	250 - 317	4.3e-11	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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0012418)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G76110
malus_domestica	MD08G1006400.v1.1 MD15G1005800.v1.1
prunus_persica	Prupe.1G358300_v2.0.a1
pyrus_communis	pycom08g00490 pycom15g00420
rosa_chinensis	RchiOBHm_Chr6g0303791
rosa_laevigata	RLG00000011043
rosa_multiflora	Rmu_sc0012878.1_g000004
rosa_roxburghii	Rroxscaffold_7G00164400
rosa_rugosa	Rorug06G0324800 Rorug06G0324900 Rorug06G0324900 Rorug06G0324900
rosa_samantha	Rh6AG439200 Rh6BG463800 Rh6CG451500 Rh6DG438400
rosa_wichuraiana	Rw6G038020

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	765
AciI	CCGC	3 cut(s)	65, 765, 873
AcoI	YGGCCR	1 cut(s)	492
AcuI	CTGAAG	3 cut(s)	325, 378, 549
AfaI	GTAC	4 cut(s)	200, 612, 675, 947
AfiI	CCNNNNNNNGG	3 cut(s)	167, 521, 625
AflIII	ACRYGT	1 cut(s)	192
AgsI	TTSAA	4 cut(s)	242, 712, 805, 941
AjiI	CACGTC	1 cut(s)	695
AjnI	CCWGG	1 cut(s)	146
AluBI	AGCT	4 cut(s)	27, 181, 964, 1013
AluI	AGCT	4 cut(s)	27, 181, 964, 1013
Alw21I	GWGCWC	1 cut(s)	29
Alw26I	GTCTC	2 cut(s)	78, 984
Ama87I	CYCGRG	1 cut(s)	28
AoxI	GGCC	1 cut(s)	492
Asp700I	GAANNNNTTC	1 cut(s)	354
AspLEI	GCGC	1 cut(s)	400
AspS9I	GGNCC	1 cut(s)	377
AsuC2I	CCSGG	1 cut(s)	522
AsuHPI	GGTGA	3 cut(s)	32, 862, 919
AvaI	CYCGRG	1 cut(s)	28
AvaII	GGWCC	1 cut(s)	377
AxyI	CCTNAGG	1 cut(s)	624
BanII	GRGCYC	1 cut(s)	29
BbsI	GAAGAC	3 cut(s)	326, 741, 885
Bbv12I	GWGCWC	1 cut(s)	29
BccI	CCATC	3 cut(s)	509, 627, 880
BcgI	CGANNNNNNTGC	4 cut(s)	19, 51, 53, 85
BciT130I	CCWGG	1 cut(s)	148
BcnI	CCSGG	1 cut(s)	522
BcoDI	GTCTC	2 cut(s)	78, 984
BfaI	CTAG	1 cut(s)	182
BfmI	CTRYAG	1 cut(s)	325
BfoI	RGCGCY	1 cut(s)	401
BisI	GCNGC	1 cut(s)	766
BlsI	GCNGC	1 cut(s)	767
BmcAI	AGTACT	1 cut(s)	612
Bme1390I	CCNGG	2 cut(s)	148, 522
Bme18I	GGWCC	1 cut(s)	377
BmeT110I	CYCGRG	1 cut(s)	28
BmgBI	CACGTC	1 cut(s)	695
BmgT120I	GGNCC	1 cut(s)	377
BmiI	GGNNCC	4 cut(s)	378, 405, 519, 630
BmrFI	CCNGG	2 cut(s)	148, 522
BmrI	ACTGGG	1 cut(s)	558
BmsI	GCATC	1 cut(s)	634
BmuI	ACTGGG	1 cut(s)	558
BpiI	GAAGAC	3 cut(s)	326, 741, 885
BpmI	CTGGAG	1 cut(s)	390
Bpu10I	CCTNAGC	1 cut(s)	965
BpuMI	CCSGG	1 cut(s)	522
BsaAI	YACGTR	1 cut(s)	202
BsaJI	CCNNGG	1 cut(s)	975
BsaWI	WCCGGW	2 cut(s)	514, 676
Bsc4I	CCNNNNNNNGG	3 cut(s)	167, 521, 625
Bse118I	RCCGGY	4 cut(s)	7, 400, 454, 490
Bse1I	ACTGG	3 cut(s)	407, 553, 632
Bse21I	CCTNAGG	1 cut(s)	624
Bse3DI	GCAATG	1 cut(s)	793
BseBI	CCWGG	1 cut(s)	148
BseDI	CCNNGG	1 cut(s)	975
BseGI	GGATG	3 cut(s)	619, 745, 891
BseLI	CCNNNNNNNGG	3 cut(s)	167, 521, 625
BseMI	GCAATG	1 cut(s)	793
BseMII	CTCAG	5 cut(s)	133, 453, 615, 777, 979
BseNI	ACTGG	3 cut(s)	407, 553, 632
BseRI	GAGGAG	2 cut(s)	641, 733
BsgI	GTGCAG	1 cut(s)	45
BshFI	GGCC	1 cut(s)	494
BsiHKAI	GWGCWC	1 cut(s)	29
BsiHKCI	CYCGRG	1 cut(s)	28
BsiSI	CCGG	7 cut(s)	8, 401, 455, 491, 515, 521, 677
BslFI	GGGAC	2 cut(s)	125, 793
BslI	CCNNNNNNNGG	3 cut(s)	167, 521, 625
BsmAI	GTCTC	2 cut(s)	78, 984
BsmBI	CGTCTC	1 cut(s)	78
BsmFI	GGGAC	2 cut(s)	125, 793
BsnI	GGCC	1 cut(s)	494
BsoBI	CYCGRG	1 cut(s)	28
Bsp1286I	GDGCHC	1 cut(s)	29
Bsp143I	GATC	1 cut(s)	689
BspACI	CCGC	3 cut(s)	65, 765, 873
BspANI	GGCC	1 cut(s)	494
BspCNI	CTCAG	5 cut(s)	132, 452, 616, 778, 978
BspHI	TCATGA	1 cut(s)	76
BspLI	GGNNCC	4 cut(s)	378, 405, 519, 630
BsrBI	CCGCTC	1 cut(s)	765
BsrDI	GCAATG	1 cut(s)	793
BsrFI	RCCGGY	4 cut(s)	7, 400, 454, 490
BsrI	ACTGG	3 cut(s)	407, 553, 632
BssAI	RCCGGY	4 cut(s)	7, 400, 454, 490
BssECI	CCNNGG	1 cut(s)	975
BssMI	GATC	1 cut(s)	689
Bst2UI	CCWGG	1 cut(s)	148
Bst4CI	ACNGT	1 cut(s)	580
Bst6I	CTCTTC	3 cut(s)	237, 344, 936
BstAPI	GCANNNNNTGC	1 cut(s)	46
BstBAI	YACGTR	1 cut(s)	202
BstC8I	GCNNGC	2 cut(s)	402, 649
BstDEI	CTNAG	5 cut(s)	119, 439, 624, 786, 965
BstDSI	CCRYGG	1 cut(s)	975
BstF5I	GGATG	3 cut(s)	619, 745, 891
BstH2I	RGCGCY	1 cut(s)	401
BstHHI	GCGC	1 cut(s)	400
BstKTI	GATC	1 cut(s)	692
BstMAI	GTCTC	2 cut(s)	78, 984
BstMBI	GATC	1 cut(s)	689
BstMWI	GCNNNNNNNGC	3 cut(s)	46, 187, 410
BstNI	CCWGG	1 cut(s)	148
BstNSI	RCATGY	1 cut(s)	196
BstSCI	CCNGG	2 cut(s)	146, 520
BstSFI	CTRYAG	1 cut(s)	325
BstV2I	GAAGAC	3 cut(s)	326, 741, 885
BstXI	CCANNNNNNTGG	1 cut(s)	902
Bsu36I	CCTNAGG	1 cut(s)	624
BsuRI	GGCC	1 cut(s)	494
BtgI	CCRYGG	1 cut(s)	975
BtrI	CACGTC	1 cut(s)	695
BtsCI	GGATG	3 cut(s)	619, 745, 891
BtsI	GCAGTG	1 cut(s)	358
BtsIMutI	CAGTG	1 cut(s)	358
Cac8I	GCNNGC	2 cut(s)	402, 649
CciI	TCATGA	1 cut(s)	76
CfoI	GCGC	1 cut(s)	400
Cfr10I	RCCGGY	4 cut(s)	7, 400, 454, 490
Cfr13I	GGNCC	1 cut(s)	377
CseI	GACGC	1 cut(s)	132
CsiI	ACCWGGT	1 cut(s)	146
Csp6I	GTAC	4 cut(s)	199, 611, 674, 946
CviAII	CATG	3 cut(s)	77, 193, 277
CviQI	GTAC	4 cut(s)	199, 611, 674, 946
DdeI	CTNAG	5 cut(s)	119, 439, 624, 786, 965
DpnI	GATC	1 cut(s)	691
DpnII	GATC	1 cut(s)	689
EaeI	YGGCCR	1 cut(s)	492
Eam1104I	CTCTTC	3 cut(s)	237, 344, 936
EarI	CTCTTC	3 cut(s)	237, 344, 936
Ecl136II	GAGCTC	1 cut(s)	27
Eco24I	GRGCYC	1 cut(s)	29
Eco47I	GGWCC	1 cut(s)	377
Eco53kI	GAGCTC	1 cut(s)	27
Eco57I	CTGAAG	3 cut(s)	325, 378, 549
Eco81I	CCTNAGG	1 cut(s)	624
Eco88I	CYCGRG	1 cut(s)	28
EcoICRI	GAGCTC	1 cut(s)	27
EcoO109I	RGGNCCY	1 cut(s)	377
EcoRII	CCWGG	1 cut(s)	146
EcoT38I	GRGCYC	1 cut(s)	29
Esp3I	CGTCTC	1 cut(s)	78
FaeI	CATG	3 cut(s)	80, 196, 280
FalI	AAGNNNNNCTT	2 cut(s)	289, 321
FaqI	GGGAC	2 cut(s)	125, 793
FatI	CATG	3 cut(s)	76, 192, 276
Fnu4HI	GCNGC	1 cut(s)	766
FokI	GGATG	3 cut(s)	606, 732, 898
FriOI	GRGCYC	1 cut(s)	29
Fsp4HI	GCNGC	1 cut(s)	766
FspBI	CTAG	1 cut(s)	182
GlaI	GCGC	1 cut(s)	399
GluI	GCNGC	1 cut(s)	766
GsuI	CTGGAG	1 cut(s)	390
HaeII	RGCGCY	1 cut(s)	401
HaeIII	GGCC	1 cut(s)	494
HapII	CCGG	7 cut(s)	8, 401, 455, 491, 515, 521, 677
HgaI	GACGC	1 cut(s)	132
HhaI	GCGC	1 cut(s)	400
Hin1II	CATG	3 cut(s)	80, 196, 280
Hin6I	GCGC	1 cut(s)	398
HinP1I	GCGC	1 cut(s)	398
HincII	GTYRAC	1 cut(s)	985
HindII	GTYRAC	1 cut(s)	985
HinfI	GANTC	3 cut(s)	95, 157, 854
HpaI	GTTAAC	1 cut(s)	985
HpaII	CCGG	7 cut(s)	8, 401, 455, 491, 515, 521, 677
HphI	GGTGA	3 cut(s)	32, 862, 919
Hpy166II	GTNNAC	4 cut(s)	358, 837, 892, 985
Hpy188III	TCNNGA	2 cut(s)	77, 623
Hpy8I	GTNNAC	4 cut(s)	358, 837, 892, 985
Hpy99I	CGWCG	2 cut(s)	699, 702
HpyAV	CCTTC	4 cut(s)	226, 402, 524, 723
HpyCH4III	ACNGT	1 cut(s)	580
HpyCH4IV	ACGT	2 cut(s)	201, 694
HpyCH4V	TGCA	6 cut(s)	40, 49, 62, 190, 647, 798
HpyF10VI	GCNNNNNNNGC	3 cut(s)	46, 187, 410
HpyF3I	CTNAG	5 cut(s)	119, 439, 624, 786, 965
HpySE526I	ACGT	2 cut(s)	201, 694
Hsp92II	CATG	3 cut(s)	80, 196, 280
HspAI	GCGC	1 cut(s)	398
KroI	GCCGGC	1 cut(s)	400
KroNI	GCCGGC	1 cut(s)	402
KspAI	GTTAAC	1 cut(s)	985
Kzo9I	GATC	1 cut(s)	689
LmnI	GCTCC	5 cut(s)	178, 409, 628, 762, 861
LweI	GCATC	1 cut(s)	634
MabI	ACCWGGT	1 cut(s)	146
MaeI	CTAG	1 cut(s)	182
MaeII	ACGT	2 cut(s)	201, 694
MaeIII	GTNAC	2 cut(s)	208, 574
MalI	GATC	1 cut(s)	691
MbiI	CCGCTC	1 cut(s)	765
MboI	GATC	1 cut(s)	689
MhlI	GDGCHC	1 cut(s)	29
MluCI	AATT	4 cut(s)	84, 543, 664, 772
MlyI	GAGTC	1 cut(s)	863
MroNI	GCCGGC	1 cut(s)	400
MroXI	GAANNNNTTC	1 cut(s)	354
MseI	TTAA	3 cut(s)	90, 366, 984
MspI	CCGG	7 cut(s)	8, 401, 455, 491, 515, 521, 677
MspR9I	CCNGG	2 cut(s)	148, 522
MvaI	CCWGG	1 cut(s)	148
MwoI	GCNNNNNNNGC	3 cut(s)	46, 187, 410
NaeI	GCCGGC	1 cut(s)	402
NciI	CCSGG	1 cut(s)	522
NdeII	GATC	1 cut(s)	689
NgoMIV	GCCGGC	1 cut(s)	400
NlaIII	CATG	3 cut(s)	80, 196, 280
NlaIV	GGNNCC	4 cut(s)	378, 405, 519, 630
NspI	RCATGY	1 cut(s)	196
PaeR7I	CTCGAG	1 cut(s)	28
PagI	TCATGA	1 cut(s)	76
PciI	ACATGT	1 cut(s)	192
PcsI	WCGNNNNNNNCGW	1 cut(s)	11
PdiI	GCCGGC	1 cut(s)	402
PdmI	GAANNNNTTC	1 cut(s)	354
PfeI	GAWTC	2 cut(s)	95, 157
PkrI	GCNGC	1 cut(s)	767
PleI	GAGTC	1 cut(s)	862
PpsI	GAGTC	1 cut(s)	862
Ppu21I	YACGTR	1 cut(s)	202
PpuMI	RGGWCCY	1 cut(s)	377
PscI	ACATGT	1 cut(s)	192
Psp124BI	GAGCTC	1 cut(s)	29
Psp5II	RGGWCCY	1 cut(s)	377
Psp6I	CCWGG	1 cut(s)	146
PspGI	CCWGG	1 cut(s)	146
PspN4I	GGNNCC	4 cut(s)	378, 405, 519, 630
PspPI	GGNCC	1 cut(s)	377
PspPPI	RGGWCCY	1 cut(s)	377
PspXI	VCTCGAGB	1 cut(s)	28
RsaI	GTAC	4 cut(s)	200, 612, 675, 947
RsaNI	GTAC	4 cut(s)	199, 611, 674, 946
SacI	GAGCTC	1 cut(s)	29
SaqAI	TTAA	3 cut(s)	90, 366, 984
SatI	GCNGC	1 cut(s)	766
Sau3AI	GATC	1 cut(s)	689
Sau96I	GGNCC	1 cut(s)	377
ScaI	AGTACT	1 cut(s)	612
SchI	GAGTC	1 cut(s)	863
ScrFI	CCNGG	2 cut(s)	148, 522
SduI	GDGCHC	1 cut(s)	29
SexAI	ACCWGGT	1 cut(s)	146
SfaNI	GCATC	1 cut(s)	634
SfcI	CTRYAG	1 cut(s)	325
Sfr274I	CTCGAG	1 cut(s)	28
SgrAI	CRCCGGYG	1 cut(s)	7
SinI	GGWCC	1 cut(s)	377
SlaI	CTCGAG	1 cut(s)	28
SmlI	CTYRAG	1 cut(s)	28
SmoI	CTYRAG	1 cut(s)	28
Sse9I	AATT	4 cut(s)	84, 543, 664, 772
SsiI	CCGC	3 cut(s)	65, 765, 873
SspI	AATATT	3 cut(s)	271, 470, 901
SspMI	CTAG	1 cut(s)	182
SstI	GAGCTC	1 cut(s)	29
StyD4I	CCNGG	2 cut(s)	146, 520
TaaI	ACNGT	1 cut(s)	580
TaiI	ACGT	2 cut(s)	204, 697
TaqI	TCGA	1 cut(s)	29
TasI	AATT	4 cut(s)	84, 543, 664, 772
TatI	WGTACW	2 cut(s)	610, 945
TauI	GCSGC	1 cut(s)	768
TfiI	GAWTC	2 cut(s)	95, 157
Tru1I	TTAA	3 cut(s)	90, 366, 984
Tru9I	TTAA	3 cut(s)	90, 366, 984
TscAI	CASTG	1 cut(s)	365
TspDTI	ATGAA	4 cut(s)	96, 155, 265, 363
TspGWI	ACGGA	1 cut(s)	992
TspRI	CASTG	1 cut(s)	365
VpaK11BI	GGWCC	1 cut(s)	377
XceI	RCATGY	1 cut(s)	196
XhoI	CTCGAG	1 cut(s)	28
XmnI	GAANNNNTTC	1 cut(s)	354
XspI	CTAG	1 cut(s)	182
ZrmI	AGTACT	1 cut(s)	612

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