Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0007096

Physical Location & Seq

Genomic Coordinates Forward (+)

9643576 .. 9645937

Gene Structure 2362 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG116000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 942 bp

ATGGAAGATCCTTCCGTAGAGAAAATCGCAATCTCCGGCCCGGCCCTGGCCTCCATGATCCAACGCTTCTCCACCTCCCGCGGCGCCGTCGACGGCTTAATCTTCGGCCACGTCAGCCTCATCGCCCCCACTCTCTCCGACGACGATTCCTCCTCCTCCTCCTCCTCCTCTACCCTCATCGCCACCGTCACCTCCTTCTTCTGCTCCAATTCCTCCCTCTCCTTCTACACTCCCTCGGGTCGGGTCGACCCGCTCCTCCTCCGCCGCCTCGCCCAGCCCCAACCCCCCTCCTCCCACCTCCTCGGCTGGTTCTCCGGCCGCCGCAGAACCCACCTCCGGCCCTCCTTACGCGAATTCGCCGTCTCCAACTCTCTAATCTCCAACCCTAACCTCACCTTCCCAATCCAAAACTCTCCGGCGCCGATCGCCGTCGATCTCAAACCCTGCCTCTTCTTCCTCTTCGCTTCCCCGATCTCCGATCAGACAATCCACACGCACGAGTACCGCGCCTACCAGTTCCGCAGCTCCGCCCACTCCTTCGACCCCAAATCGATCGACATTGTCAACATCGGCCCGGCGTTTCGCGGCCACTACGGCGCCTTCAGCCCCAACTCGCAGCTTCCGGCCTTGCCCTGCGAATTGAGGGTTTCGCCGATGAATGTGGACAAGGGAGAAGAGAGTTTAGGGCAGTTGAAGAAGGGCTTGAAGGCCCAGAGTGAGCTGGACATGTGCGCCGAGGGGTTAGAGGTGAATAGCCTGAGTAGGCTGATGGGTTCGGAGGCTGTGAATTACACTTCCGGAGTGGAGGAGTTGTATGAGAAGATGCTTGTGAAGATTGAGAGCTTGGCCAGGCAAGTTGAGAACAGCTCTGCCAAGATTCGAGAGCAGGAAGATCACAATAGGAAGTTGCGACACAAAGCTACTAGGACTGCTGGATTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001067 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009889 GO:0009891 GO:0009893 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

No domains found.

Protein Analysis

313

Amino Acids

34.28

Weight (kDa)

7.75

Isoelectric Point (pI)

55.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MPN_2A_DUB_like	PF21125	11 - 191	7.1e-08	BRCA1-A complex subunit Abraxas 1 MPN 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: OG0007096)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G08780 AT3G08780
fragaria_vesca	FvH4_6g10650 FvH4_6g10650 FvH4_6g10650 FvH4_6g10650
malus_domestica	MD04G1166100.v1.1 MD04G1166200.v1.1
prunus_persica	Prupe.6G284500_v2.0.a1
pyrus_communis	pycom04g14770
rosa_chinensis	RchiOBHm_Chr3g0461671
rosa_laevigata	RLG00000024906 RLG00000024907
rosa_multiflora	Rmu_sc0012406.1_g000006 Rmu_sc0038320.1_g000001
rosa_roxburghii	Rroxscaffold_4G00332550 Rroxscaffold_6G00418050
rosa_rugosa	Rorug03G0052800 Rorug03G0052900 Rorug03G0053000 Rorug03G0053000
rosa_samantha	Rh3BG114100 Rh3CG116200 Rh3DG116000
rosa_wichuraiana	Rw3G009400

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	3 cut(s)	83, 418, 596
AccBSI	CCGCTC	1 cut(s)	253
AccI	GTMKAC	2 cut(s)	90, 246
AccII	CGCG	4 cut(s)	81, 351, 507, 585
AccIII	TCCGGA	1 cut(s)	797
AclWI	GGATC	2 cut(s)	2, 52
AcoI	YGGCCR	4 cut(s)	106, 316, 586, 846
AcsI	RAATTY	1 cut(s)	353
AcuI	CTGAAG	1 cut(s)	586
AcyI	GRCGYC	3 cut(s)	84, 419, 597
AfaI	GTAC	1 cut(s)	503
AfiI	CCNNNNNNNGG	3 cut(s)	46, 240, 336
AflIII	ACRYGT	1 cut(s)	726
AgsI	TTSAA	2 cut(s)	694, 706
AjiI	CACGTC	1 cut(s)	112
AjnI	CCWGG	2 cut(s)	45, 848
AluBI	AGCT	6 cut(s)	525, 619, 721, 843, 867, 920
AluI	AGCT	6 cut(s)	525, 619, 721, 843, 867, 920
Alw26I	GTCTC	1 cut(s)	367
AlwI	GGATC	2 cut(s)	2, 52
Ama87I	CYCGRG	1 cut(s)	235
Aor13HI	TCCGGA	1 cut(s)	797
ApeKI	GCWGC	2 cut(s)	522, 616
ApoI	RAATTY	1 cut(s)	353
ArsI	GACNNNNNNTTYG	2 cut(s)	345, 377
AspLEI	GCGC	5 cut(s)	86, 421, 509, 599, 734
AspS9I	GGNCC	5 cut(s)	38, 43, 339, 572, 709
AsuC2I	CCSGG	2 cut(s)	41, 575
AsuHPI	GGTGA	3 cut(s)	181, 385, 760
AvaI	CYCGRG	1 cut(s)	235
BalI	TGGCCA	1 cut(s)	848
BanI	GGYRCC	3 cut(s)	83, 418, 596
BauI	CACGAG	1 cut(s)	497
BbvI	GCAGC	2 cut(s)	534, 628
BccI	CCATC	1 cut(s)	763
BceAI	ACGGC	5 cut(s)	71, 109, 344, 413, 610
BciT130I	CCWGG	2 cut(s)	47, 850
BcnI	CCSGG	2 cut(s)	41, 575
BcoDI	GTCTC	1 cut(s)	367
BfaI	CTAG	1 cut(s)	924
BfoI	RGCGCY	3 cut(s)	87, 422, 600
BglI	GCCNNNNNGGC	1 cut(s)	594
BisI	GCNGC	7 cut(s)	82, 265, 319, 322, 523, 586, 617
BlsI	GCNGC	7 cut(s)	83, 266, 320, 323, 524, 587, 618
Bme1390I	CCNGG	4 cut(s)	41, 47, 575, 850
BmeT110I	CYCGRG	1 cut(s)	235
BmgBI	CACGTC	1 cut(s)	112
BmgT120I	GGNCC	5 cut(s)	38, 43, 339, 572, 709
BmiI	GGNNCC	3 cut(s)	85, 420, 598
BmrFI	CCNGG	4 cut(s)	41, 47, 575, 850
BmsI	GCATC	1 cut(s)	813
BplI	GAGNNNNNCTC	2 cut(s)	851, 883
BpuMI	CCSGG	2 cut(s)	41, 575
Bsa29I	ATCGAT	1 cut(s)	551
BsaHI	GRCGYC	3 cut(s)	84, 419, 597
BsaJI	CCNNGG	5 cut(s)	45, 79, 234, 301, 735
BsaWI	WCCGGW	1 cut(s)	797
BsaXI	ACNNNNNCTCC	4 cut(s)	134, 164, 797, 827
Bsc4I	CCNNNNNNNGG	3 cut(s)	46, 240, 336
Bse1I	ACTGG	1 cut(s)	514
BseAI	TCCGGA	1 cut(s)	797
BseBI	CCWGG	2 cut(s)	47, 850
BseCI	ATCGAT	1 cut(s)	551
BseDI	CCNNGG	5 cut(s)	45, 79, 234, 301, 735
BseLI	CCNNNNNNNGG	3 cut(s)	46, 240, 336
BseMII	CTCAG	1 cut(s)	749
BseNI	ACTGG	1 cut(s)	514
BseX3I	CGGCCG	1 cut(s)	316
BseXI	GCAGC	2 cut(s)	534, 628
BseYI	CCCAGC	1 cut(s)	273
Bsh1236I	CGCG	4 cut(s)	81, 351, 507, 585
Bsh1285I	CGRYCG	3 cut(s)	319, 426, 555
BshNI	GGYRCC	3 cut(s)	83, 418, 596
BshVI	ATCGAT	1 cut(s)	551
BsiEI	CGRYCG	3 cut(s)	319, 426, 555
BsiHKCI	CYCGRG	1 cut(s)	235
BsiSI	CCGG	8 cut(s)	36, 41, 315, 337, 416, 575, 623, 798
BslI	CCNNNNNNNGG	3 cut(s)	46, 240, 336
BsmAI	GTCTC	1 cut(s)	367
BsmBI	CGTCTC	1 cut(s)	367
BsoBI	CYCGRG	1 cut(s)	235
Bsp13I	TCCGGA	1 cut(s)	797
Bsp143I	GATC	8 cut(s)	7, 57, 423, 433, 471, 478, 552, 892
BspCNI	CTCAG	1 cut(s)	750
BspDI	ATCGAT	1 cut(s)	551
BspEI	TCCGGA	1 cut(s)	797
BspFNI	CGCG	4 cut(s)	81, 351, 507, 585
BspLI	GGNNCC	3 cut(s)	85, 420, 598
BspPI	GGATC	2 cut(s)	2, 52
BspT107I	GGYRCC	3 cut(s)	83, 418, 596
BsrBI	CCGCTC	1 cut(s)	253
BsrI	ACTGG	1 cut(s)	514
BssECI	CCNNGG	5 cut(s)	45, 79, 234, 301, 735
BssMI	GATC	8 cut(s)	7, 57, 423, 433, 471, 478, 552, 892
BssNI	GRCGYC	3 cut(s)	84, 419, 597
BssSI	CACGAG	1 cut(s)	497
Bst2BI	CACGAG	1 cut(s)	497
Bst2UI	CCWGG	2 cut(s)	47, 850
Bst4CI	ACNGT	1 cut(s)	187
Bst6I	CTCTTC	3 cut(s)	455, 464, 669
BstACI	GRCGYC	3 cut(s)	84, 419, 597
BstDEI	CTNAG	1 cut(s)	758
BstDSI	CCRYGG	1 cut(s)	79
BstFNI	CGCG	4 cut(s)	81, 351, 507, 585
BstH2I	RGCGCY	3 cut(s)	87, 422, 600
BstHHI	GCGC	5 cut(s)	86, 421, 509, 599, 734
BstKTI	GATC	8 cut(s)	10, 60, 426, 436, 474, 481, 555, 895
BstMAI	GTCTC	1 cut(s)	367
BstMBI	GATC	8 cut(s)	7, 57, 423, 433, 471, 478, 552, 892
BstMCI	CGRYCG	3 cut(s)	319, 426, 555
BstMWI	GCNNNNNNNGC	4 cut(s)	114, 425, 594, 603
BstNI	CCWGG	2 cut(s)	47, 850
BstNSI	RCATGY	1 cut(s)	730
BstSCI	CCNGG	4 cut(s)	39, 45, 573, 848
BstUI	CGCG	4 cut(s)	81, 351, 507, 585
BstV1I	GCAGC	2 cut(s)	534, 628
BstX2I	RGATCY	1 cut(s)	7
BstYI	RGATCY	1 cut(s)	7
BstZI	CGGCCG	1 cut(s)	316
Bsu15I	ATCGAT	1 cut(s)	551
BsuTUI	ATCGAT	1 cut(s)	551
BtgI	CCRYGG	1 cut(s)	79
BtgZI	GCGATG	2 cut(s)	106, 163
BtrI	CACGTC	1 cut(s)	112
CfoI	GCGC	5 cut(s)	86, 421, 509, 599, 734
Cfr13I	GGNCC	5 cut(s)	38, 43, 339, 572, 709
Cfr42I	CCGCGG	1 cut(s)	82
ClaI	ATCGAT	1 cut(s)	551
Csp6I	GTAC	1 cut(s)	502
CviAII	CATG	2 cut(s)	55, 727
CviQI	GTAC	1 cut(s)	502
DdeI	CTNAG	1 cut(s)	758
DinI	GGCGCC	3 cut(s)	85, 420, 598
DpnI	GATC	8 cut(s)	9, 59, 425, 435, 473, 480, 554, 894
DpnII	GATC	8 cut(s)	7, 57, 423, 433, 471, 478, 552, 892
EaeI	YGGCCR	4 cut(s)	106, 316, 586, 846
EagI	CGGCCG	1 cut(s)	316
Eam1104I	CTCTTC	3 cut(s)	455, 464, 669
EarI	CTCTTC	3 cut(s)	455, 464, 669
EciI	GGCGGA	2 cut(s)	251, 517
EclXI	CGGCCG	1 cut(s)	316
Eco52I	CGGCCG	1 cut(s)	316
Eco57I	CTGAAG	1 cut(s)	586
Eco88I	CYCGRG	1 cut(s)	235
EcoRI	GAATTC	1 cut(s)	353
EcoRII	CCWGG	2 cut(s)	45, 848
EgeI	GGCGCC	3 cut(s)	85, 420, 598
EheI	GGCGCC	3 cut(s)	85, 420, 598
Esp3I	CGTCTC	1 cut(s)	367
FaeI	CATG	2 cut(s)	58, 730
FaiI	YATR	3 cut(s)	56, 728, 816
FalI	AAGNNNNNCTT	2 cut(s)	686, 718
FatI	CATG	2 cut(s)	54, 726
FauI	CCCGC	2 cut(s)	86, 258
FblI	GTMKAC	2 cut(s)	90, 246
Fnu4HI	GCNGC	7 cut(s)	82, 265, 319, 322, 523, 586, 617
Fsp4HI	GCNGC	7 cut(s)	82, 265, 319, 322, 523, 586, 617
FspBI	CTAG	1 cut(s)	924
GlaI	GCGC	5 cut(s)	85, 420, 508, 598, 733
GluI	GCNGC	7 cut(s)	82, 265, 319, 322, 523, 586, 617
GsaI	CCCAGC	1 cut(s)	277
HaeII	RGCGCY	3 cut(s)	87, 422, 600
HapII	CCGG	8 cut(s)	36, 41, 315, 337, 416, 575, 623, 798
HhaI	GCGC	5 cut(s)	86, 421, 509, 599, 734
Hin1I	GRCGYC	3 cut(s)	84, 419, 597
Hin1II	CATG	2 cut(s)	58, 730
Hin6I	GCGC	5 cut(s)	84, 419, 507, 597, 732
HinP1I	GCGC	5 cut(s)	84, 419, 507, 597, 732
HincII	GTYRAC	3 cut(s)	91, 247, 565
HindII	GTYRAC	3 cut(s)	91, 247, 565
HinfI	GANTC	2 cut(s)	146, 877
HpaII	CCGG	8 cut(s)	36, 41, 315, 337, 416, 575, 623, 798
HphI	GGTGA	3 cut(s)	181, 385, 760
Hpy166II	GTNNAC	4 cut(s)	91, 247, 565, 664
Hpy188I	TCNGA	4 cut(s)	139, 478, 483, 778
Hpy188III	TCNNGA	2 cut(s)	798, 881
Hpy8I	GTNNAC	4 cut(s)	91, 247, 565, 664
Hpy99I	CGWCG	5 cut(s)	92, 95, 143, 146, 434
HpyAV	CCTTC	8 cut(s)	21, 205, 232, 406, 547, 610, 691, 700
HpyCH4III	ACNGT	1 cut(s)	187
HpyCH4IV	ACGT	1 cut(s)	111
HpyF10VI	GCNNNNNNNGC	4 cut(s)	114, 425, 594, 603
HpyF3I	CTNAG	1 cut(s)	758
HpySE526I	ACGT	1 cut(s)	111
Hsp92I	GRCGYC	3 cut(s)	84, 419, 597
Hsp92II	CATG	2 cut(s)	58, 730
HspAI	GCGC	5 cut(s)	84, 419, 507, 597, 732
KasI	GGCGCC	3 cut(s)	83, 418, 596
Kpn2I	TCCGGA	1 cut(s)	797
KspI	CCGCGG	1 cut(s)	82
Kzo9I	GATC	8 cut(s)	7, 57, 423, 433, 471, 478, 552, 892
LmnI	GCTCC	3 cut(s)	209, 258, 530
Lsp1109I	GCAGC	2 cut(s)	534, 628
LweI	GCATC	1 cut(s)	813
MaeI	CTAG	1 cut(s)	924
MaeII	ACGT	1 cut(s)	111
MaeIII	GTNAC	1 cut(s)	187
MalI	GATC	8 cut(s)	9, 59, 425, 435, 473, 480, 554, 894
MbiI	CCGCTC	1 cut(s)	253
MboI	GATC	8 cut(s)	7, 57, 423, 433, 471, 478, 552, 892
MflI	RGATCY	1 cut(s)	7
MlsI	TGGCCA	1 cut(s)	848
MluCI	AATT	4 cut(s)	208, 353, 638, 787
MluNI	TGGCCA	1 cut(s)	848
Mly113I	GGCGCC	3 cut(s)	84, 419, 597
MmeI	TCCRAC	4 cut(s)	85, 162, 390, 405
Mox20I	TGGCCA	1 cut(s)	848
MroI	TCCGGA	1 cut(s)	797
MscI	TGGCCA	1 cut(s)	848
MseI	TTAA	1 cut(s)	98
Msp20I	TGGCCA	1 cut(s)	848
MspA1I	CMGCKG	1 cut(s)	81
MspI	CCGG	8 cut(s)	36, 41, 315, 337, 416, 575, 623, 798
MspR9I	CCNGG	4 cut(s)	41, 47, 575, 850
MvaI	CCWGG	2 cut(s)	47, 850
MvnI	CGCG	4 cut(s)	81, 351, 507, 585
MwoI	GCNNNNNNNGC	4 cut(s)	114, 425, 594, 603
NarI	GGCGCC	3 cut(s)	84, 419, 597
NciI	CCSGG	2 cut(s)	41, 575
NdeII	GATC	8 cut(s)	7, 57, 423, 433, 471, 478, 552, 892
NlaIII	CATG	2 cut(s)	58, 730
NlaIV	GGNNCC	3 cut(s)	85, 420, 598
NmeAIII	GCCGAG	2 cut(s)	282, 760
NmuCI	GTSAC	1 cut(s)	187
NspI	RCATGY	1 cut(s)	730
PciI	ACATGT	1 cut(s)	726
PfeI	GAWTC	2 cut(s)	146, 877
PflFI	GACNNNGTC	1 cut(s)	560
PkrI	GCNGC	7 cut(s)	83, 266, 320, 323, 524, 587, 618
Ple19I	CGATCG	2 cut(s)	426, 555
PluTI	GGCGCC	3 cut(s)	87, 422, 600
PscI	ACATGT	1 cut(s)	726
Psp6I	CCWGG	2 cut(s)	45, 848
PspFI	CCCAGC	1 cut(s)	273
PspGI	CCWGG	2 cut(s)	45, 848
PspN4I	GGNNCC	3 cut(s)	85, 420, 598
PspPI	GGNCC	5 cut(s)	38, 43, 339, 572, 709
PsuI	RGATCY	1 cut(s)	7
PsyI	GACNNNGTC	1 cut(s)	560
PvuI	CGATCG	2 cut(s)	426, 555
RsaI	GTAC	1 cut(s)	503
RsaNI	GTAC	1 cut(s)	502
SacII	CCGCGG	1 cut(s)	82
SalI	GTCGAC	2 cut(s)	89, 245
SaqAI	TTAA	1 cut(s)	98
SatI	GCNGC	7 cut(s)	82, 265, 319, 322, 523, 586, 617
Sau3AI	GATC	8 cut(s)	7, 57, 423, 433, 471, 478, 552, 892
Sau96I	GGNCC	5 cut(s)	38, 43, 339, 572, 709
ScrFI	CCNGG	4 cut(s)	41, 47, 575, 850
SfaNI	GCATC	1 cut(s)	813
SfoI	GGCGCC	3 cut(s)	85, 420, 598
Sfr303I	CCGCGG	1 cut(s)	82
SgrBI	CCGCGG	1 cut(s)	82
SgrDI	CGTCGACG	1 cut(s)	89
Sse9I	AATT	4 cut(s)	208, 353, 638, 787
SspDI	GGCGCC	3 cut(s)	83, 418, 596
SspMI	CTAG	1 cut(s)	924
StyD4I	CCNGG	4 cut(s)	39, 45, 573, 848
TaaI	ACNGT	1 cut(s)	187
TaiI	ACGT	1 cut(s)	114
TaqI	TCGA	7 cut(s)	90, 246, 432, 540, 551, 555, 880
TasI	AATT	4 cut(s)	208, 353, 638, 787
TauI	GCSGC	5 cut(s)	84, 267, 321, 324, 588
TfiI	GAWTC	2 cut(s)	146, 877
Tru1I	TTAA	1 cut(s)	98
Tru9I	TTAA	1 cut(s)	98
TseFI	GTSAC	1 cut(s)	187
TseI	GCWGC	2 cut(s)	522, 616
Tsp45I	GTSAC	1 cut(s)	187
TspDTI	ATGAA	1 cut(s)	671
TspGWI	ACGGA	1 cut(s)	4
Tth111I	GACNNNGTC	1 cut(s)	560
XapI	RAATTY	1 cut(s)	353
XceI	RCATGY	1 cut(s)	730
XmiI	GTMKAC	2 cut(s)	90, 246
XspI	CTAG	1 cut(s)	924

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