Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr5

Orthogroup ID

OG0003249

Physical Location & Seq

Genomic Coordinates Reverse (-)

86486589 .. 86487897

Gene Structure 1309 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw5G049900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 549 bp

ATGGAAAGCAAAAGCAGCAGAAGAGGACAGGACTGGATTATGCAGTGTGATCCTCCAGATGAACCCAAGGAATATATCCACAAGGCTGGTCGAACAGCTCGTGGGGAAGGTGGAAAAGGAAAAGCACTGCTTTTCCTCAGTCCCGAAGAGGGACTTGTTCTCCATTTCATATTTCATTTTTCATTCTGTTTTCAGCTTTTCCCTGTTAAAGAGTATGAATTTAATCAGACGAAGCTAAAAAAATGTGCAATCTCAGCTGGTACGTTTCTGTTCCTTATTGAGAAGTTAGTTGCCAACAACTACCATCTGAACCGTGCAGCAAAAGATGCATATAGGTCTTATCTATTAGCATATAATACACACTCTATGAAGGACATCTTTAATGTTCGATTCACTGGCTTGATCTCCAGGCTGTTGCTTGTTCATTTTGCTTTTCTAATCCACCCAAGTGCATCAATGTTCAGGAAGAACATGCACAGAGTGGATGGAATTCGACATGGAATCAATCCTAGAAATCCTTATGGAAGGAAGGCAAAACGGTGGAGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0009987 GO:0010501 GO:0016070 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0031974 GO:0031981 GO:0034641 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0070035 GO:0071704 GO:0090304 GO:0140098 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD DUF4217 Helicase_C

Protein Analysis

182

Amino Acids

21.21

Weight (kDa)

10.01

Isoelectric Point (pI)

35.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CTE_SPB4	PF13959	100 - 130	2.4e-08	ATP-dependent rRNA helicase SPB4-like, C-terminal extension

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)

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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: OG0003249)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G18600
fragaria_vesca	FvH4_5g12870
malus_domestica	MD05G1177700.v1.1 MD06G1209500.v1.1 MD14G1220200.v1.1 MD15G1015500.v1.1
prunus_persica	Prupe.5G214700_v2.0.a1 Prupe.6G096100_v2.0.a1 Prupe.6G096400_v2.0.a1 Prupe.6G096400_v2.0.a1 Prupe.6G097300_v2.0.a1
pyrus_communis	pycom05g16360 pycom05g16400 pycom05g16410 pycom06g18710 pycom14g18230 pycom15g01320
rosa_chinensis	RchiOBHm_Chr5g0083351 RchiOBHm_Chr5g0083361 RchiOBHm_Chr7g0184361
rosa_laevigata	RLG00000004982 RLG00000037030
rosa_multiflora	Rmu_sc0001444.1_g000013 Rmu_sc0001557.1_g000022 Rmu_sc0002245.1_g000045
rosa_roxburghii	Rroxscaffold_1G00001130 Rroxscaffold_3G00269690
rosa_samantha	Rh5AG533800 Rh5BG561600 Rh5CG583900 Rh5CG584000 Rh7AG080700 Rh7BG066500 Rh7CG066800 Rh7DG066500
rosa_wichuraiana	Rw5G049900 Rw7G005460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	44
AcsI	RAATTY	2 cut(s)	218, 489
AdeI	CACNNNGTG	1 cut(s)	481
AfaI	GTAC	1 cut(s)	262
AfiI	CCNNNNNNNGG	1 cut(s)	149
AjnI	CCWGG	1 cut(s)	407
AleI	CACNNNNGTG	1 cut(s)	447
AluBI	AGCT	4 cut(s)	98, 196, 235, 257
AluI	AGCT	4 cut(s)	98, 196, 235, 257
AlwI	GGATC	1 cut(s)	44
ApeKI	GCWGC	2 cut(s)	15, 317
ApoI	RAATTY	2 cut(s)	218, 489
BauI	CACGAG	1 cut(s)	99
BbvI	GCAGC	2 cut(s)	27, 329
BccI	CCATC	2 cut(s)	312, 479
BciT130I	CCWGG	1 cut(s)	409
BfaI	CTAG	1 cut(s)	510
BisI	GCNGC	2 cut(s)	16, 318
BlsI	GCNGC	2 cut(s)	17, 319
Bme1390I	CCNGG	1 cut(s)	409
BmrFI	CCNGG	1 cut(s)	409
BmsI	GCATC	2 cut(s)	316, 461
BpmI	CTGGAG	2 cut(s)	39, 391
BsaJI	CCNNGG	1 cut(s)	66
BsaXI	ACNNNNNCTCC	2 cut(s)	144, 174
Bsc4I	CCNNNNNNNGG	1 cut(s)	149
Bse1I	ACTGG	2 cut(s)	38, 400
BseBI	CCWGG	1 cut(s)	409
BseDI	CCNNGG	1 cut(s)	66
BseGI	GGATG	1 cut(s)	490
BseLI	CCNNNNNNNGG	1 cut(s)	149
BseMII	CTCAG	2 cut(s)	151, 267
BseNI	ACTGG	2 cut(s)	38, 400
BseXI	GCAGC	2 cut(s)	27, 329
BsgI	GTGCAG	1 cut(s)	336
BslFI	GGGAC	2 cut(s)	126, 165
BslI	CCNNNNNNNGG	1 cut(s)	149
BsmFI	GGGAC	2 cut(s)	126, 165
Bsp143I	GATC	2 cut(s)	49, 402
BspCNI	CTCAG	2 cut(s)	150, 266
BspPI	GGATC	1 cut(s)	44
BsrI	ACTGG	2 cut(s)	38, 400
BssECI	CCNNGG	1 cut(s)	66
BssMI	GATC	2 cut(s)	49, 402
BssSI	CACGAG	1 cut(s)	99
BssT1I	CCWWGG	1 cut(s)	66
Bst2BI	CACGAG	1 cut(s)	99
Bst2UI	CCWGG	1 cut(s)	409
Bst4CI	ACNGT	2 cut(s)	314, 540
Bst6I	CTCTTC	2 cut(s)	16, 141
BstAPI	GCANNNNNTGC	1 cut(s)	326
BstDEI	CTNAG	2 cut(s)	137, 253
BstF5I	GGATG	1 cut(s)	490
BstKTI	GATC	2 cut(s)	52, 405
BstMBI	GATC	2 cut(s)	49, 402
BstMWI	GCNNNNNNNGC	3 cut(s)	15, 254, 326
BstNI	CCWGG	1 cut(s)	409
BstNSI	RCATGY	1 cut(s)	475
BstSCI	CCNGG	1 cut(s)	407
BstV1I	GCAGC	2 cut(s)	27, 329
BstXI	CCANNNNNNTGG	1 cut(s)	86
BtsCI	GGATG	1 cut(s)	490
BtsI	GCAGTG	2 cut(s)	50, 125
BtsIMutI	CAGTG	3 cut(s)	50, 125, 393
Csp6I	GTAC	1 cut(s)	261
CviAII	CATG	2 cut(s)	472, 497
CviJI	RGCY	7 cut(s)	86, 98, 196, 235, 257, 399, 412
CviKI_1	RGCY	7 cut(s)	86, 98, 196, 235, 257, 399, 412
CviQI	GTAC	1 cut(s)	261
DdeI	CTNAG	2 cut(s)	137, 253
DpnI	GATC	2 cut(s)	51, 404
DpnII	GATC	2 cut(s)	49, 402
DraIII	CACNNNGTG	1 cut(s)	481
Eam1104I	CTCTTC	2 cut(s)	16, 141
EarI	CTCTTC	2 cut(s)	16, 141
Eco130I	CCWWGG	1 cut(s)	66
EcoRI	GAATTC	1 cut(s)	489
EcoRII	CCWGG	1 cut(s)	407
EcoT14I	CCWWGG	1 cut(s)	66
EcoT22I	ATGCAT	1 cut(s)	331
ErhI	CCWWGG	1 cut(s)	66
FaeI	CATG	2 cut(s)	475, 500
FalI	AAGNNNNNCTT	6 cut(s)	114, 146, 138, 170, 362, 394
FaqI	GGGAC	2 cut(s)	126, 165
FatI	CATG	2 cut(s)	471, 496
Fnu4HI	GCNGC	2 cut(s)	16, 318
FokI	GGATG	1 cut(s)	497
Fsp4HI	GCNGC	2 cut(s)	16, 318
FspBI	CTAG	1 cut(s)	510
GluI	GCNGC	2 cut(s)	16, 318
GsuI	CTGGAG	2 cut(s)	39, 391
Hin1II	CATG	2 cut(s)	475, 500
HinfI	GANTC	2 cut(s)	390, 501
Hpy188I	TCNGA	2 cut(s)	228, 309
Hpy188III	TCNNGA	3 cut(s)	56, 143, 463
HpyAV	CCTTC	4 cut(s)	101, 364, 519, 523
HpyCH4III	ACNGT	2 cut(s)	314, 540
HpyCH4IV	ACGT	1 cut(s)	263
HpyCH4V	TGCA	6 cut(s)	43, 248, 317, 329, 452, 475
HpyF10VI	GCNNNNNNNGC	3 cut(s)	15, 254, 326
HpyF3I	CTNAG	2 cut(s)	137, 253
HpySE526I	ACGT	1 cut(s)	263
Hsp92II	CATG	2 cut(s)	475, 500
Kzo9I	GATC	2 cut(s)	49, 402
Lsp1109I	GCAGC	2 cut(s)	27, 329
LweI	GCATC	2 cut(s)	316, 461
MaeI	CTAG	1 cut(s)	510
MaeII	ACGT	1 cut(s)	263
MalI	GATC	2 cut(s)	51, 404
MboI	GATC	2 cut(s)	49, 402
MboII	GAAGA	3 cut(s)	33, 158, 478
MluCI	AATT	2 cut(s)	218, 489
MnlI	CCTC	4 cut(s)	17, 63, 142, 146
Mph1103I	ATGCAT	1 cut(s)	331
MseI	TTAA	3 cut(s)	207, 222, 381
MslI	CAYNNNNRTG	1 cut(s)	447
MspA1I	CMGCKG	1 cut(s)	257
MspR9I	CCNGG	1 cut(s)	409
MvaI	CCWGG	1 cut(s)	409
MwoI	GCNNNNNNNGC	3 cut(s)	15, 254, 326
NdeII	GATC	2 cut(s)	49, 402
NlaIII	CATG	2 cut(s)	475, 500
NsiI	ATGCAT	1 cut(s)	331
NspI	RCATGY	1 cut(s)	475
OliI	CACNNNNGTG	1 cut(s)	447
PcsI	WCGNNNNNNNCGW	1 cut(s)	97
PfeI	GAWTC	2 cut(s)	390, 501
PkrI	GCNGC	2 cut(s)	17, 319
Psp6I	CCWGG	1 cut(s)	407
PspGI	CCWGG	1 cut(s)	407
PvuII	CAGCTG	1 cut(s)	257
RsaI	GTAC	1 cut(s)	262
RsaNI	GTAC	1 cut(s)	261
RseI	CAYNNNNRTG	1 cut(s)	447
SaqAI	TTAA	3 cut(s)	207, 222, 381
SatI	GCNGC	2 cut(s)	16, 318
Sau3AI	GATC	2 cut(s)	49, 402
ScrFI	CCNGG	1 cut(s)	409
SetI	ASST	7 cut(s)	100, 112, 198, 237, 259, 266, 338
SfaNI	GCATC	2 cut(s)	316, 461
SmiMI	CAYNNNNRTG	1 cut(s)	447
Sse9I	AATT	2 cut(s)	218, 489
SspMI	CTAG	1 cut(s)	510
StyD4I	CCNGG	1 cut(s)	407
StyI	CCWWGG	1 cut(s)	66
TaaI	ACNGT	2 cut(s)	314, 540
TaiI	ACGT	1 cut(s)	266
TaqI	TCGA	3 cut(s)	91, 388, 493
TasI	AATT	2 cut(s)	218, 489
TfiI	GAWTC	2 cut(s)	390, 501
Tru1I	TTAA	3 cut(s)	207, 222, 381
Tru9I	TTAA	3 cut(s)	207, 222, 381
TscAI	CASTG	3 cut(s)	50, 132, 400
TseI	GCWGC	2 cut(s)	15, 317
TspDTI	ATGAA	7 cut(s)	75, 157, 164, 171, 231, 383, 413
TspRI	CASTG	3 cut(s)	50, 132, 400
XapI	RAATTY	2 cut(s)	218, 489
XceI	RCATGY	1 cut(s)	475
XspI	CTAG	1 cut(s)	510
Zsp2I	ATGCAT	1 cut(s)	331

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