Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0007571

Physical Location & Seq

Genomic Coordinates Reverse (-)

20650511 .. 20651008

Gene Structure 498 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0129400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 498 bp

ATGCTAGAACAAGCTTTACACCTTAAGATGGAGATTTTTGACAAACTCTTGATGGTCATACGAGGCCTATGGACAAACAGATATACTAAGTTGTGGGAGGACACAACATGCACTGCTCCTGACATCTTCTTAAGTTGCATGACCTGGTTGGAAGAATTCCAAAAGTCGAGAGCATCCAACGTTCCACCAAAGCAAGCTATCAAACATATATGGCAGCCTGCATTCAAGAATCAGCTTAAACTAAATGTAGATGGGGCGTACATACCACAAGTAACAGAAGGAGGAATTGGAGGCATACTCAGAAATTCTAATGGAATGGTTATTGCTACATTTCAAACAACTGTACAACATGTGAGCTCTACGCATCATGTGGAGCTGCTAGTTATCCAAGCTGGACTAGAACTGGTACAATGGTTAAACTATAAGCAGAAAACTATTGAAACAAACCGCAAGCTTGCTAGCTCCTCTTATCCTAATAGAGTATGGCCTTTTGCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003333 GO:0003674 GO:0005215 GO:0005342 GO:0005575 GO:0005623 GO:0005886 GO:0006810 GO:0006811 GO:0006820 GO:0006865 GO:0008150 GO:0008509 GO:0008514 GO:0015075 GO:0015171 GO:0015318 GO:0015711 GO:0015849 GO:0016020 GO:0022857 GO:0034220 GO:0044464 GO:0046942 GO:0046943 GO:0051179 GO:0051234 GO:0055085 GO:0071702 GO:0071705 GO:0071944 GO:0098656 GO:1903825 GO:1905039

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Aa_trans

Protein Analysis

165

Amino Acids

18.94

Weight (kDa)

9.14

Isoelectric Point (pI)

40.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	82 - 150	5.9e-08	Reverse transcriptase-like

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Image

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Publication-ready

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Orthologous Genes (Group: OG0007571)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G71680 AT1G71680
fragaria_vesca	FvH4_5g33070
malus_domestica	MD08G1215100.v1.1 MD15G1398900.v1.1
prunus_persica	Prupe.1G546600_v2.0.a1
pyrus_communis	pycom15g35780
rosa_chinensis	RchiOBHm_Chr4g0414671 RchiOBHm_Chr7g0231241
rosa_laevigata	RLG00000001426 RLG00000008126
rosa_multiflora	Rmu_sc0001192.1_g000019 Rmu_sc0004571.1_g000017
rosa_roxburghii	Rroxscaffold_3G00229410 Rroxscaffold_5G00358480
rosa_rugosa	Rorug04G0129400 Rorug07G0265400
rosa_samantha	Rh4AG187700 Rh4CG200000 Rh7AG418900 Rh7BG394300 Rh7CG438600
rosa_wichuraiana	Rw4G016050 Rw7G034640

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	448
AclI	AACGTT	1 cut(s)	180
AcsI	RAATTY	2 cut(s)	155, 304
AfaI	GTAC	3 cut(s)	260, 345, 408
AfiI	CCNNNNNNNGG	1 cut(s)	28
AflII	CTTAAG	2 cut(s)	23, 130
AflIII	ACRYGT	1 cut(s)	349
AgsI	TTSAA	3 cut(s)	226, 335, 440
AjnI	CCWGG	1 cut(s)	143
AjuI	GAANNNNNNNTTGG	2 cut(s)	270, 302
AluBI	AGCT	8 cut(s)	14, 197, 235, 357, 376, 392, 454, 462
AluI	AGCT	8 cut(s)	14, 197, 235, 357, 376, 392, 454, 462
Alw21I	GWGCWC	1 cut(s)	359
AoxI	GGCC	2 cut(s)	64, 485
ApeKI	GCWGC	2 cut(s)	214, 376
ApoI	RAATTY	2 cut(s)	155, 304
AsuNHI	GCTAGC	1 cut(s)	458
BaeI	ACNNNNGTAYC	2 cut(s)	398, 431
BanII	GRGCYC	1 cut(s)	359
Bbv12I	GWGCWC	1 cut(s)	359
BbvI	GCAGC	2 cut(s)	226, 363
BccI	CCATC	3 cut(s)	22, 46, 245
BciT130I	CCWGG	1 cut(s)	145
BfaI	CTAG	4 cut(s)	5, 380, 398, 459
BfrI	CTTAAG	2 cut(s)	23, 130
BisI	GCNGC	2 cut(s)	215, 377
BlsI	GCNGC	2 cut(s)	216, 378
Bme1390I	CCNGG	1 cut(s)	145
BmrFI	CCNGG	1 cut(s)	145
BmsI	GCATC	2 cut(s)	182, 373
BmtI	GCTAGC	1 cut(s)	462
BplI	GAGNNNNNCTC	2 cut(s)	282, 314
Bsc4I	CCNNNNNNNGG	1 cut(s)	28
Bse1I	ACTGG	1 cut(s)	408
BseBI	CCWGG	1 cut(s)	145
BseGI	GGATG	1 cut(s)	173
BseLI	CCNNNNNNNGG	1 cut(s)	28
BseMII	CTCAG	1 cut(s)	313
BseNI	ACTGG	1 cut(s)	408
BseRI	GAGGAG	1 cut(s)	454
BseXI	GCAGC	2 cut(s)	226, 363
BshFI	GGCC	2 cut(s)	66, 487
BsiHKAI	GWGCWC	1 cut(s)	359
BslI	CCNNNNNNNGG	1 cut(s)	28
BsmI	GAATGC	1 cut(s)	221
BsnI	GGCC	2 cut(s)	66, 487
Bsp1286I	GDGCHC	1 cut(s)	359
Bsp1407I	TGTACA	1 cut(s)	343
BspACI	CCGC	1 cut(s)	448
BspANI	GGCC	2 cut(s)	66, 487
BspCNI	CTCAG	1 cut(s)	312
BspOI	GCTAGC	1 cut(s)	462
BspTI	CTTAAG	2 cut(s)	23, 130
BsrGI	TGTACA	1 cut(s)	343
BsrI	ACTGG	1 cut(s)	408
Bst2UI	CCWGG	1 cut(s)	145
Bst4CI	ACNGT	1 cut(s)	343
BstAFI	CTTAAG	2 cut(s)	23, 130
BstAUI	TGTACA	1 cut(s)	343
BstC8I	GCNNGC	5 cut(s)	195, 219, 452, 456, 460
BstDEI	CTNAG	2 cut(s)	87, 299
BstF5I	GGATG	1 cut(s)	173
BstNI	CCWGG	1 cut(s)	145
BstNSI	RCATGY	2 cut(s)	111, 353
BstSCI	CCNGG	1 cut(s)	143
BstV1I	GCAGC	2 cut(s)	226, 363
BsuRI	GGCC	2 cut(s)	66, 487
BtsCI	GGATG	1 cut(s)	173
BtsI	GCAGTG	1 cut(s)	111
BtsIMutI	CAGTG	1 cut(s)	111
Cac8I	GCNNGC	5 cut(s)	195, 219, 452, 456, 460
CsiI	ACCWGGT	1 cut(s)	143
Csp6I	GTAC	3 cut(s)	259, 344, 407
CviAII	CATG	4 cut(s)	108, 139, 350, 368
CviQI	GTAC	3 cut(s)	259, 344, 407
DdeI	CTNAG	2 cut(s)	87, 299
Ecl136II	GAGCTC	1 cut(s)	357
Eco147I	AGGCCT	1 cut(s)	66
Eco24I	GRGCYC	1 cut(s)	359
Eco53kI	GAGCTC	1 cut(s)	357
EcoICRI	GAGCTC	1 cut(s)	357
EcoRI	GAATTC	1 cut(s)	155
EcoRII	CCWGG	1 cut(s)	143
EcoT38I	GRGCYC	1 cut(s)	359
FaeI	CATG	4 cut(s)	111, 142, 353, 371
FatI	CATG	4 cut(s)	107, 138, 349, 367
Fnu4HI	GCNGC	2 cut(s)	215, 377
FokI	GGATG	1 cut(s)	160
FriOI	GRGCYC	1 cut(s)	359
Fsp4HI	GCNGC	2 cut(s)	215, 377
FspBI	CTAG	4 cut(s)	5, 380, 398, 459
GluI	GCNGC	2 cut(s)	215, 377
HaeIII	GGCC	2 cut(s)	66, 487
Hin1II	CATG	4 cut(s)	111, 142, 353, 371
HindIII	AAGCTT	2 cut(s)	12, 452
HinfI	GANTC	1 cut(s)	229
Hpy188I	TCNGA	1 cut(s)	302
Hpy188III	TCNNGA	4 cut(s)	49, 119, 168, 226
HpyAV	CCTTC	1 cut(s)	272
HpyCH4III	ACNGT	1 cut(s)	343
HpyCH4IV	ACGT	1 cut(s)	180
HpyCH4V	TGCA	3 cut(s)	111, 138, 221
HpyF3I	CTNAG	2 cut(s)	87, 299
HpySE526I	ACGT	1 cut(s)	180
Hsp92II	CATG	4 cut(s)	111, 142, 353, 371
LmnI	GCTCC	3 cut(s)	121, 373, 467
LpnPI	CCDG	6 cut(s)	130, 132, 157, 231, 378, 389
Lsp1109I	GCAGC	2 cut(s)	226, 363
LweI	GCATC	2 cut(s)	182, 373
MabI	ACCWGGT	1 cut(s)	143
MaeI	CTAG	4 cut(s)	5, 380, 398, 459
MaeII	ACGT	1 cut(s)	180
MaeIII	GTNAC	1 cut(s)	271
MboII	GAAGA	2 cut(s)	118, 164
MhlI	GDGCHC	1 cut(s)	359
MluCI	AATT	3 cut(s)	155, 285, 304
MmeI	TCCRAC	2 cut(s)	129, 201
MnlI	CCTC	5 cut(s)	56, 91, 275, 284, 475
MseI	TTAA	5 cut(s)	24, 131, 237, 416, 496
MspCI	CTTAAG	2 cut(s)	23, 130
MspR9I	CCNGG	1 cut(s)	145
Mva1269I	GAATGC	1 cut(s)	221
MvaI	CCWGG	1 cut(s)	145
NheI	GCTAGC	1 cut(s)	458
NlaIII	CATG	4 cut(s)	111, 142, 353, 371
NspI	RCATGY	2 cut(s)	111, 353
PceI	AGGCCT	1 cut(s)	66
PciI	ACATGT	1 cut(s)	349
PctI	GAATGC	1 cut(s)	221
PfeI	GAWTC	1 cut(s)	229
PkrI	GCNGC	2 cut(s)	216, 378
PscI	ACATGT	1 cut(s)	349
Psp124BI	GAGCTC	1 cut(s)	359
Psp1406I	AACGTT	1 cut(s)	180
Psp6I	CCWGG	1 cut(s)	143
PspGI	CCWGG	1 cut(s)	143
PsrI	GAACNNNNNNTAC	1 cut(s)	32
RsaI	GTAC	3 cut(s)	260, 345, 408
RsaNI	GTAC	3 cut(s)	259, 344, 407
SacI	GAGCTC	1 cut(s)	359
SaqAI	TTAA	5 cut(s)	24, 131, 237, 416, 496
SatI	GCNGC	2 cut(s)	215, 377
ScrFI	CCNGG	1 cut(s)	145
SduI	GDGCHC	1 cut(s)	359
SexAI	ACCWGGT	1 cut(s)	143
SfaNI	GCATC	2 cut(s)	182, 373
SmlI	CTYRAG	2 cut(s)	23, 130
SmoI	CTYRAG	2 cut(s)	23, 130
Sse9I	AATT	3 cut(s)	155, 285, 304
SseBI	AGGCCT	1 cut(s)	66
SsiI	CCGC	1 cut(s)	448
SspMI	CTAG	4 cut(s)	5, 380, 398, 459
SstI	GAGCTC	1 cut(s)	359
StuI	AGGCCT	1 cut(s)	66
StyD4I	CCNGG	1 cut(s)	143
TaaI	ACNGT	1 cut(s)	343
TaiI	ACGT	1 cut(s)	183
TaqI	TCGA	1 cut(s)	167
TasI	AATT	3 cut(s)	155, 285, 304
TatI	WGTACW	1 cut(s)	343
TfiI	GAWTC	1 cut(s)	229
Tru1I	TTAA	5 cut(s)	24, 131, 237, 416, 496
Tru9I	TTAA	5 cut(s)	24, 131, 237, 416, 496
TscAI	CASTG	1 cut(s)	118
TseI	GCWGC	2 cut(s)	214, 376
TspRI	CASTG	1 cut(s)	118
Vha464I	CTTAAG	2 cut(s)	23, 130
XapI	RAATTY	2 cut(s)	155, 304
XceI	RCATGY	2 cut(s)	111, 353
XspI	CTAG	4 cut(s)	5, 380, 398, 459

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