Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0001415

Physical Location & Seq

Genomic Coordinates Forward (+)

64870025 .. 64872902

Gene Structure 2878 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG427700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 867 bp

ATGGACCCGGAAAAGGACGCATTCTATGTAGTCCGCAAAGGAAATGTCGTCGGTGTCTATAAGAGCTTCGCTGATTGCCAAGCTGAGCAAGGCTCTTCGATATGTGATCCTCCTATTAGTGTGTACAAAGGGTACTCTATGCCTAAGAAGGATGAGCAATATCTTGCTTCCTGTGGACTTCAGAATGCGCTTTACACTATTTCAGCTGCAGATATGAAAGATGAGCTTGCTTTTTGGCAAGCTTGTGGACTGTCCTCTTGGACCGATCCAGCATCTTCAAAAGGCGAAACGTCTGACAAGACTGCAGCAGCCAAGAAGAGATCCCACCAAGAGGCTGAATCAGAAAATGTGGAAGTAATTGGTTCAACTTCTGTATCAGATACTCCTTCCAGAAAGCAGGCCAAGAAAAAGGCTGAAGTTGAAGTTCCCCCTTCTGGCCGTGGCTGTACTCTTCAATTTGATGGTGCATCAAAAGGAAATCCTGGAGTAGCTGGTGCGGGAGCTGTACTGCGAGCAGATGATGGAACCTTGATCTGTAAACTACGTGAAGGTCTGGGTGTTGCAACCAGTAATGCTGCTGAGTACCGAGCTGTTATGTTAGGGTTAAAATATGCGCTTAAAAAAGGTTTTTCCAGGATTTTTGTTCAAGGTGACTCCAAACTCGTCTGTATGCAGGTTCAGGGTTTATGGCAGGTGAAAAAACAGAACTTGTCTACTTTGTATGAAGAGGTGAAGAAACTGAAGGATGGATTTGTCTCCTTCAAGATCAGTCATGTTCTTAGGGAGCTAAATTCTGAGGCAGATGCTCAAGCAAACTTGGCAATCACTCTTGCCGATGGTCAAGTCCAGGAAGAGTCTGGGAAGTAG

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

288

Amino Acids

30.97

Weight (kDa)

7.49

Isoelectric Point (pI)

31.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_H	PF00075	151 - 246	7.6e-07	RNase H
RVT_3	PF13456	153 - 273	1.6e-26	Reverse transcriptase-like

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

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)	682
Acc36I	ACCTGC	2 cut(s)	664, 682
AccI	GTMKAC	1 cut(s)	713
AciI	CCGC	2 cut(s)	34, 497
AclWI	GGATC	3 cut(s)	101, 260, 315
AcoI	YGGCCR	1 cut(s)	436
AcsI	RAATTY	1 cut(s)	790
AcuI	CTGAAG	3 cut(s)	164, 435, 761
AfaI	GTAC	5 cut(s)	125, 134, 448, 507, 584
AfiI	CCNNNNNNNGG	3 cut(s)	13, 331, 434
AgsI	TTSAA	6 cut(s)	279, 366, 422, 455, 647, 763
AjnI	CCWGG	3 cut(s)	481, 632, 846
AluBI	AGCT	9 cut(s)	66, 83, 206, 226, 242, 491, 503, 590, 787
AluI	AGCT	9 cut(s)	66, 83, 206, 226, 242, 491, 503, 590, 787
Alw26I	GTCTC	1 cut(s)	760
AlwI	GGATC	3 cut(s)	101, 260, 315
AoxI	GGCC	2 cut(s)	399, 436
ApeKI	GCWGC	4 cut(s)	206, 305, 308, 575
ApoI	RAATTY	1 cut(s)	790
ArsI	GACNNNNNNTTYG	2 cut(s)	30, 62
AspLEI	GCGC	2 cut(s)	190, 616
AspS9I	GGNCC	2 cut(s)	4, 261
AsuC2I	CCSGG	1 cut(s)	8
AsuHPI	GGTGA	3 cut(s)	662, 706, 742
AvaII	GGWCC	2 cut(s)	4, 261
BaeI	ACNNNNGTAYC	2 cut(s)	357, 390
BbvI	GCAGC	4 cut(s)	193, 317, 320, 562
BccI	CCATC	4 cut(s)	455, 515, 740, 830
BceAI	ACGGC	1 cut(s)	423
BciT130I	CCWGG	3 cut(s)	483, 634, 848
BcnI	CCSGG	1 cut(s)	8
BcoDI	GTCTC	1 cut(s)	760
BfmI	CTRYAG	2 cut(s)	207, 303
BfuAI	ACCTGC	2 cut(s)	664, 682
BisI	GCNGC	4 cut(s)	207, 306, 309, 576
BlpI	GCTNAGC	1 cut(s)	84
BlsI	GCNGC	4 cut(s)	208, 307, 310, 577
Bme1390I	CCNGG	4 cut(s)	8, 483, 634, 848
Bme18I	GGWCC	2 cut(s)	4, 261
BmgT120I	GGNCC	2 cut(s)	4, 261
BmiI	GGNNCC	2 cut(s)	6, 526
BmrFI	CCNGG	4 cut(s)	8, 483, 634, 848
BmsI	GCATC	3 cut(s)	281, 476, 793
BplI	GAGNNNNNCTC	2 cut(s)	77, 109
BpmI	CTGGAG	1 cut(s)	504
Bpu1102I	GCTNAGC	1 cut(s)	84
BpuEI	CTTGAG	1 cut(s)	792
BpuMI	CCSGG	1 cut(s)	8
BsaAI	YACGTR	1 cut(s)	545
BsaJI	CCNNGG	1 cut(s)	439
Bsc4I	CCNNNNNNNGG	3 cut(s)	13, 331, 434
Bse1I	ACTGG	1 cut(s)	567
BseBI	CCWGG	3 cut(s)	483, 634, 848
BseDI	CCNNGG	1 cut(s)	439
BseGI	GGATG	2 cut(s)	157, 751
BseLI	CCNNNNNNNGG	3 cut(s)	13, 331, 434
BseMII	CTCAG	3 cut(s)	75, 570, 786
BseNI	ACTGG	1 cut(s)	567
BseXI	GCAGC	4 cut(s)	193, 317, 320, 562
BshFI	GGCC	2 cut(s)	401, 438
BsiSI	CCGG	1 cut(s)	8
BslI	CCNNNNNNNGG	3 cut(s)	13, 331, 434
BsmAI	GTCTC	1 cut(s)	760
BsmI	GAATGC	2 cut(s)	20, 190
BsnI	GGCC	2 cut(s)	401, 438
Bsp1407I	TGTACA	1 cut(s)	123
Bsp143I	GATC	5 cut(s)	106, 265, 320, 531, 765
Bsp1720I	GCTNAGC	1 cut(s)	84
BspACI	CCGC	2 cut(s)	34, 497
BspANI	GGCC	2 cut(s)	401, 438
BspCNI	CTCAG	3 cut(s)	76, 571, 787
BspLI	GGNNCC	2 cut(s)	6, 526
BspMAI	CTGCAG	2 cut(s)	211, 307
BspMI	ACCTGC	2 cut(s)	664, 682
BspPI	GGATC	3 cut(s)	101, 260, 315
BspQI	GCTCTTC	1 cut(s)	100
BsrGI	TGTACA	1 cut(s)	123
BsrI	ACTGG	1 cut(s)	567
BssECI	CCNNGG	1 cut(s)	439
BssMI	GATC	5 cut(s)	106, 265, 320, 531, 765
Bst2UI	CCWGG	3 cut(s)	483, 634, 848
Bst4CI	ACNGT	1 cut(s)	252
Bst6I	CTCTTC	5 cut(s)	100, 311, 456, 720, 846
BstAUI	TGTACA	1 cut(s)	123
BstBAI	YACGTR	1 cut(s)	545
BstC8I	GCNNGC	4 cut(s)	228, 240, 399, 513
BstDEI	CTNAG	5 cut(s)	84, 144, 579, 779, 795
BstDSI	CCRYGG	1 cut(s)	439
BstF5I	GGATG	2 cut(s)	157, 751
BstHHI	GCGC	2 cut(s)	190, 616
BstKTI	GATC	5 cut(s)	109, 268, 323, 534, 768
BstMAI	GTCTC	1 cut(s)	760
BstMBI	GATC	5 cut(s)	106, 265, 320, 531, 765
BstMWI	GCNNNNNNNGC	1 cut(s)	818
BstNI	CCWGG	3 cut(s)	483, 634, 848
BstSCI	CCNGG	4 cut(s)	6, 481, 632, 846
BstSFI	CTRYAG	2 cut(s)	207, 303
BstV1I	GCAGC	4 cut(s)	193, 317, 320, 562
BstX2I	RGATCY	1 cut(s)	320
BstYI	RGATCY	1 cut(s)	320
BsuRI	GGCC	2 cut(s)	401, 438
BtgI	CCRYGG	1 cut(s)	439
BtsCI	GGATG	2 cut(s)	157, 751
BveI	ACCTGC	2 cut(s)	664, 682
Cac8I	GCNNGC	4 cut(s)	228, 240, 399, 513
CfoI	GCGC	2 cut(s)	190, 616
Cfr13I	GGNCC	2 cut(s)	4, 261
CseI	GACGC	1 cut(s)	26
Csp6I	GTAC	5 cut(s)	124, 133, 447, 506, 583
CviAII	CATG	1 cut(s)	773
CviQI	GTAC	5 cut(s)	124, 133, 447, 506, 583
DdeI	CTNAG	5 cut(s)	84, 144, 579, 779, 795
DpnI	GATC	5 cut(s)	108, 267, 322, 533, 767
DpnII	GATC	5 cut(s)	106, 265, 320, 531, 765
EaeI	YGGCCR	1 cut(s)	436
Eam1104I	CTCTTC	5 cut(s)	100, 311, 456, 720, 846
EarI	CTCTTC	5 cut(s)	100, 311, 456, 720, 846
Eco47I	GGWCC	2 cut(s)	4, 261
Eco57I	CTGAAG	3 cut(s)	164, 435, 761
EcoRII	CCWGG	3 cut(s)	481, 632, 846
FaeI	CATG	1 cut(s)	776
FalI	AAGNNNNNCTT	2 cut(s)	210, 242
FatI	CATG	1 cut(s)	772
FauI	CCCGC	1 cut(s)	490
FblI	GTMKAC	1 cut(s)	713
Fnu4HI	GCNGC	4 cut(s)	207, 306, 309, 576
FokI	GGATG	2 cut(s)	164, 758
Fsp4HI	GCNGC	4 cut(s)	207, 306, 309, 576
GlaI	GCGC	2 cut(s)	189, 615
GluI	GCNGC	4 cut(s)	207, 306, 309, 576
GsuI	CTGGAG	1 cut(s)	504
HaeIII	GGCC	2 cut(s)	401, 438
HapII	CCGG	1 cut(s)	8
HgaI	GACGC	1 cut(s)	26
HhaI	GCGC	2 cut(s)	190, 616
Hin1II	CATG	1 cut(s)	776
Hin6I	GCGC	2 cut(s)	188, 614
HinP1I	GCGC	2 cut(s)	188, 614
HindIII	AAGCTT	1 cut(s)	240
HinfI	GANTC	3 cut(s)	338, 653, 854
HpaII	CCGG	1 cut(s)	8
HphI	GGTGA	3 cut(s)	662, 706, 742
Hpy166II	GTNNAC	5 cut(s)	124, 176, 248, 539, 714
Hpy188I	TCNGA	5 cut(s)	183, 295, 343, 379, 796
Hpy188III	TCNNGA	2 cut(s)	390, 763
Hpy8I	GTNNAC	5 cut(s)	124, 176, 248, 539, 714
Hpy99I	CGWCG	1 cut(s)	53
HpyAV	CCTTC	6 cut(s)	142, 396, 441, 542, 736, 769
HpyCH4III	ACNGT	1 cut(s)	252
HpyCH4IV	ACGT	2 cut(s)	290, 544
HpyCH4V	TGCA	5 cut(s)	209, 305, 467, 563, 673
HpyF10VI	GCNNNNNNNGC	1 cut(s)	818
HpyF3I	CTNAG	5 cut(s)	84, 144, 579, 779, 795
HpySE526I	ACGT	2 cut(s)	290, 544
Hsp92II	CATG	1 cut(s)	776
HspAI	GCGC	2 cut(s)	188, 614
Kzo9I	GATC	5 cut(s)	106, 265, 320, 531, 765
LguI	GCTCTTC	1 cut(s)	100
LmnI	GCTCC	2 cut(s)	500, 784
Lsp1109I	GCAGC	4 cut(s)	193, 317, 320, 562
LweI	GCATC	3 cut(s)	281, 476, 793
MaeII	ACGT	2 cut(s)	290, 544
MaeIII	GTNAC	1 cut(s)	650
MalI	GATC	5 cut(s)	108, 267, 322, 533, 767
MboI	GATC	5 cut(s)	106, 265, 320, 531, 765
MboII	GAAGA	7 cut(s)	87, 267, 328, 443, 737, 745, 863
MflI	RGATCY	1 cut(s)	320
MluCI	AATT	3 cut(s)	357, 455, 790
MlyI	GAGTC	2 cut(s)	647, 863
MnlI	CCTC	5 cut(s)	120, 265, 325, 721, 790
MseI	TTAA	2 cut(s)	605, 618
MspA1I	CMGCKG	1 cut(s)	206
MspI	CCGG	1 cut(s)	8
MspR9I	CCNGG	4 cut(s)	8, 483, 634, 848
Mva1269I	GAATGC	2 cut(s)	20, 190
MvaI	CCWGG	3 cut(s)	483, 634, 848
MwoI	GCNNNNNNNGC	1 cut(s)	818
NciI	CCSGG	1 cut(s)	8
NdeII	GATC	5 cut(s)	106, 265, 320, 531, 765
NlaIII	CATG	1 cut(s)	776
NlaIV	GGNNCC	2 cut(s)	6, 526
NmuCI	GTSAC	1 cut(s)	650
PaqCI	CACCTGC	1 cut(s)	682
PciSI	GCTCTTC	1 cut(s)	100
PctI	GAATGC	2 cut(s)	20, 190
PfeI	GAWTC	1 cut(s)	338
PfoI	TCCNGGA	3 cut(s)	481, 632, 846
PkrI	GCNGC	4 cut(s)	208, 307, 310, 577
PleI	GAGTC	2 cut(s)	647, 862
PpsI	GAGTC	2 cut(s)	647, 862
Ppu21I	YACGTR	1 cut(s)	545
Psp6I	CCWGG	3 cut(s)	481, 632, 846
PspGI	CCWGG	3 cut(s)	481, 632, 846
PspN4I	GGNNCC	2 cut(s)	6, 526
PspPI	GGNCC	2 cut(s)	4, 261
PstI	CTGCAG	2 cut(s)	211, 307
PsuI	RGATCY	1 cut(s)	320
PvuII	CAGCTG	1 cut(s)	206
RsaI	GTAC	5 cut(s)	125, 134, 448, 507, 584
RsaNI	GTAC	5 cut(s)	124, 133, 447, 506, 583
SapI	GCTCTTC	1 cut(s)	100
SaqAI	TTAA	2 cut(s)	605, 618
SatI	GCNGC	4 cut(s)	207, 306, 309, 576
Sau3AI	GATC	5 cut(s)	106, 265, 320, 531, 765
Sau96I	GGNCC	2 cut(s)	4, 261
SchI	GAGTC	2 cut(s)	647, 863
ScrFI	CCNGG	4 cut(s)	8, 483, 634, 848
SfaNI	GCATC	3 cut(s)	281, 476, 793
SfcI	CTRYAG	2 cut(s)	207, 303
SinI	GGWCC	2 cut(s)	4, 261
SmlI	CTYRAG	1 cut(s)	807
SmoI	CTYRAG	1 cut(s)	807
Sse9I	AATT	3 cut(s)	357, 455, 790
SsiI	CCGC	2 cut(s)	34, 497
StyD4I	CCNGG	4 cut(s)	6, 481, 632, 846
TaaI	ACNGT	1 cut(s)	252
TaiI	ACGT	2 cut(s)	293, 547
TaqI	TCGA	1 cut(s)	98
TaqII	GACCGA	1 cut(s)	278
TasI	AATT	3 cut(s)	357, 455, 790
TatI	WGTACW	3 cut(s)	123, 446, 505
TfiI	GAWTC	1 cut(s)	338
Tru1I	TTAA	2 cut(s)	605, 618
Tru9I	TTAA	2 cut(s)	605, 618
TseFI	GTSAC	1 cut(s)	650
TseI	GCWGC	4 cut(s)	206, 305, 308, 575
Tsp45I	GTSAC	1 cut(s)	650
TspDTI	ATGAA	2 cut(s)	230, 738
VpaK11BI	GGWCC	2 cut(s)	4, 261
XapI	RAATTY	1 cut(s)	790
XcmI	CCANNNNNNNNNTGG	1 cut(s)	854
XmiI	GTMKAC	1 cut(s)	713

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