Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0011573

Physical Location & Seq

Genomic Coordinates Reverse (-)

6216523 .. 6226889

Gene Structure 10367 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G006640.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 567 bp

ATGGCAAACCAATCTGAACCAAGCACTGCTACCAGCACAGATGATCTGAAGTTGCACCGGTGGGCGGTATGGGCCATCCCACCGGATAGCATTTGTAAGAGAGTTAAAACGGTGATGGAGGCCCTCCGGAAAGAATTTGGTGGGTCTGAGGTCGAGCCCCACATCACCGTTGCGGGGTCCATTCTCTTCAATCGCTCAGAGGCCATTGAGAAGTTCATCGGTGCATGTAATGAGATAAACCCCTATGTTTGTCAAGTCGATCAACTTGAGACTAGCAAATTCTACTTCCAATGTGTTTCCCTAGTCTTTCAGACAGATCATCAGCAATTTGTCCCAGCCTTCCTTGCCCATTTTGGCGTCGCTGCTATGCCACATTTGAGCCTCCTATATGGGAGCTTGCCAGATGAAGAGAAAAAAAGAGCTAAAGAGAAAGTTCTTGCTATGGATGAGAGCATTGCTGGACTAACATTCCTCTTAAGTAGGATGGCATTGTACAGAGTCAACTTTGCAGATAGAACTCAAAAATCCTGGGAGAGGATTCTTGAGGGCCACCTTCGAGTCAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000394 GO:0003674 GO:0003824 GO:0004112 GO:0004113 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006388 GO:0006396 GO:0006399 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0008033 GO:0008081 GO:0008150 GO:0008152 GO:0008380 GO:0009117 GO:0009187 GO:0009987 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0019637 GO:0034470 GO:0034641 GO:0034660 GO:0042578 GO:0043170 GO:0044237 GO:0044238 GO:0044281 GO:0044424 GO:0044464 GO:0046483 GO:0055086 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

2_5_RNA_ligase2 CPDase

Protein Analysis

188

Amino Acids

21.29

Weight (kDa)

6.31

Isoelectric Point (pI)

43.76

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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

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Orthologous Genes (Group: OG0011573)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g07330
rosa_chinensis	RchiOBHm_Chr3g0456941 RchiOBHm_Chr3g0457361
rosa_laevigata	RLG00000025232 RLG00000025262
rosa_multiflora	Rmu_sc0005442.1_g000007 Rmu_sc0011220.1_g000001 Rmu_sc0016008.1_g000002
rosa_roxburghii	Rroxscaffold_6G00421950 Rroxscaffold_6G00422350
rosa_rugosa	Rorug03G0017500 Rorug03G0020100
rosa_samantha	Rh3AG077500 Rh3AG080300 Rh3BG079400 Rh3BG082100 Rh3CG079300 Rh3CG082400 Rh3DG081100
rosa_wichuraiana	Rw3G006640

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	126
AciI	CCGC	2 cut(s)	65, 173
AcsI	RAATTY	2 cut(s)	134, 278
AcuI	CTGAAG	1 cut(s)	68
AcyI	GRCGYC	1 cut(s)	357
AfaI	GTAC	1 cut(s)	494
AfiI	CCNNNNNNNGG	3 cut(s)	64, 174, 534
AflII	CTTAAG	1 cut(s)	475
AgeI	ACCGGT	1 cut(s)	57
AgsI	TTSAA	1 cut(s)	190
AjnI	CCWGG	1 cut(s)	527
AluBI	AGCT	2 cut(s)	396, 422
AluI	AGCT	2 cut(s)	396, 422
Alw26I	GTCTC	1 cut(s)	263
Aor13HI	TCCGGA	1 cut(s)	126
AoxI	GGCC	4 cut(s)	72, 120, 201, 547
ApeKI	GCWGC	1 cut(s)	362
ApoI	RAATTY	2 cut(s)	134, 278
AsiGI	ACCGGT	1 cut(s)	57
AspS9I	GGNCC	4 cut(s)	72, 121, 177, 547
AsuHPI	GGTGA	2 cut(s)	124, 157
AvaII	GGWCC	1 cut(s)	177
BanII	GRGCYC	1 cut(s)	159
BbvI	GCAGC	1 cut(s)	349
BccI	CCATC	3 cut(s)	83, 109, 478
BciT130I	CCWGG	1 cut(s)	529
BcoDI	GTCTC	1 cut(s)	263
BfaI	CTAG	2 cut(s)	273, 302
BfrI	CTTAAG	1 cut(s)	475
BisI	GCNGC	1 cut(s)	363
BlsI	GCNGC	1 cut(s)	364
Bme1390I	CCNGG	1 cut(s)	529
Bme18I	GGWCC	1 cut(s)	177
BmgT120I	GGNCC	4 cut(s)	72, 121, 177, 547
BmiI	GGNNCC	1 cut(s)	178
BmrFI	CCNGG	1 cut(s)	529
BpuEI	CTTGAG	2 cut(s)	287, 563
BsaHI	GRCGYC	1 cut(s)	357
BsaJI	CCNNGG	1 cut(s)	528
BsaWI	WCCGGW	3 cut(s)	57, 82, 126
Bsc4I	CCNNNNNNNGG	3 cut(s)	64, 174, 534
Bse118I	RCCGGY	1 cut(s)	57
Bse3DI	GCAATG	1 cut(s)	453
BseAI	TCCGGA	1 cut(s)	126
BseBI	CCWGG	1 cut(s)	529
BseDI	CCNNGG	1 cut(s)	528
BseGI	GGATG	3 cut(s)	75, 451, 489
BseLI	CCNNNNNNNGG	3 cut(s)	64, 174, 534
BseMI	GCAATG	1 cut(s)	453
BseMII	CTCAG	2 cut(s)	138, 210
BseXI	GCAGC	1 cut(s)	349
BseYI	CCCAGC	1 cut(s)	334
BshFI	GGCC	4 cut(s)	74, 122, 203, 549
BshTI	ACCGGT	1 cut(s)	57
BsiSI	CCGG	3 cut(s)	58, 83, 127
BslFI	GGGAC	1 cut(s)	317
BslI	CCNNNNNNNGG	3 cut(s)	64, 174, 534
BsmAI	GTCTC	1 cut(s)	263
BsmFI	GGGAC	1 cut(s)	317
BsnI	GGCC	4 cut(s)	74, 122, 203, 549
Bsp1286I	GDGCHC	1 cut(s)	159
Bsp13I	TCCGGA	1 cut(s)	126
Bsp1407I	TGTACA	1 cut(s)	492
Bsp143I	GATC	3 cut(s)	43, 259, 316
BspACI	CCGC	2 cut(s)	65, 173
BspANI	GGCC	4 cut(s)	74, 122, 203, 549
BspCNI	CTCAG	2 cut(s)	139, 209
BspEI	TCCGGA	1 cut(s)	126
BspLI	GGNNCC	1 cut(s)	178
BspTI	CTTAAG	1 cut(s)	475
BsrDI	GCAATG	1 cut(s)	453
BsrFI	RCCGGY	1 cut(s)	57
BsrGI	TGTACA	1 cut(s)	492
BssAI	RCCGGY	1 cut(s)	57
BssECI	CCNNGG	1 cut(s)	528
BssMI	GATC	3 cut(s)	43, 259, 316
BssNI	GRCGYC	1 cut(s)	357
Bst2UI	CCWGG	1 cut(s)	529
Bst4CI	ACNGT	2 cut(s)	112, 169
Bst6I	CTCTTC	2 cut(s)	191, 402
BstACI	GRCGYC	1 cut(s)	357
BstAFI	CTTAAG	1 cut(s)	475
BstAUI	TGTACA	1 cut(s)	492
BstC8I	GCNNGC	1 cut(s)	398
BstDEI	CTNAG	2 cut(s)	147, 196
BstENI	CCTNNNNNAGG	1 cut(s)	532
BstF5I	GGATG	3 cut(s)	75, 451, 489
BstKTI	GATC	3 cut(s)	46, 262, 319
BstMAI	GTCTC	1 cut(s)	263
BstMBI	GATC	3 cut(s)	43, 259, 316
BstMWI	GCNNNNNNNGC	2 cut(s)	71, 344
BstNI	CCWGG	1 cut(s)	529
BstNSI	RCATGY	1 cut(s)	228
BstSCI	CCNGG	1 cut(s)	527
BstV1I	GCAGC	1 cut(s)	349
BsuRI	GGCC	4 cut(s)	74, 122, 203, 549
BtsCI	GGATG	3 cut(s)	75, 451, 489
BtsI	GCAGTG	1 cut(s)	24
BtsIMutI	CAGTG	1 cut(s)	24
Cac8I	GCNNGC	1 cut(s)	398
Cfr10I	RCCGGY	1 cut(s)	57
Cfr13I	GGNCC	4 cut(s)	72, 121, 177, 547
CseI	GACGC	1 cut(s)	346
Csp6I	GTAC	1 cut(s)	493
CspAI	ACCGGT	1 cut(s)	57
CviAII	CATG	1 cut(s)	225
CviJI	RGCY	9 cut(s)	74, 122, 157, 203, 338, 381, 396, 422, 549
CviKI_1	RGCY	9 cut(s)	74, 122, 157, 203, 338, 381, 396, 422, 549
CviQI	GTAC	1 cut(s)	493
DdeI	CTNAG	2 cut(s)	147, 196
DpnI	GATC	3 cut(s)	45, 261, 318
DpnII	GATC	3 cut(s)	43, 259, 316
Eam1104I	CTCTTC	2 cut(s)	191, 402
EarI	CTCTTC	2 cut(s)	191, 402
Eco24I	GRGCYC	1 cut(s)	159
Eco47I	GGWCC	1 cut(s)	177
Eco57I	CTGAAG	1 cut(s)	68
EcoNI	CCTNNNNNAGG	1 cut(s)	532
EcoO109I	RGGNCCY	1 cut(s)	121
EcoRII	CCWGG	1 cut(s)	527
EcoT38I	GRGCYC	1 cut(s)	159
FaeI	CATG	1 cut(s)	228
FaiI	YATR	7 cut(s)	70, 226, 246, 368, 388, 390, 443
FaqI	GGGAC	1 cut(s)	317
FatI	CATG	1 cut(s)	224
FauI	CCCGC	1 cut(s)	166
Fnu4HI	GCNGC	1 cut(s)	363
FokI	GGATG	3 cut(s)	62, 458, 496
FriOI	GRGCYC	1 cut(s)	159
Fsp4HI	GCNGC	1 cut(s)	363
FspBI	CTAG	2 cut(s)	273, 302
GluI	GCNGC	1 cut(s)	363
GsaI	CCCAGC	1 cut(s)	338
HaeIII	GGCC	4 cut(s)	74, 122, 203, 549
HapII	CCGG	3 cut(s)	58, 83, 127
HgaI	GACGC	1 cut(s)	346
Hin1I	GRCGYC	1 cut(s)	357
Hin1II	CATG	1 cut(s)	228
HincII	GTYRAC	2 cut(s)	502, 562
HindII	GTYRAC	2 cut(s)	502, 562
HinfI	GANTC	3 cut(s)	498, 538, 558
HpaII	CCGG	3 cut(s)	58, 83, 127
HphI	GGTGA	2 cut(s)	124, 157
Hpy166II	GTNNAC	2 cut(s)	502, 562
Hpy188I	TCNGA	5 cut(s)	16, 48, 148, 199, 312
Hpy188III	TCNNGA	2 cut(s)	127, 542
Hpy8I	GTNNAC	2 cut(s)	502, 562
Hpy99I	CGWCG	1 cut(s)	362
HpyAV	CCTTC	2 cut(s)	349, 563
HpyCH4III	ACNGT	2 cut(s)	112, 169
HpyCH4V	TGCA	3 cut(s)	55, 224, 509
HpyF10VI	GCNNNNNNNGC	2 cut(s)	71, 344
HpyF3I	CTNAG	2 cut(s)	147, 196
Hsp92I	GRCGYC	1 cut(s)	357
Hsp92II	CATG	1 cut(s)	228
Kpn2I	TCCGGA	1 cut(s)	126
Kzo9I	GATC	3 cut(s)	43, 259, 316
LmnI	GCTCC	1 cut(s)	393
LpnPI	CCDG	9 cut(s)	46, 71, 96, 140, 348, 414, 444, 514, 541
Lsp1109I	GCAGC	1 cut(s)	349
MaeI	CTAG	2 cut(s)	273, 302
MalI	GATC	3 cut(s)	45, 261, 318
MboI	GATC	3 cut(s)	43, 259, 316
MboII	GAAGA	2 cut(s)	178, 419
MhlI	GDGCHC	1 cut(s)	159
MluCI	AATT	3 cut(s)	134, 278, 326
MlyI	GAGTC	2 cut(s)	507, 567
MnlI	CCTC	8 cut(s)	112, 134, 142, 193, 392, 482, 528, 538
MroI	TCCGGA	1 cut(s)	126
MseI	TTAA	2 cut(s)	105, 476
MspCI	CTTAAG	1 cut(s)	475
MspI	CCGG	3 cut(s)	58, 83, 127
MspR9I	CCNGG	1 cut(s)	529
MvaI	CCWGG	1 cut(s)	529
MwoI	GCNNNNNNNGC	2 cut(s)	71, 344
NdeII	GATC	3 cut(s)	43, 259, 316
NlaIII	CATG	1 cut(s)	228
NlaIV	GGNNCC	1 cut(s)	178
NspI	RCATGY	1 cut(s)	228
PfeI	GAWTC	1 cut(s)	538
PinAI	ACCGGT	1 cut(s)	57
PkrI	GCNGC	1 cut(s)	364
PleI	GAGTC	2 cut(s)	506, 566
PpsI	GAGTC	2 cut(s)	506, 566
Psp6I	CCWGG	1 cut(s)	527
PspFI	CCCAGC	1 cut(s)	334
PspGI	CCWGG	1 cut(s)	527
PspN4I	GGNNCC	1 cut(s)	178
PspPI	GGNCC	4 cut(s)	72, 121, 177, 547
RsaI	GTAC	1 cut(s)	494
RsaNI	GTAC	1 cut(s)	493
SaqAI	TTAA	2 cut(s)	105, 476
SatI	GCNGC	1 cut(s)	363
Sau3AI	GATC	3 cut(s)	43, 259, 316
Sau96I	GGNCC	4 cut(s)	72, 121, 177, 547
SchI	GAGTC	2 cut(s)	507, 567
ScrFI	CCNGG	1 cut(s)	529
SduI	GDGCHC	1 cut(s)	159
SetI	ASST	4 cut(s)	153, 398, 424, 555
SgrAI	CRCCGGYG	1 cut(s)	57
SinI	GGWCC	1 cut(s)	177
SmlI	CTYRAG	3 cut(s)	266, 475, 542
SmoI	CTYRAG	3 cut(s)	266, 475, 542
Sse9I	AATT	3 cut(s)	134, 278, 326
SsiI	CCGC	2 cut(s)	65, 173
SspMI	CTAG	2 cut(s)	273, 302
StyD4I	CCNGG	1 cut(s)	527
TaaI	ACNGT	2 cut(s)	112, 169
TaqI	TCGA	3 cut(s)	153, 258, 556
TasI	AATT	3 cut(s)	134, 278, 326
TatI	WGTACW	1 cut(s)	492
TfiI	GAWTC	1 cut(s)	538
Tru1I	TTAA	2 cut(s)	105, 476
Tru9I	TTAA	2 cut(s)	105, 476
TscAI	CASTG	1 cut(s)	31
TseI	GCWGC	1 cut(s)	362
TspDTI	ATGAA	2 cut(s)	205, 420
TspRI	CASTG	1 cut(s)	31
Vha464I	CTTAAG	1 cut(s)	475
VpaK11BI	GGWCC	1 cut(s)	177
XagI	CCTNNNNNAGG	1 cut(s)	532
XapI	RAATTY	2 cut(s)	134, 278
XceI	RCATGY	1 cut(s)	228
XspI	CTAG	2 cut(s)	273, 302

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