Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0005441

Physical Location & Seq

Genomic Coordinates Forward (+)

13262973 .. 13263605

Gene Structure 633 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0085500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 633 bp

ATGGATCGATTAGCTTCTAGACATGTGGAATTGGAGTCTCAAGTTTGCGTGTTGTGCAATGTTGAAACTGAAACTATTATTCATATATGCCGTAATTGTACTTTTACAAGGGATGTCTTTAGCTCTAAGGCCAGCATAATGGGGTGTTGTTTGGGATCTGCTACTGATGAGTTGGATGCCTTGAGTTGGTTACATTATTGCTCTGACAAATTATCTAAGACTACTTTTACTCAGCTGTTATTTTTGATTTGGGGAATATGGAAAGAAAGGAATGCTAGAGTATGGGACCATAAAATCACCTCAGCTTGTGATATAGCTCTCATGTCTACTAGCAGACTCAGTAATTTTATTTTTCACAACTCCAAGGTGCAACGAGTTCAGGGTGTGGGACGACATATGAAATGGAAGGCACCTCCTCAAGGTTGGGTGAAGTTGAATTTTGATGGGGCCTATAATGTTGGGACTAGACGAGCTGCTGTGGGTTTTTTGGTCAGGGATGCACATGGCACTTTCTTAAGGGGTGTTGGTAAAATAGTACATCATGTTCAATCAGCTGAACATGCTGAGCTTTTGGCTTGTAAGGAAGCAGTATCTTTTGCGGTGGAGCAGGCTTTACAGCCTATTATTTTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000229 GO:0005575 GO:0005622 GO:0005623 GO:0005694 GO:0005737 GO:0005829 GO:0009295 GO:0009507 GO:0009508 GO:0009532 GO:0009536 GO:0009570 GO:0042646 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

No domains found.

Protein Analysis

210

Amino Acids

23.65

Weight (kDa)

8.77

Isoelectric Point (pI)

38.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	146 - 210	1.9e-09	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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Publication-ready

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Orthologous Genes (Group: OG0005441)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G48500 AT3G48500
fragaria_vesca	FvH4_5g07670 FvH4_5g07670 FvH4_5g07670
malus_domestica	MD14G1162400.v1.1
prunus_persica	Prupe.5G155500_v2.0.a1
pyrus_communis	pycom14g13530
rosa_chinensis	RchiOBHm_Chr1g0380381 RchiOBHm_Chr7g0190801
rosa_laevigata	RLG00000004495 RLG00000004556 RLG00000026308
rosa_multiflora	Rmu_sc0002819.1_g000003 Rmu_sc0003249.1_g000020
rosa_roxburghii	Rroxscaffold_3G00264290 Rroxscaffold_4G00279440
rosa_rugosa	Rorug04G0085500 Rorug06G0507200
rosa_samantha	Rh1CG414500 Rh4AG090600 Rh4BG147500 Rh4CG098900 Rh7AG113800 Rh7BG116400 Rh7CG119100 Rh7DG117700
rosa_wichuraiana	Rw1G038700 Rw7G009930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	409
AccI	GTMKAC	1 cut(s)	326
AciI	CCGC	1 cut(s)	599
AclWI	GGATC	2 cut(s)	12, 163
AcsI	RAATTY	1 cut(s)	436
AfaI	GTAC	2 cut(s)	100, 537
AfiI	CCNNNNNNNGG	2 cut(s)	186, 419
AflII	CTTAAG	1 cut(s)	514
AflIII	ACRYGT	1 cut(s)	22
AgsI	TTSAA	3 cut(s)	65, 436, 548
AluBI	AGCT	8 cut(s)	14, 123, 235, 305, 317, 473, 554, 568
AluI	AGCT	8 cut(s)	14, 123, 235, 305, 317, 473, 554, 568
Alw26I	GTCTC	1 cut(s)	42
AlwI	GGATC	2 cut(s)	12, 163
AoxI	GGCC	2 cut(s)	129, 447
ApeKI	GCWGC	1 cut(s)	473
ApoI	RAATTY	1 cut(s)	436
AspS9I	GGNCC	2 cut(s)	286, 447
AsuHPI	GGTGA	2 cut(s)	289, 439
AvaII	GGWCC	1 cut(s)	286
BanI	GGYRCC	1 cut(s)	409
BbvCI	CCTCAGC	1 cut(s)	301
BbvI	GCAGC	1 cut(s)	460
BccI	CCATC	1 cut(s)	437
BceAI	ACGGC	1 cut(s)	75
BcoDI	GTCTC	1 cut(s)	42
BfaI	CTAG	4 cut(s)	18, 276, 330, 465
BfrI	CTTAAG	1 cut(s)	514
BisI	GCNGC	1 cut(s)	474
BlpI	GCTNAGC	1 cut(s)	564
BlsI	GCNGC	1 cut(s)	475
Bme18I	GGWCC	1 cut(s)	286
BmgT120I	GGNCC	2 cut(s)	286, 447
BmiI	GGNNCC	3 cut(s)	287, 411, 448
BmsI	GCATC	2 cut(s)	166, 487
Bpu10I	CCTNAGC	1 cut(s)	301
Bpu1102I	GCTNAGC	1 cut(s)	564
BpuEI	CTTGAG	3 cut(s)	24, 202, 402
Bsa29I	ATCGAT	1 cut(s)	7
BsaJI	CCNNGG	1 cut(s)	363
Bsc4I	CCNNNNNNNGG	2 cut(s)	186, 419
Bse3DI	GCAATG	1 cut(s)	64
BseCI	ATCGAT	1 cut(s)	7
BseDI	CCNNGG	1 cut(s)	363
BseGI	GGATG	3 cut(s)	118, 181, 502
BseLI	CCNNNNNNNGG	2 cut(s)	186, 419
BseMI	GCAATG	1 cut(s)	64
BseMII	CTCAG	4 cut(s)	245, 315, 352, 555
BseRI	GAGGAG	1 cut(s)	405
BseXI	GCAGC	1 cut(s)	460
BshFI	GGCC	2 cut(s)	131, 449
BshNI	GGYRCC	1 cut(s)	409
BshVI	ATCGAT	1 cut(s)	7
BslFI	GGGAC	3 cut(s)	299, 402, 475
BslI	CCNNNNNNNGG	2 cut(s)	186, 419
BsmAI	GTCTC	1 cut(s)	42
BsmFI	GGGAC	3 cut(s)	299, 402, 475
BsmI	GAATGC	1 cut(s)	277
BsnI	GGCC	2 cut(s)	131, 449
Bsp143I	GATC	2 cut(s)	4, 155
Bsp1720I	GCTNAGC	1 cut(s)	564
BspACI	CCGC	1 cut(s)	599
BspANI	GGCC	2 cut(s)	131, 449
BspCNI	CTCAG	4 cut(s)	244, 314, 351, 556
BspDI	ATCGAT	1 cut(s)	7
BspLI	GGNNCC	3 cut(s)	287, 411, 448
BspPI	GGATC	2 cut(s)	12, 163
BspT107I	GGYRCC	1 cut(s)	409
BspTI	CTTAAG	1 cut(s)	514
BsrDI	GCAATG	1 cut(s)	64
BssECI	CCNNGG	1 cut(s)	363
BssMI	GATC	2 cut(s)	4, 155
BssT1I	CCWWGG	1 cut(s)	363
BstAFI	CTTAAG	1 cut(s)	514
BstC8I	GCNNGC	2 cut(s)	133, 609
BstDEI	CTNAG	6 cut(s)	126, 216, 231, 301, 338, 564
BstENI	CCTNNNNNAGG	1 cut(s)	417
BstF5I	GGATG	3 cut(s)	118, 181, 502
BstKTI	GATC	2 cut(s)	7, 158
BstMAI	GTCTC	1 cut(s)	42
BstMBI	GATC	2 cut(s)	4, 155
BstMWI	GCNNNNNNNGC	2 cut(s)	54, 560
BstNSI	RCATGY	2 cut(s)	26, 563
BstV1I	GCAGC	1 cut(s)	460
BstX2I	RGATCY	1 cut(s)	155
BstXI	CCANNNNNNTGG	1 cut(s)	139
BstYI	RGATCY	1 cut(s)	155
Bsu15I	ATCGAT	1 cut(s)	7
BsuRI	GGCC	2 cut(s)	131, 449
BsuTUI	ATCGAT	1 cut(s)	7
BtsCI	GGATG	3 cut(s)	118, 181, 502
Cac8I	GCNNGC	2 cut(s)	133, 609
Cfr13I	GGNCC	2 cut(s)	286, 447
ClaI	ATCGAT	1 cut(s)	7
Csp6I	GTAC	2 cut(s)	99, 536
CviAII	CATG	5 cut(s)	23, 322, 503, 542, 560
CviQI	GTAC	2 cut(s)	99, 536
DdeI	CTNAG	6 cut(s)	126, 216, 231, 301, 338, 564
DpnI	GATC	2 cut(s)	6, 157
DpnII	GATC	2 cut(s)	4, 155
Eco130I	CCWWGG	1 cut(s)	363
Eco47I	GGWCC	1 cut(s)	286
EcoNI	CCTNNNNNAGG	1 cut(s)	417
EcoO109I	RGGNCCY	1 cut(s)	447
EcoT14I	CCWWGG	1 cut(s)	363
ErhI	CCWWGG	1 cut(s)	363
FaeI	CATG	5 cut(s)	26, 325, 506, 545, 563
FaqI	GGGAC	3 cut(s)	299, 402, 475
FatI	CATG	5 cut(s)	22, 321, 502, 541, 559
FauNDI	CATATG	1 cut(s)	396
FblI	GTMKAC	1 cut(s)	326
Fnu4HI	GCNGC	1 cut(s)	474
FokI	GGATG	3 cut(s)	125, 188, 509
Fsp4HI	GCNGC	1 cut(s)	474
FspBI	CTAG	4 cut(s)	18, 276, 330, 465
GluI	GCNGC	1 cut(s)	474
HaeIII	GGCC	2 cut(s)	131, 449
Hin1II	CATG	5 cut(s)	26, 325, 506, 545, 563
HinfI	GANTC	2 cut(s)	35, 336
HphI	GGTGA	2 cut(s)	289, 439
Hpy166II	GTNNAC	1 cut(s)	327
Hpy188I	TCNGA	1 cut(s)	205
Hpy188III	TCNNGA	1 cut(s)	18
Hpy8I	GTNNAC	1 cut(s)	327
HpyAV	CCTTC	1 cut(s)	400
HpyCH4V	TGCA	3 cut(s)	57, 370, 500
HpyF10VI	GCNNNNNNNGC	2 cut(s)	54, 560
HpyF3I	CTNAG	6 cut(s)	126, 216, 231, 301, 338, 564
Hsp92II	CATG	5 cut(s)	26, 325, 506, 545, 563
Kzo9I	GATC	2 cut(s)	4, 155
LmnI	GCTCC	1 cut(s)	604
LpnPI	CCDG	4 cut(s)	145, 365, 478, 593
Lsp1109I	GCAGC	1 cut(s)	460
LweI	GCATC	2 cut(s)	166, 487
MaeI	CTAG	4 cut(s)	18, 276, 330, 465
MaeIII	GTNAC	1 cut(s)	189
MalI	GATC	2 cut(s)	6, 157
MboI	GATC	2 cut(s)	4, 155
MflI	RGATCY	1 cut(s)	155
MluCI	AATT	5 cut(s)	29, 94, 209, 343, 436
MlyI	GAGTC	2 cut(s)	44, 330
MmeI	TCCRAC	1 cut(s)	153
MnlI	CCTC	3 cut(s)	310, 423, 426
MseI	TTAA	1 cut(s)	515
MspA1I	CMGCKG	2 cut(s)	235, 554
MspCI	CTTAAG	1 cut(s)	514
Mva1269I	GAATGC	1 cut(s)	277
MwoI	GCNNNNNNNGC	2 cut(s)	54, 560
NdeI	CATATG	1 cut(s)	396
NdeII	GATC	2 cut(s)	4, 155
NlaIII	CATG	5 cut(s)	26, 325, 506, 545, 563
NlaIV	GGNNCC	3 cut(s)	287, 411, 448
NspI	RCATGY	2 cut(s)	26, 563
PciI	ACATGT	1 cut(s)	22
PctI	GAATGC	1 cut(s)	277
PkrI	GCNGC	1 cut(s)	475
PleI	GAGTC	2 cut(s)	43, 330
PpsI	GAGTC	2 cut(s)	43, 330
PscI	ACATGT	1 cut(s)	22
PspN4I	GGNNCC	3 cut(s)	287, 411, 448
PspPI	GGNCC	2 cut(s)	286, 447
PsrI	GAACNNNNNNTAC	2 cut(s)	528, 560
PsuI	RGATCY	1 cut(s)	155
PvuII	CAGCTG	2 cut(s)	235, 554
RsaI	GTAC	2 cut(s)	100, 537
RsaNI	GTAC	2 cut(s)	99, 536
SaqAI	TTAA	1 cut(s)	515
SatI	GCNGC	1 cut(s)	474
Sau3AI	GATC	2 cut(s)	4, 155
Sau96I	GGNCC	2 cut(s)	286, 447
SchI	GAGTC	2 cut(s)	44, 330
SfaNI	GCATC	2 cut(s)	166, 487
SinI	GGWCC	1 cut(s)	286
SmlI	CTYRAG	4 cut(s)	39, 181, 417, 514
SmoI	CTYRAG	4 cut(s)	39, 181, 417, 514
Sse9I	AATT	5 cut(s)	29, 94, 209, 343, 436
SsiI	CCGC	1 cut(s)	599
SspMI	CTAG	4 cut(s)	18, 276, 330, 465
StyI	CCWWGG	1 cut(s)	363
TaqI	TCGA	1 cut(s)	7
TasI	AATT	5 cut(s)	29, 94, 209, 343, 436
TatI	WGTACW	2 cut(s)	98, 535
Tru1I	TTAA	1 cut(s)	515
Tru9I	TTAA	1 cut(s)	515
TseI	GCWGC	1 cut(s)	473
TspDTI	ATGAA	2 cut(s)	71, 413
Vha464I	CTTAAG	1 cut(s)	514
VpaK11BI	GGWCC	1 cut(s)	286
XagI	CCTNNNNNAGG	1 cut(s)	417
XapI	RAATTY	1 cut(s)	436
XbaI	TCTAGA	1 cut(s)	17
XceI	RCATGY	2 cut(s)	26, 563
XmiI	GTMKAC	1 cut(s)	326
XspI	CTAG	4 cut(s)	18, 276, 330, 465

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