Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0001415

Physical Location & Seq

Genomic Coordinates Forward (+)

61428474 .. 61430706

Gene Structure 2233 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG421000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 795 bp

ATGTCGTCGGTGTGTATAAGAGCTTCGCTGATTGCCAAGCTGAGCAAGGCTCTTCGATATGTGATCCTCCTATTAGTGTGTACAAAGGATGAGCAATATCTTGCTTCCTGTGGACTTCAGAATGCGCTTTACACTATTTCAGCTGCAGATATGAAAGATGAGCTTTTTGGCAAGCTTCTGGACTGTCCTCTTGGAGATCCAGCATCTTCAAAAGGCGAAACGTCTGACAAGACTGCAGCCAAGAAGAGATCCCACCAAGAGGCTGAATCAGAAAATGTGGAAGTAATTGGTTCAACTTCTGTATCAGATACTCCTTCCAGAAAGCAGGCCAAGAAAAAGGCTGAAGTTGAAGTTCCCCCTTCTGGCCGTGGCTGTACTCTTCAATTTGATGGTGCATCAAAAGGAAATCCTGGAGTAGCTGGTGCTGGAGCTGTACTGCAAGCAGATGATGGAACCTTGATCTGTAAACTACGTGAAGGTCTGGGTGTTGCAACCAGTAACGCTGCTGAGTACCAAGCTGTTATTTTAGGGTTAAAATATGCGCTTAAAAAAGGTTTTTCCAGGATTTTTGTTCAAGGTGACTCCAAACTCGTCTGTATGCAGGTTCAGGGTTTATGGCAGGTGAAAAACCAGAACTTGTCTACTTTGCATGAAGAGGTGAAGAAACTGAAGGATGGATTTGTCTCCTTCAAGATCAGTCATGTTCTTAGGGAGCTAAATTCTGAGGCAGATGCTCAAGCAAACTTGGCAATCACTCTTGCCGATGGTCAAGTCCAGGAAGAGTCTGGGAAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Cauli_VI DUF393 RVT_3

Protein Analysis

264

Amino Acids

28.15

Weight (kDa)

8.08

Isoelectric Point (pI)

33.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_H	PF00075	127 - 222	6.8e-08	RNase H
RVT_3	PF13456	129 - 249	2.5e-26	Reverse transcriptase-like

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001415)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981
malus_domestica	MD15G1022000.v1.1 MD16G1087400.v1.1
prunus_persica	Prupe.1G259600_v2.0.a1 Prupe.1G373800_v2.0.a1 Prupe.1G373800_v2.0.a1 Prupe.1G373800_v2.0.a1 Prupe.1G373800_v2.0.a1 Prupe.1G373800_v2.0.a1
pyrus_communis	pycom09g11760 pycom15g01830 pycom16g07500
rosa_chinensis	RchiOBHm_Chr4g0444511 RchiOBHm_Chr6g0245201 RchiOBHm_Chr6g0301731
rosa_laevigata	RLG00000005828 RLG00000011227 RLG00000015316
rosa_roxburghii	Rroxscaffold_3G00242180 Rroxscaffold_5G00384990 Rroxscaffold_7G00166470 Rroxscaffold_7G00215360
rosa_rugosa	Rorug03G0154200
rosa_samantha	Rh4AG413500 Rh4BG425000 Rh4CG439600 Rh4DG420500 Rh6AG027900 Rh6AG421000 Rh6BG024100 Rh6BG427700 Rh6CG434300 Rh6DG421200
rosa_wichuraiana	Rw4G035520 Rw6G002360 Rw6G036440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	610
Acc36I	ACCTGC	2 cut(s)	592, 610
AccI	GTMKAC	1 cut(s)	641
AclWI	GGATC	3 cut(s)	58, 191, 243
AcoI	YGGCCR	1 cut(s)	364
AcsI	RAATTY	1 cut(s)	718
AcuI	CTGAAG	3 cut(s)	101, 363, 689
AfaI	GTAC	4 cut(s)	82, 376, 435, 512
AfiI	CCNNNNNNNGG	2 cut(s)	259, 362
AgsI	TTSAA	6 cut(s)	210, 294, 350, 383, 575, 691
AjnI	CCWGG	3 cut(s)	409, 560, 774
AluBI	AGCT	9 cut(s)	23, 40, 143, 163, 175, 419, 431, 518, 715
AluI	AGCT	9 cut(s)	23, 40, 143, 163, 175, 419, 431, 518, 715
Alw26I	GTCTC	1 cut(s)	688
AlwI	GGATC	3 cut(s)	58, 191, 243
AoxI	GGCC	2 cut(s)	327, 364
ApeKI	GCWGC	3 cut(s)	143, 236, 503
ApoI	RAATTY	1 cut(s)	718
AspLEI	GCGC	2 cut(s)	127, 544
AsuHPI	GGTGA	3 cut(s)	590, 634, 670
BaeI	ACNNNNGTAYC	2 cut(s)	285, 318
BarI	GAAGNNNNNNTAC	2 cut(s)	7, 39
BbvI	GCAGC	3 cut(s)	130, 248, 490
BccI	CCATC	4 cut(s)	383, 443, 668, 758
BceAI	ACGGC	1 cut(s)	351
BciT130I	CCWGG	3 cut(s)	411, 562, 776
BcoDI	GTCTC	1 cut(s)	688
BfmI	CTRYAG	2 cut(s)	144, 234
BfuAI	ACCTGC	2 cut(s)	592, 610
BisI	GCNGC	3 cut(s)	144, 237, 504
BlpI	GCTNAGC	1 cut(s)	41
BlsI	GCNGC	3 cut(s)	145, 238, 505
Bme1390I	CCNGG	3 cut(s)	411, 562, 776
BmiI	GGNNCC	1 cut(s)	454
BmrFI	CCNGG	3 cut(s)	411, 562, 776
BmsI	GCATC	3 cut(s)	212, 404, 721
BplI	GAGNNNNNCTC	2 cut(s)	34, 66
BpmI	CTGGAG	2 cut(s)	432, 447
Bpu1102I	GCTNAGC	1 cut(s)	41
BpuEI	CTTGAG	1 cut(s)	720
BsaAI	YACGTR	1 cut(s)	473
BsaJI	CCNNGG	1 cut(s)	367
Bsc4I	CCNNNNNNNGG	2 cut(s)	259, 362
Bse1I	ACTGG	1 cut(s)	495
BseBI	CCWGG	3 cut(s)	411, 562, 776
BseDI	CCNNGG	1 cut(s)	367
BseGI	GGATG	2 cut(s)	94, 679
BseLI	CCNNNNNNNGG	2 cut(s)	259, 362
BseMII	CTCAG	3 cut(s)	32, 498, 714
BseNI	ACTGG	1 cut(s)	495
BseXI	GCAGC	3 cut(s)	130, 248, 490
BshFI	GGCC	2 cut(s)	329, 366
BslI	CCNNNNNNNGG	2 cut(s)	259, 362
BsmAI	GTCTC	1 cut(s)	688
BsmI	GAATGC	1 cut(s)	127
BsnI	GGCC	2 cut(s)	329, 366
Bsp1407I	TGTACA	1 cut(s)	80
Bsp143I	GATC	5 cut(s)	63, 196, 248, 459, 693
Bsp1720I	GCTNAGC	1 cut(s)	41
BspANI	GGCC	2 cut(s)	329, 366
BspCNI	CTCAG	3 cut(s)	33, 499, 715
BspLI	GGNNCC	1 cut(s)	454
BspMAI	CTGCAG	2 cut(s)	148, 238
BspMI	ACCTGC	2 cut(s)	592, 610
BspPI	GGATC	3 cut(s)	58, 191, 243
BspQI	GCTCTTC	1 cut(s)	57
BsrGI	TGTACA	1 cut(s)	80
BsrI	ACTGG	1 cut(s)	495
BssECI	CCNNGG	1 cut(s)	367
BssMI	GATC	5 cut(s)	63, 196, 248, 459, 693
Bst2UI	CCWGG	3 cut(s)	411, 562, 776
Bst4CI	ACNGT	1 cut(s)	185
Bst6I	CTCTTC	5 cut(s)	57, 239, 384, 648, 774
BstAUI	TGTACA	1 cut(s)	80
BstBAI	YACGTR	1 cut(s)	473
BstC8I	GCNNGC	3 cut(s)	173, 327, 441
BstDEI	CTNAG	4 cut(s)	41, 507, 707, 723
BstDSI	CCRYGG	1 cut(s)	367
BstF5I	GGATG	2 cut(s)	94, 679
BstHHI	GCGC	2 cut(s)	127, 544
BstKTI	GATC	5 cut(s)	66, 199, 251, 462, 696
BstMAI	GTCTC	1 cut(s)	688
BstMBI	GATC	5 cut(s)	63, 196, 248, 459, 693
BstMWI	GCNNNNNNNGC	1 cut(s)	746
BstNI	CCWGG	3 cut(s)	411, 562, 776
BstSCI	CCNGG	3 cut(s)	409, 560, 774
BstSFI	CTRYAG	2 cut(s)	144, 234
BstV1I	GCAGC	3 cut(s)	130, 248, 490
BstX2I	RGATCY	2 cut(s)	196, 248
BstYI	RGATCY	2 cut(s)	196, 248
BsuRI	GGCC	2 cut(s)	329, 366
BtgI	CCRYGG	1 cut(s)	367
BtsCI	GGATG	2 cut(s)	94, 679
BveI	ACCTGC	2 cut(s)	592, 610
Cac8I	GCNNGC	3 cut(s)	173, 327, 441
CfoI	GCGC	2 cut(s)	127, 544
Csp6I	GTAC	4 cut(s)	81, 375, 434, 511
CviAII	CATG	2 cut(s)	650, 701
CviQI	GTAC	4 cut(s)	81, 375, 434, 511
DdeI	CTNAG	4 cut(s)	41, 507, 707, 723
DpnI	GATC	5 cut(s)	65, 198, 250, 461, 695
DpnII	GATC	5 cut(s)	63, 196, 248, 459, 693
EaeI	YGGCCR	1 cut(s)	364
Eam1104I	CTCTTC	5 cut(s)	57, 239, 384, 648, 774
EarI	CTCTTC	5 cut(s)	57, 239, 384, 648, 774
Eco57I	CTGAAG	3 cut(s)	101, 363, 689
EcoRII	CCWGG	3 cut(s)	409, 560, 774
FaeI	CATG	2 cut(s)	653, 704
FaiI	YATR	8 cut(s)	17, 60, 152, 540, 599, 616, 651, 702
FalI	AAGNNNNNCTT	2 cut(s)	147, 179
FatI	CATG	2 cut(s)	649, 700
FblI	GTMKAC	1 cut(s)	641
Fnu4HI	GCNGC	3 cut(s)	144, 237, 504
FokI	GGATG	2 cut(s)	101, 686
Fsp4HI	GCNGC	3 cut(s)	144, 237, 504
GlaI	GCGC	2 cut(s)	126, 543
GluI	GCNGC	3 cut(s)	144, 237, 504
GsuI	CTGGAG	2 cut(s)	432, 447
HaeIII	GGCC	2 cut(s)	329, 366
HhaI	GCGC	2 cut(s)	127, 544
Hin1II	CATG	2 cut(s)	653, 704
Hin6I	GCGC	2 cut(s)	125, 542
HinP1I	GCGC	2 cut(s)	125, 542
HindIII	AAGCTT	1 cut(s)	173
HinfI	GANTC	3 cut(s)	266, 581, 782
HphI	GGTGA	3 cut(s)	590, 634, 670
Hpy166II	GTNNAC	4 cut(s)	81, 113, 467, 642
Hpy188I	TCNGA	5 cut(s)	120, 226, 271, 307, 724
Hpy188III	TCNNGA	3 cut(s)	179, 318, 691
Hpy8I	GTNNAC	4 cut(s)	81, 113, 467, 642
Hpy99I	CGWCG	1 cut(s)	10
HpyAV	CCTTC	5 cut(s)	324, 369, 470, 664, 697
HpyCH4III	ACNGT	1 cut(s)	185
HpyCH4IV	ACGT	2 cut(s)	221, 472
HpyCH4V	TGCA	7 cut(s)	146, 236, 395, 439, 491, 601, 649
HpyF10VI	GCNNNNNNNGC	1 cut(s)	746
HpyF3I	CTNAG	4 cut(s)	41, 507, 707, 723
HpySE526I	ACGT	2 cut(s)	221, 472
Hsp92II	CATG	2 cut(s)	653, 704
HspAI	GCGC	2 cut(s)	125, 542
Kzo9I	GATC	5 cut(s)	63, 196, 248, 459, 693
LguI	GCTCTTC	1 cut(s)	57
LmnI	GCTCC	2 cut(s)	428, 712
Lsp1109I	GCAGC	3 cut(s)	130, 248, 490
LweI	GCATC	3 cut(s)	212, 404, 721
MaeII	ACGT	2 cut(s)	221, 472
MaeIII	GTNAC	2 cut(s)	497, 578
MalI	GATC	5 cut(s)	65, 198, 250, 461, 695
MboI	GATC	5 cut(s)	63, 196, 248, 459, 693
MboII	GAAGA	7 cut(s)	44, 198, 256, 371, 665, 673, 791
MflI	RGATCY	2 cut(s)	196, 248
MluCI	AATT	3 cut(s)	285, 383, 718
MlyI	GAGTC	2 cut(s)	575, 791
MnlI	CCTC	5 cut(s)	77, 198, 253, 649, 718
MseI	TTAA	2 cut(s)	533, 546
MspA1I	CMGCKG	1 cut(s)	143
MspR9I	CCNGG	3 cut(s)	411, 562, 776
Mva1269I	GAATGC	1 cut(s)	127
MvaI	CCWGG	3 cut(s)	411, 562, 776
MwoI	GCNNNNNNNGC	1 cut(s)	746
NdeII	GATC	5 cut(s)	63, 196, 248, 459, 693
NlaIII	CATG	2 cut(s)	653, 704
NlaIV	GGNNCC	1 cut(s)	454
NmuCI	GTSAC	1 cut(s)	578
PaqCI	CACCTGC	1 cut(s)	610
PciSI	GCTCTTC	1 cut(s)	57
PctI	GAATGC	1 cut(s)	127
PfeI	GAWTC	1 cut(s)	266
PfoI	TCCNGGA	3 cut(s)	409, 560, 774
PkrI	GCNGC	3 cut(s)	145, 238, 505
PleI	GAGTC	2 cut(s)	575, 790
PpsI	GAGTC	2 cut(s)	575, 790
Ppu21I	YACGTR	1 cut(s)	473
Psp6I	CCWGG	3 cut(s)	409, 560, 774
PspGI	CCWGG	3 cut(s)	409, 560, 774
PspN4I	GGNNCC	1 cut(s)	454
PstI	CTGCAG	2 cut(s)	148, 238
PsuI	RGATCY	2 cut(s)	196, 248
PvuII	CAGCTG	1 cut(s)	143
RsaI	GTAC	4 cut(s)	82, 376, 435, 512
RsaNI	GTAC	4 cut(s)	81, 375, 434, 511
SapI	GCTCTTC	1 cut(s)	57
SaqAI	TTAA	2 cut(s)	533, 546
SatI	GCNGC	3 cut(s)	144, 237, 504
Sau3AI	GATC	5 cut(s)	63, 196, 248, 459, 693
SchI	GAGTC	2 cut(s)	575, 791
ScrFI	CCNGG	3 cut(s)	411, 562, 776
SfaNI	GCATC	3 cut(s)	212, 404, 721
SfcI	CTRYAG	2 cut(s)	144, 234
SmlI	CTYRAG	1 cut(s)	735
SmoI	CTYRAG	1 cut(s)	735
Sse9I	AATT	3 cut(s)	285, 383, 718
StyD4I	CCNGG	3 cut(s)	409, 560, 774
TaaI	ACNGT	1 cut(s)	185
TaiI	ACGT	2 cut(s)	224, 475
TaqI	TCGA	1 cut(s)	55
TasI	AATT	3 cut(s)	285, 383, 718
TatI	WGTACW	3 cut(s)	80, 374, 433
TfiI	GAWTC	1 cut(s)	266
Tru1I	TTAA	2 cut(s)	533, 546
Tru9I	TTAA	2 cut(s)	533, 546
TseFI	GTSAC	1 cut(s)	578
TseI	GCWGC	3 cut(s)	143, 236, 503
Tsp45I	GTSAC	1 cut(s)	578
TspDTI	ATGAA	2 cut(s)	167, 666
XapI	RAATTY	1 cut(s)	718
XcmI	CCANNNNNNNNNTGG	1 cut(s)	782
XmiI	GTMKAC	1 cut(s)	641

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