Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0011615

Physical Location & Seq

Genomic Coordinates Reverse (-)

29069221 .. 29076867

Gene Structure 7647 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG261300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 669 bp

ATGAGATCTCTCGCACACCGATCAACATCTCATTCTTGTGGTTCTCTCTTCCATCGTTCTCTTTACCGTTCTAAGCAGCCATGGCCACCGCTGCGTTGCTCCGATCTCTACGACGTCATGACCTCGCTTCAGCCCCTCTGTTCCTACTGCTTGCCGAAGTACCGATCTGTAAAGCCACTTTCAGTTAGCTATGGACTTGGCATGTCAGATCATGATAGCGAGGGGCGGATTGTAACAGTAGAGTTTGATTCATTTTACCTGATAAGTGGATATGTTCCTAATTCTGGAGATGGTTTGAGGAGACTGACATACAGGATTACAGAATGGGATCCATCTCTCAGTAATTACATGAAAGTAAGTATGGTTTTAATTGCTTTACCTCTTGAAGGAAATAGAAGAAGTGCTGGGTTTACAGATGAAGAACGGCAATCCTTCGGGACAAACTTTTTATCCAGAGGATTTGTGGATACATTTAGAAGGCAACACCCTGGTATTGTTGGCTATACTTACTGGGGCTATCGACATGGTGGACGCAAATTTAACAGAGGGTGGCGGCTTGACTACTTCCTAGTCTCAGAATCTGTAGCTGACAAGGTTCATGACTCGTACATTTTGCCTCATATTATTGGTAGCGATCATTGTCCTATAGGCCTTGTAATTAAGCTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0003906 GO:0004518 GO:0004527 GO:0004528 GO:0004529 GO:0004536 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006139 GO:0006259 GO:0006281 GO:0006284 GO:0006289 GO:0006355 GO:0006725 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006974 GO:0008081 GO:0008150 GO:0008152 GO:0008296 GO:0008309 GO:0008311 GO:0008408 GO:0009295 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016311 GO:0016787 GO:0016788 GO:0016791 GO:0016796 GO:0016895 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0033554 GO:0033683 GO:0034641 GO:0042578 GO:0042644 GO:0042646 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045893 GO:0045935 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0051716 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0140097 GO:1901360 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03410 map03410

Pfam Domains

Protein Families

Exo_endo_phos SAP

Protein Analysis

222

Amino Acids

25.43

Weight (kDa)

9.2

Isoelectric Point (pI)

51.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Exo_endo_phos	PF03372	154 - 213	5.7e-06	Endonuclease/Exonuclease/phosphatase family

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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Orthologous Genes (Group: OG0011615)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr3g0484431 RchiOBHm_Chr3g0484451 RchiOBHm_Chr3g0484521 RchiOBHm_Chr6g0264571 RchiOBHm_Chr7g0234091 RchiOBHm_Chr7g0234101
rosa_laevigata	RLG00000019653
rosa_roxburghii	Rroxscaffold_6G00397740
rosa_rugosa	Rorug02G0435500 Rorug04G0434900
rosa_samantha	Rh2BG509000 Rh2DG520800 Rh3AG260700 Rh3AG261300 Rh4AG296000 Rh4BG302500 Rh5DG374700 Rh7AG410800 Rh7AG468600
rosa_wichuraiana	Rw3G011340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	117
AciI	CCGC	3 cut(s)	89, 226, 553
AclWI	GGATC	2 cut(s)	323, 336
AcoI	YGGCCR	1 cut(s)	83
AcsI	RAATTY	1 cut(s)	536
AcuI	CTGAAG	1 cut(s)	113
AcyI	GRCGYC	1 cut(s)	114
AfaI	GTAC	2 cut(s)	161, 608
AfiI	CCNNNNNNNGG	2 cut(s)	284, 386
AgsI	TTSAA	1 cut(s)	386
AjnI	CCWGG	1 cut(s)	487
AluBI	AGCT	3 cut(s)	189, 587, 664
AluI	AGCT	3 cut(s)	189, 587, 664
Alw26I	GTCTC	2 cut(s)	295, 577
AlwI	GGATC	2 cut(s)	323, 336
AlwNI	CAGNNNCTG	1 cut(s)	581
AoxI	GGCC	2 cut(s)	83, 649
ApeKI	GCWGC	2 cut(s)	76, 91
ApoI	RAATTY	1 cut(s)	536
BalI	TGGCCA	1 cut(s)	85
BamHI	GGATCC	1 cut(s)	328
BbvI	GCAGC	2 cut(s)	78, 88
BccI	CCATC	3 cut(s)	60, 284, 340
BceAI	ACGGC	1 cut(s)	440
BciT130I	CCWGG	1 cut(s)	489
BciVI	GTATCC	1 cut(s)	460
BcoDI	GTCTC	2 cut(s)	295, 577
BfaI	CTAG	1 cut(s)	569
BfmI	CTRYAG	3 cut(s)	582, 645, 665
BfuI	GTATCC	1 cut(s)	460
BglII	AGATCT	1 cut(s)	5
BisI	GCNGC	3 cut(s)	77, 92, 554
BlsI	GCNGC	3 cut(s)	78, 93, 555
Bme1390I	CCNGG	1 cut(s)	489
BmiI	GGNNCC	1 cut(s)	330
BmrFI	CCNGG	1 cut(s)	489
BmrI	ACTGGG	1 cut(s)	520
BmuI	ACTGGG	1 cut(s)	520
BpmI	CTGGAG	1 cut(s)	306
BsaBI	GATNNNNATC	1 cut(s)	25
BsaHI	GRCGYC	1 cut(s)	114
BsaJI	CCNNGG	2 cut(s)	80, 487
Bsc4I	CCNNNNNNNGG	2 cut(s)	284, 386
Bse1I	ACTGG	1 cut(s)	515
Bse8I	GATNNNNATC	1 cut(s)	25
BseBI	CCWGG	1 cut(s)	489
BseDI	CCNNGG	2 cut(s)	80, 487
BseJI	GATNNNNATC	1 cut(s)	25
BseLI	CCNNNNNNNGG	2 cut(s)	284, 386
BseMII	CTCAG	2 cut(s)	352, 588
BseNI	ACTGG	1 cut(s)	515
BseRI	GAGGAG	1 cut(s)	313
BseXI	GCAGC	2 cut(s)	78, 88
BseYI	CCCAGC	1 cut(s)	404
BshFI	GGCC	2 cut(s)	85, 651
BslFI	GGGAC	1 cut(s)	451
BslI	CCNNNNNNNGG	2 cut(s)	284, 386
BsmAI	GTCTC	2 cut(s)	295, 577
BsmFI	GGGAC	1 cut(s)	451
BsnI	GGCC	2 cut(s)	85, 651
Bsp143I	GATC	7 cut(s)	5, 20, 103, 164, 208, 328, 634
Bsp19I	CCATGG	1 cut(s)	80
BspACI	CCGC	3 cut(s)	89, 226, 553
BspANI	GGCC	2 cut(s)	85, 651
BspCNI	CTCAG	2 cut(s)	351, 587
BspHI	TCATGA	3 cut(s)	117, 211, 598
BspLI	GGNNCC	1 cut(s)	330
BspPI	GGATC	2 cut(s)	323, 336
BsrI	ACTGG	1 cut(s)	515
BssECI	CCNNGG	2 cut(s)	80, 487
BssMI	GATC	7 cut(s)	5, 20, 103, 164, 208, 328, 634
BssNI	GRCGYC	1 cut(s)	114
BssT1I	CCWWGG	1 cut(s)	80
Bst2UI	CCWGG	1 cut(s)	489
Bst4CI	ACNGT	2 cut(s)	68, 238
Bst6I	CTCTTC	1 cut(s)	53
BstACI	GRCGYC	1 cut(s)	114
BstC8I	GCNNGC	1 cut(s)	152
BstDEI	CTNAG	3 cut(s)	72, 338, 574
BstDSI	CCRYGG	1 cut(s)	80
BstENI	CCTNNNNNAGG	1 cut(s)	384
BstKTI	GATC	7 cut(s)	8, 23, 106, 167, 211, 331, 637
BstMAI	GTCTC	2 cut(s)	295, 577
BstMBI	GATC	7 cut(s)	5, 20, 103, 164, 208, 328, 634
BstMWI	GCNNNNNNNGC	2 cut(s)	82, 91
BstNI	CCWGG	1 cut(s)	489
BstNSI	RCATGY	1 cut(s)	205
BstSCI	CCNGG	1 cut(s)	487
BstSFI	CTRYAG	3 cut(s)	582, 645, 665
BstV1I	GCAGC	2 cut(s)	78, 88
BstX2I	RGATCY	2 cut(s)	5, 328
BstYI	RGATCY	2 cut(s)	5, 328
BsuI	GTATCC	1 cut(s)	460
BsuRI	GGCC	2 cut(s)	85, 651
BtgI	CCRYGG	1 cut(s)	80
Cac8I	GCNNGC	1 cut(s)	152
CaiI	CAGNNNCTG	1 cut(s)	581
CciI	TCATGA	3 cut(s)	117, 211, 598
CseI	GACGC	1 cut(s)	540
Csp6I	GTAC	2 cut(s)	160, 607
CviAII	CATG	7 cut(s)	81, 118, 202, 212, 349, 524, 599
CviQI	GTAC	2 cut(s)	160, 607
DdeI	CTNAG	3 cut(s)	72, 338, 574
DpnI	GATC	7 cut(s)	7, 22, 105, 166, 210, 330, 636
DpnII	GATC	7 cut(s)	5, 20, 103, 164, 208, 328, 634
EaeI	YGGCCR	1 cut(s)	83
Eam1104I	CTCTTC	1 cut(s)	53
EarI	CTCTTC	1 cut(s)	53
EciI	GGCGGA	1 cut(s)	241
Eco130I	CCWWGG	1 cut(s)	80
Eco147I	AGGCCT	1 cut(s)	651
Eco57I	CTGAAG	1 cut(s)	113
EcoNI	CCTNNNNNAGG	1 cut(s)	384
EcoRII	CCWGG	1 cut(s)	487
EcoT14I	CCWWGG	1 cut(s)	80
ErhI	CCWWGG	1 cut(s)	80
FaeI	CATG	7 cut(s)	84, 121, 205, 215, 352, 527, 602
FaqI	GGGAC	1 cut(s)	451
FatI	CATG	7 cut(s)	80, 117, 201, 211, 348, 523, 598
Fnu4HI	GCNGC	3 cut(s)	77, 92, 554
Fsp4HI	GCNGC	3 cut(s)	77, 92, 554
FspBI	CTAG	1 cut(s)	569
GluI	GCNGC	3 cut(s)	77, 92, 554
GsaI	CCCAGC	1 cut(s)	408
GsuI	CTGGAG	1 cut(s)	306
HaeIII	GGCC	2 cut(s)	85, 651
HgaI	GACGC	1 cut(s)	540
Hin1I	GRCGYC	1 cut(s)	114
Hin1II	CATG	7 cut(s)	84, 121, 205, 215, 352, 527, 602
HinfI	GANTC	3 cut(s)	248, 578, 602
Hpy166II	GTNNAC	2 cut(s)	411, 530
Hpy188I	TCNGA	3 cut(s)	103, 208, 577
Hpy188III	TCNNGA	7 cut(s)	118, 212, 285, 383, 436, 453, 599
Hpy8I	GTNNAC	2 cut(s)	411, 530
Hpy99I	CGWCG	1 cut(s)	116
HpyAV	CCTTC	3 cut(s)	380, 442, 471
HpyCH4III	ACNGT	2 cut(s)	68, 238
HpyCH4IV	ACGT	1 cut(s)	114
HpyF10VI	GCNNNNNNNGC	2 cut(s)	82, 91
HpyF3I	CTNAG	3 cut(s)	72, 338, 574
HpySE526I	ACGT	1 cut(s)	114
Hsp92I	GRCGYC	1 cut(s)	114
Hsp92II	CATG	7 cut(s)	84, 121, 205, 215, 352, 527, 602
Kzo9I	GATC	7 cut(s)	5, 20, 103, 164, 208, 328, 634
LmnI	GCTCC	1 cut(s)	104
LpnPI	CCDG	8 cut(s)	270, 272, 298, 390, 466, 474, 496, 501
Lsp1109I	GCAGC	2 cut(s)	78, 88
MaeI	CTAG	1 cut(s)	569
MaeII	ACGT	1 cut(s)	114
MaeIII	GTNAC	1 cut(s)	232
MalI	GATC	7 cut(s)	7, 22, 105, 166, 210, 330, 636
MboI	GATC	7 cut(s)	5, 20, 103, 164, 208, 328, 634
MboII	GAAGA	3 cut(s)	40, 408, 431
MflI	RGATCY	2 cut(s)	5, 328
MlsI	TGGCCA	1 cut(s)	85
MluCI	AATT	5 cut(s)	280, 343, 369, 536, 657
MluNI	TGGCCA	1 cut(s)	85
MlyI	GAGTC	1 cut(s)	596
MnlI	CCTC	8 cut(s)	133, 146, 214, 291, 390, 449, 539, 627
Mox20I	TGGCCA	1 cut(s)	85
MscI	TGGCCA	1 cut(s)	85
MseI	TTAA	3 cut(s)	368, 540, 660
MslI	CAYNNNNRTG	1 cut(s)	36
Msp20I	TGGCCA	1 cut(s)	85
MspA1I	CMGCKG	1 cut(s)	91
MspR9I	CCNGG	1 cut(s)	489
MvaI	CCWGG	1 cut(s)	489
MwoI	GCNNNNNNNGC	2 cut(s)	82, 91
NcoI	CCATGG	1 cut(s)	80
NdeII	GATC	7 cut(s)	5, 20, 103, 164, 208, 328, 634
NlaIII	CATG	7 cut(s)	84, 121, 205, 215, 352, 527, 602
NlaIV	GGNNCC	1 cut(s)	330
NspI	RCATGY	1 cut(s)	205
PagI	TCATGA	3 cut(s)	117, 211, 598
PceI	AGGCCT	1 cut(s)	651
PfeI	GAWTC	2 cut(s)	248, 578
PkrI	GCNGC	3 cut(s)	78, 93, 555
PleI	GAGTC	1 cut(s)	596
PpsI	GAGTC	1 cut(s)	596
Psp6I	CCWGG	1 cut(s)	487
PspFI	CCCAGC	1 cut(s)	404
PspGI	CCWGG	1 cut(s)	487
PspN4I	GGNNCC	1 cut(s)	330
PstNI	CAGNNNCTG	1 cut(s)	581
PsuI	RGATCY	2 cut(s)	5, 328
RsaI	GTAC	2 cut(s)	161, 608
RsaNI	GTAC	2 cut(s)	160, 607
RseI	CAYNNNNRTG	1 cut(s)	36
SaqAI	TTAA	3 cut(s)	368, 540, 660
SatI	GCNGC	3 cut(s)	77, 92, 554
Sau3AI	GATC	7 cut(s)	5, 20, 103, 164, 208, 328, 634
SchI	GAGTC	1 cut(s)	596
ScrFI	CCNGG	1 cut(s)	489
SetI	ASST	8 cut(s)	117, 125, 191, 261, 382, 589, 597, 666
SfcI	CTRYAG	3 cut(s)	582, 645, 665
SmiMI	CAYNNNNRTG	1 cut(s)	36
Sse9I	AATT	5 cut(s)	280, 343, 369, 536, 657
SseBI	AGGCCT	1 cut(s)	651
SsiI	CCGC	3 cut(s)	89, 226, 553
SspMI	CTAG	1 cut(s)	569
StuI	AGGCCT	1 cut(s)	651
StyD4I	CCNGG	1 cut(s)	487
StyI	CCWWGG	1 cut(s)	80
TaaI	ACNGT	2 cut(s)	68, 238
TaiI	ACGT	1 cut(s)	117
TaqI	TCGA	1 cut(s)	520
TasI	AATT	5 cut(s)	280, 343, 369, 536, 657
TauI	GCSGC	1 cut(s)	556
TfiI	GAWTC	2 cut(s)	248, 578
Tru1I	TTAA	3 cut(s)	368, 540, 660
Tru9I	TTAA	3 cut(s)	368, 540, 660
TseI	GCWGC	2 cut(s)	76, 91
TspDTI	ATGAA	4 cut(s)	240, 365, 432, 587
XagI	CCTNNNNNAGG	1 cut(s)	384
XapI	RAATTY	1 cut(s)	536
XceI	RCATGY	1 cut(s)	205
XcmI	CCANNNNNNNNNTGG	1 cut(s)	460
XspI	CTAG	1 cut(s)	569
ZraI	GACGTC	1 cut(s)	115

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