Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0016443

Physical Location & Seq

Genomic Coordinates Forward (+)

33108099 .. 33113349

Gene Structure 5251 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G025160.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 654 bp

ATGGTTATCTGTGACGACATTGAGAAGAGAAAGATAGCCTCGTTCATGCTCCAAGGTGATGCACGACCATTGAGAAGGAAAACCAAATTCTCTTGGAAGAGGAGACAGTTGAGAGAGACTCCCAGAGAAAGGGAAAGATGTCATCTCAAATTTTGCAATGAGAGTGTTGCAATTATCGGTCTATTGATGGGGAGATACTGCGGGAGGCACTCGTCAGTAACCTCTAAACCCAATGTCAACTCCTCGATACCAGAAGCTCCAACTCCCTCAGCGACTCACCACTCCAACTCGGTATCCGCGGGGAGGGAAAAATTCATTCCCACACTTACACATATTTGGACTAATATTGACTTCAGCTTGCCCACCATTTACTTGGTAGAATCCATCTCCCTTGATGAAGCTGCAAGGTTATTACTTGGGGATGCACACAATGCATCCGTAATGAGAACAAGTAAAGTAAGGCGGATTTATGATATTGCAAATGTTTCGTCCTCCATGAATCTTATTGAAAAGACCCACACAGCAGATTCAAGGAAGCCTTCATATAAATGGTTGGGATTAAGAGGAAAAGATGCTACGAGTTCAACTTCAGACGAGTCTAGAAAAAGAGCCTTTGGAACAGATATCACAAACACTGTAAGAGGGGCAAAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006275 GO:0006355 GO:0006725 GO:0006807 GO:0007049 GO:0008150 GO:0008152 GO:0008156 GO:0009058 GO:0009059 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010564 GO:0010605 GO:0010948 GO:0019219 GO:0019222 GO:0022402 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032875 GO:0032876 GO:0034641 GO:0034645 GO:0042023 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044424 GO:0044464 GO:0044786 GO:0045786 GO:0045934 GO:0046483 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051052 GO:0051053 GO:0051171 GO:0051172 GO:0051252 GO:0051726 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090329 GO:0097159 GO:0140110 GO:1901360 GO:1901363 GO:1901576 GO:1903506 GO:2000104 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

E2F_TDP

Protein Analysis

217

Amino Acids

24.46

Weight (kDa)

10.05

Isoelectric Point (pI)

47.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_E2F_TDP	PF02319	128 - 186	5.8e-10	E2F/DP family winged-helix DNA-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Orthologous Genes (Group: OG0016443)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0118381 RchiOBHm_Chr5g0036461 RchiOBHm_Chr5g0067381 RchiOBHm_Chr6g0305371 RchiOBHm_Chr7g0214071
rosa_laevigata	RLG00000034614
rosa_roxburghii	Rroxscaffold_4G00316410
rosa_rugosa	Rorug03G0188300.1 Rorug04G0050200 Rorug04G0050300 Rorug05G0296500
rosa_samantha	Rh1AG221600 Rh3AG267500
rosa_wichuraiana	Rw3G025160 Rw5G041480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	299
AciI	CCGC	4 cut(s)	201, 297, 299, 463
AcsI	RAATTY	3 cut(s)	86, 149, 311
AcuI	CTGAAG	2 cut(s)	337, 573
AfiI	CCNNNNNNNGG	2 cut(s)	129, 303
AgsI	TTSAA	3 cut(s)	509, 531, 585
AluBI	AGCT	3 cut(s)	257, 357, 401
AluI	AGCT	3 cut(s)	257, 357, 401
Alw26I	GTCTC	2 cut(s)	97, 110
ApeKI	GCWGC	1 cut(s)	401
ApoI	RAATTY	3 cut(s)	86, 149, 311
ArsI	GACNNNNNNTTYG	2 cut(s)	473, 505
AsuHPI	GGTGA	2 cut(s)	68, 269
BbvCI	CCTCAGC	1 cut(s)	268
BbvI	GCAGC	1 cut(s)	388
BccI	CCATC	2 cut(s)	181, 392
BcgI	CGANNNNNNTGC	2 cut(s)	468, 502
BciVI	GTATCC	1 cut(s)	304
BcoDI	GTCTC	2 cut(s)	97, 110
BfaI	CTAG	1 cut(s)	600
BfuI	GTATCC	1 cut(s)	304
BisI	GCNGC	1 cut(s)	402
BlsI	GCNGC	1 cut(s)	403
BmsI	GCATC	4 cut(s)	49, 412, 443, 562
BplI	GAGNNNNNCTC	2 cut(s)	103, 135
Bpu10I	CCTNAGC	1 cut(s)	268
BsaJI	CCNNGG	2 cut(s)	52, 297
Bsc4I	CCNNNNNNNGG	2 cut(s)	129, 303
Bse3DI	GCAATG	1 cut(s)	163
BseDI	CCNNGG	2 cut(s)	52, 297
BseGI	GGATG	2 cut(s)	427, 434
BseLI	CCNNNNNNNGG	2 cut(s)	129, 303
BseMI	GCAATG	1 cut(s)	163
BseMII	CTCAG	1 cut(s)	282
BseRI	GAGGAG	2 cut(s)	115, 232
BseXI	GCAGC	1 cut(s)	388
Bsh1236I	CGCG	1 cut(s)	299
BslI	CCNNNNNNNGG	2 cut(s)	129, 303
BsmAI	GTCTC	2 cut(s)	97, 110
BspACI	CCGC	4 cut(s)	201, 297, 299, 463
BspCNI	CTCAG	1 cut(s)	281
BspFNI	CGCG	1 cut(s)	299
BsrDI	GCAATG	1 cut(s)	163
BssECI	CCNNGG	2 cut(s)	52, 297
BssT1I	CCWWGG	1 cut(s)	52
Bst4CI	ACNGT	2 cut(s)	108, 637
Bst6I	CTCTTC	2 cut(s)	20, 92
BstAPI	GCANNNNNTGC	1 cut(s)	431
BstC8I	GCNNGC	1 cut(s)	359
BstDEI	CTNAG	1 cut(s)	268
BstDSI	CCRYGG	1 cut(s)	297
BstF5I	GGATG	2 cut(s)	427, 434
BstFNI	CGCG	1 cut(s)	299
BstMAI	GTCTC	2 cut(s)	97, 110
BstMWI	GCNNNNNNNGC	1 cut(s)	431
BstUI	CGCG	1 cut(s)	299
BstV1I	GCAGC	1 cut(s)	388
BstXI	CCANNNNNNTGG	1 cut(s)	373
BsuI	GTATCC	1 cut(s)	304
BtgI	CCRYGG	1 cut(s)	297
BtsCI	GGATG	2 cut(s)	427, 434
BtsIMutI	CAGTG	1 cut(s)	633
Cac8I	GCNNGC	1 cut(s)	359
Cfr42I	CCGCGG	1 cut(s)	300
CviAII	CATG	2 cut(s)	46, 496
CviJI	RGCY	6 cut(s)	38, 257, 357, 401, 538, 611
CviKI_1	RGCY	6 cut(s)	38, 257, 357, 401, 538, 611
DdeI	CTNAG	1 cut(s)	268
Eam1104I	CTCTTC	2 cut(s)	20, 92
EarI	CTCTTC	2 cut(s)	20, 92
EciI	GGCGGA	1 cut(s)	478
Eco130I	CCWWGG	1 cut(s)	52
Eco32I	GATATC	1 cut(s)	625
Eco57I	CTGAAG	2 cut(s)	337, 573
EcoRV	GATATC	1 cut(s)	625
EcoT14I	CCWWGG	1 cut(s)	52
EcoT22I	ATGCAT	1 cut(s)	436
ErhI	CCWWGG	1 cut(s)	52
FaeI	CATG	2 cut(s)	49, 499
FaiI	YATR	6 cut(s)	47, 333, 471, 497, 544, 546
FalI	AAGNNNNNCTT	2 cut(s)	523, 555
FatI	CATG	2 cut(s)	45, 495
FauI	CCCGC	2 cut(s)	194, 292
Fnu4HI	GCNGC	1 cut(s)	402
FokI	GGATG	2 cut(s)	421, 434
Fsp4HI	GCNGC	1 cut(s)	402
FspBI	CTAG	1 cut(s)	600
GluI	GCNGC	1 cut(s)	402
Hin1II	CATG	2 cut(s)	49, 499
HincII	GTYRAC	1 cut(s)	238
HindII	GTYRAC	1 cut(s)	238
HinfI	GANTC	6 cut(s)	118, 274, 380, 499, 527, 596
HphI	GGTGA	2 cut(s)	68, 269
Hpy166II	GTNNAC	1 cut(s)	238
Hpy188I	TCNGA	1 cut(s)	592
Hpy188III	TCNNGA	1 cut(s)	600
Hpy8I	GTNNAC	1 cut(s)	238
HpyAV	CCTTC	2 cut(s)	69, 549
HpyCH4III	ACNGT	2 cut(s)	108, 637
HpyCH4V	TGCA	7 cut(s)	62, 156, 170, 404, 425, 434, 479
HpyF10VI	GCNNNNNNNGC	1 cut(s)	431
HpyF3I	CTNAG	1 cut(s)	268
Hsp92II	CATG	2 cut(s)	49, 499
KspI	CCGCGG	1 cut(s)	300
LmnI	GCTCC	2 cut(s)	54, 262
LpnPI	CCDG	2 cut(s)	136, 264
Lsp1109I	GCAGC	1 cut(s)	388
LweI	GCATC	4 cut(s)	49, 412, 443, 562
MaeI	CTAG	1 cut(s)	600
MaeIII	GTNAC	2 cut(s)	11, 217
MboII	GAAGA	2 cut(s)	37, 109
MluCI	AATT	4 cut(s)	86, 149, 171, 311
MlyI	GAGTC	3 cut(s)	112, 268, 605
MmeI	TCCRAC	2 cut(s)	284, 309
Mph1103I	ATGCAT	1 cut(s)	436
MseI	TTAA	1 cut(s)	560
MslI	CAYNNNNRTG	1 cut(s)	547
MspA1I	CMGCKG	1 cut(s)	299
MvnI	CGCG	1 cut(s)	299
MwoI	GCNNNNNNNGC	1 cut(s)	431
NlaIII	CATG	2 cut(s)	49, 499
NmuCI	GTSAC	1 cut(s)	11
NsiI	ATGCAT	1 cut(s)	436
PfeI	GAWTC	3 cut(s)	380, 499, 527
PkrI	GCNGC	1 cut(s)	403
PleI	GAGTC	3 cut(s)	112, 268, 604
PpsI	GAGTC	3 cut(s)	112, 268, 604
RseI	CAYNNNNRTG	1 cut(s)	547
SacII	CCGCGG	1 cut(s)	300
SaqAI	TTAA	1 cut(s)	560
SatI	GCNGC	1 cut(s)	402
SchI	GAGTC	3 cut(s)	112, 268, 605
SetI	ASST	6 cut(s)	58, 224, 259, 359, 403, 410
SfaNI	GCATC	4 cut(s)	49, 412, 443, 562
Sfr303I	CCGCGG	1 cut(s)	300
SgrBI	CCGCGG	1 cut(s)	300
SmiMI	CAYNNNNRTG	1 cut(s)	547
Sse9I	AATT	4 cut(s)	86, 149, 171, 311
SsiI	CCGC	4 cut(s)	201, 297, 299, 463
SspI	AATATT	1 cut(s)	346
SspMI	CTAG	1 cut(s)	600
StyI	CCWWGG	1 cut(s)	52
TaaI	ACNGT	2 cut(s)	108, 637
TaqI	TCGA	1 cut(s)	245
TaqII	GACCGA	1 cut(s)	167
TasI	AATT	4 cut(s)	86, 149, 171, 311
TfiI	GAWTC	3 cut(s)	380, 499, 527
Tru1I	TTAA	1 cut(s)	560
Tru9I	TTAA	1 cut(s)	560
TscAI	CASTG	1 cut(s)	640
TseFI	GTSAC	1 cut(s)	11
TseI	GCWGC	1 cut(s)	401
Tsp45I	GTSAC	1 cut(s)	11
TspDTI	ATGAA	5 cut(s)	34, 304, 411, 512, 531
TspGWI	ACGGA	1 cut(s)	427
TspRI	CASTG	1 cut(s)	640
XapI	RAATTY	3 cut(s)	86, 149, 311
XbaI	TCTAGA	1 cut(s)	599
XcmI	CCANNNNNNNNNTGG	1 cut(s)	370
XspI	CTAG	1 cut(s)	600
Zsp2I	ATGCAT	1 cut(s)	436

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