Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0005126

Physical Location & Seq

Genomic Coordinates Reverse (-)

28899594 .. 28903485

Gene Structure 3892 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG160600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 732 bp

ATGAGCAAGTCTTCTGCAGGGGAAGGTTCATCCTCAAAAGCGAAAGCCGGACCCTCACAGCCGGCAGAAAGTTCATTTAAGCGCAAGCGTGGAGTCTTCCAAAAAGAATTGCAGCACATGATGTATGGTTTCGGAGATGATCCCAATCCTCTTCCGGAGAGTGTGGCTCTCATGGAGGACATAGTGGTTGAATACATTACAGATTTGGTACATAAAGCCCAAGATACTGGATCAAATAGGGGAAAGCTATCAGTGGAGGATTTTCTCTACCTAATCCGCAAGGGATGCGTTACCTCTGTTCCCAAGCATTCTATTGATGTTGTCCCACTACAGATAGTGTGTCACAAGACCAGTGATGATAAGGACTTTAATGATGACAAGGTTTTCAAATGTTTTTGGAGAAATGCTCAGCAAGTAATTGAATCTACAAAGTCCTGTCCGCCCAGTGCAATAAAATATCAGGATAACTTTTGTGTTTTCATACGTGAGGTTTTGAGAAACAGTTCTCACCTCTTGACAGATGATGAAAAGGATTTCATCGAGTCGTTTACTTCAATGTCAGATGATAGTCAGAGGCTATTTGTTCGGCTTTATACACGGAAAGAGACAGGGAATACATCTTGCTTTGAAACAAATAAACTATCTGATGATGATATTAAGGAGATTTTGGATTTGCTCACTGTATCTGAGCTACGTGAAATCTTGTGCATCCTTAAGCAGGTTGACATCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000280 GO:0003674 GO:0003676 GO:0003677 GO:0003824 GO:0004518 GO:0004519 GO:0004520 GO:0004527 GO:0004536 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006281 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007059 GO:0007127 GO:0007129 GO:0008150 GO:0008152 GO:0008409 GO:0009987 GO:0016043 GO:0016787 GO:0016788 GO:0016888 GO:0016893 GO:0017108 GO:0022402 GO:0022414 GO:0033554 GO:0034641 GO:0036297 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044464 GO:0045132 GO:0045143 GO:0046483 GO:0048256 GO:0048285 GO:0050896 GO:0051276 GO:0051321 GO:0051716 GO:0061982 GO:0070192 GO:0070336 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0098813 GO:0140013 GO:0140097 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko03460 map03460

Pfam Domains

Protein Families

HIRAN VRR_NUC

Protein Analysis

243

Amino Acids

27.52

Weight (kDa)

5.34

Isoelectric Point (pI)

46.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIID-18kDa	PF02269	32 - 94	7.5e-20	Transcription initiation factor IID, 18kD subunit
FAN1_HTH	PF21315	153 - 222	1.1e-08	FAN1, HTH domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005126)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G02680
fragaria_vesca	FvH4_5g39500 FvH4_6g14960
malus_domestica	MD02G1287100.v1.1 MD02G1287200.v1.1
prunus_persica	Prupe.2G036200_v2.0.a1
pyrus_communis	pycom02g24340
rosa_chinensis	RchiOBHm_Chr4g0410491 RchiOBHm_Chr7g0241821
rosa_laevigata	RLG00000000541 RLG00000008420
rosa_multiflora	Rmu_co8297743.1_g000001 Rmu_sc0001865.1_g000010 Rmu_sc0007471.1_g000001 Rmu_sc0016181.1_g000002
rosa_roxburghii	Rroxscaffold_3G00218640 Rroxscaffold_5G00355320
rosa_rugosa	Rorug04G0114100 Rorug07G0347400 Rorug07G0347500
rosa_samantha	Rh4AG161000 Rh4BG160600 Rh4CG173300 Rh4DG156600 Rh7AG501800 Rh7BG473200 Rh7CG518300 Rh7DG487100
rosa_wichuraiana	Rw4G013450 Rw7G042420

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	709
AccIII	TCCGGA	1 cut(s)	154
AciI	CCGC	2 cut(s)	277, 440
AclWI	GGATC	2 cut(s)	134, 238
AfaI	GTAC	1 cut(s)	210
AfiI	CCNNNNNNNGG	1 cut(s)	718
AflII	CTTAAG	1 cut(s)	713
AgsI	TTSAA	5 cut(s)	191, 388, 422, 555, 629
AluBI	AGCT	2 cut(s)	247, 691
AluI	AGCT	2 cut(s)	247, 691
Alw26I	GTCTC	1 cut(s)	599
AlwI	GGATC	2 cut(s)	134, 238
Aor13HI	TCCGGA	1 cut(s)	154
ApeKI	GCWGC	1 cut(s)	112
Asp700I	GAANNNNTTC	1 cut(s)	502
AspLEI	GCGC	1 cut(s)	84
AspS9I	GGNCC	1 cut(s)	50
AsuHPI	GGTGA	1 cut(s)	500
AvaII	GGWCC	1 cut(s)	50
BbsI	GAAGAC	2 cut(s)	3, 88
BbvI	GCAGC	1 cut(s)	124
BcoDI	GTCTC	1 cut(s)	599
BfmI	CTRYAG	2 cut(s)	15, 329
BfrI	CTTAAG	1 cut(s)	713
BfuAI	ACCTGC	1 cut(s)	709
BisI	GCNGC	1 cut(s)	113
BlpI	GCTNAGC	1 cut(s)	408
BlsI	GCNGC	1 cut(s)	114
Bme18I	GGWCC	1 cut(s)	50
BmgT120I	GGNCC	1 cut(s)	50
BmiI	GGNNCC	1 cut(s)	52
BmrI	ACTGGG	1 cut(s)	438
BmsI	GCATC	2 cut(s)	275, 717
BmuI	ACTGGG	1 cut(s)	438
BpiI	GAAGAC	2 cut(s)	3, 88
BplI	GAGNNNNNCTC	4 cut(s)	151, 183, 391, 423
Bpu1102I	GCTNAGC	1 cut(s)	408
BsaAI	YACGTR	2 cut(s)	485, 695
BsaBI	GATNNNNATC	1 cut(s)	144
BsaWI	WCCGGW	1 cut(s)	154
Bsc4I	CCNNNNNNNGG	1 cut(s)	718
Bse118I	RCCGGY	1 cut(s)	61
Bse1I	ACTGG	3 cut(s)	232, 351, 444
Bse8I	GATNNNNATC	1 cut(s)	144
BseAI	TCCGGA	1 cut(s)	154
BseGI	GGATG	3 cut(s)	29, 290, 708
BseJI	GATNNNNATC	1 cut(s)	144
BseLI	CCNNNNNNNGG	1 cut(s)	718
BseMII	CTCAG	2 cut(s)	422, 678
BseNI	ACTGG	3 cut(s)	232, 351, 444
BseXI	GCAGC	1 cut(s)	124
BsiSI	CCGG	3 cut(s)	48, 62, 155
BslFI	GGGAC	1 cut(s)	308
BslI	CCNNNNNNNGG	1 cut(s)	718
BsmAI	GTCTC	1 cut(s)	599
BsmFI	GGGAC	1 cut(s)	308
BsmI	GAATGC	1 cut(s)	307
Bsp13I	TCCGGA	1 cut(s)	154
Bsp143I	GATC	2 cut(s)	139, 230
Bsp1720I	GCTNAGC	1 cut(s)	408
BspACI	CCGC	2 cut(s)	277, 440
BspCNI	CTCAG	2 cut(s)	421, 679
BspEI	TCCGGA	1 cut(s)	154
BspLI	GGNNCC	1 cut(s)	52
BspMAI	CTGCAG	1 cut(s)	19
BspMI	ACCTGC	1 cut(s)	709
BspPI	GGATC	2 cut(s)	134, 238
BspTI	CTTAAG	1 cut(s)	713
BsrFI	RCCGGY	1 cut(s)	61
BsrI	ACTGG	3 cut(s)	232, 351, 444
BssAI	RCCGGY	1 cut(s)	61
BssMI	GATC	2 cut(s)	139, 230
Bst4CI	ACNGT	2 cut(s)	503, 682
Bst6I	CTCTTC	1 cut(s)	156
BstAFI	CTTAAG	1 cut(s)	713
BstAPI	GCANNNNNTGC	1 cut(s)	285
BstBAI	YACGTR	2 cut(s)	485, 695
BstC8I	GCNNGC	2 cut(s)	63, 86
BstDEI	CTNAG	2 cut(s)	408, 687
BstENI	CCTNNNNNAGG	1 cut(s)	716
BstF5I	GGATG	3 cut(s)	29, 290, 708
BstHHI	GCGC	1 cut(s)	84
BstKTI	GATC	2 cut(s)	142, 233
BstMAI	GTCTC	1 cut(s)	599
BstMBI	GATC	2 cut(s)	139, 230
BstMWI	GCNNNNNNNGC	1 cut(s)	285
BstSFI	CTRYAG	2 cut(s)	15, 329
BstV1I	GCAGC	1 cut(s)	124
BstV2I	GAAGAC	2 cut(s)	3, 88
BstXI	CCANNNNNNTGG	1 cut(s)	227
BtsCI	GGATG	3 cut(s)	29, 290, 708
BtsIMutI	CAGTG	4 cut(s)	258, 358, 451, 678
BveI	ACCTGC	1 cut(s)	709
Cac8I	GCNNGC	2 cut(s)	63, 86
CfoI	GCGC	1 cut(s)	84
Cfr10I	RCCGGY	1 cut(s)	61
Cfr13I	GGNCC	1 cut(s)	50
Csp6I	GTAC	1 cut(s)	209
CviAII	CATG	2 cut(s)	118, 172
CviJI	RGCY	8 cut(s)	47, 61, 167, 218, 247, 577, 589, 691
CviKI_1	RGCY	8 cut(s)	47, 61, 167, 218, 247, 577, 589, 691
CviQI	GTAC	1 cut(s)	209
DdeI	CTNAG	2 cut(s)	408, 687
DpnI	GATC	2 cut(s)	141, 232
DpnII	GATC	2 cut(s)	139, 230
Eam1104I	CTCTTC	1 cut(s)	156
EarI	CTCTTC	1 cut(s)	156
EciI	GGCGGA	1 cut(s)	429
Eco47I	GGWCC	1 cut(s)	50
EcoNI	CCTNNNNNAGG	1 cut(s)	716
FaeI	CATG	2 cut(s)	121, 175
FaiI	YATR	7 cut(s)	119, 126, 173, 182, 213, 482, 594
FaqI	GGGAC	1 cut(s)	308
FatI	CATG	2 cut(s)	117, 171
Fnu4HI	GCNGC	1 cut(s)	113
FokI	GGATG	3 cut(s)	16, 297, 695
Fsp4HI	GCNGC	1 cut(s)	113
GlaI	GCGC	1 cut(s)	83
GluI	GCNGC	1 cut(s)	113
HapII	CCGG	3 cut(s)	48, 62, 155
HhaI	GCGC	1 cut(s)	84
Hin1II	CATG	2 cut(s)	121, 175
Hin6I	GCGC	1 cut(s)	82
HinP1I	GCGC	1 cut(s)	82
HincII	GTYRAC	1 cut(s)	724
HindII	GTYRAC	1 cut(s)	724
HinfI	GANTC	3 cut(s)	93, 422, 542
HpaII	CCGG	3 cut(s)	48, 62, 155
HphI	GGTGA	1 cut(s)	500
Hpy166II	GTNNAC	2 cut(s)	549, 724
Hpy188I	TCNGA	5 cut(s)	134, 562, 573, 646, 688
Hpy188III	TCNNGA	3 cut(s)	155, 461, 514
Hpy8I	GTNNAC	2 cut(s)	549, 724
HpyAV	CCTTC	1 cut(s)	17
HpyCH4III	ACNGT	2 cut(s)	503, 682
HpyCH4IV	ACGT	2 cut(s)	484, 694
HpyCH4V	TGCA	4 cut(s)	17, 112, 449, 708
HpyF10VI	GCNNNNNNNGC	1 cut(s)	285
HpyF3I	CTNAG	2 cut(s)	408, 687
HpySE526I	ACGT	2 cut(s)	484, 694
Hsp92II	CATG	2 cut(s)	121, 175
HspAI	GCGC	1 cut(s)	82
Kpn2I	TCCGGA	1 cut(s)	154
KroI	GCCGGC	1 cut(s)	61
KroNI	GCCGGC	1 cut(s)	63
Kzo9I	GATC	2 cut(s)	139, 230
Lsp1109I	GCAGC	1 cut(s)	124
LweI	GCATC	2 cut(s)	275, 717
MaeII	ACGT	2 cut(s)	484, 694
MaeIII	GTNAC	2 cut(s)	289, 341
MalI	GATC	2 cut(s)	141, 232
MboI	GATC	2 cut(s)	139, 230
MboII	GAAGA	3 cut(s)	3, 88, 143
MluCI	AATT	2 cut(s)	107, 417
MlyI	GAGTC	2 cut(s)	102, 551
MnlI	CCTC	9 cut(s)	43, 64, 159, 169, 250, 304, 481, 521, 567
MroI	TCCGGA	1 cut(s)	154
MroNI	GCCGGC	1 cut(s)	61
MroXI	GAANNNNTTC	1 cut(s)	502
MseI	TTAA	4 cut(s)	78, 369, 657, 714
MspCI	CTTAAG	1 cut(s)	713
MspI	CCGG	3 cut(s)	48, 62, 155
Mva1269I	GAATGC	1 cut(s)	307
MwoI	GCNNNNNNNGC	1 cut(s)	285
NaeI	GCCGGC	1 cut(s)	63
NdeII	GATC	2 cut(s)	139, 230
NgoMIV	GCCGGC	1 cut(s)	61
NlaIII	CATG	2 cut(s)	121, 175
NlaIV	GGNNCC	1 cut(s)	52
NmuCI	GTSAC	1 cut(s)	341
PctI	GAATGC	1 cut(s)	307
PdiI	GCCGGC	1 cut(s)	63
PdmI	GAANNNNTTC	1 cut(s)	502
PfeI	GAWTC	1 cut(s)	422
PkrI	GCNGC	1 cut(s)	114
PleI	GAGTC	2 cut(s)	101, 550
PpsI	GAGTC	2 cut(s)	101, 550
Ppu21I	YACGTR	2 cut(s)	485, 695
PspN4I	GGNNCC	1 cut(s)	52
PspPI	GGNCC	1 cut(s)	50
PstI	CTGCAG	1 cut(s)	19
RsaI	GTAC	1 cut(s)	210
RsaNI	GTAC	1 cut(s)	209
SaqAI	TTAA	4 cut(s)	78, 369, 657, 714
SatI	GCNGC	1 cut(s)	113
Sau3AI	GATC	2 cut(s)	139, 230
Sau96I	GGNCC	1 cut(s)	50
SchI	GAGTC	2 cut(s)	102, 551
SfaNI	GCATC	2 cut(s)	275, 717
SfcI	CTRYAG	2 cut(s)	15, 329
SinI	GGWCC	1 cut(s)	50
SmlI	CTYRAG	1 cut(s)	713
SmoI	CTYRAG	1 cut(s)	713
Sse9I	AATT	2 cut(s)	107, 417
SsiI	CCGC	2 cut(s)	277, 440
TaaI	ACNGT	2 cut(s)	503, 682
TaiI	ACGT	2 cut(s)	487, 697
TaqI	TCGA	1 cut(s)	540
TasI	AATT	2 cut(s)	107, 417
TfiI	GAWTC	1 cut(s)	422
Tru1I	TTAA	4 cut(s)	78, 369, 657, 714
Tru9I	TTAA	4 cut(s)	78, 369, 657, 714
TscAI	CASTG	4 cut(s)	258, 358, 451, 685
TseFI	GTSAC	1 cut(s)	341
TseI	GCWGC	1 cut(s)	112
Tsp45I	GTSAC	1 cut(s)	341
TspDTI	ATGAA	5 cut(s)	18, 63, 469, 526, 540
TspGWI	ACGGA	1 cut(s)	613
TspRI	CASTG	4 cut(s)	258, 358, 451, 685
Vha464I	CTTAAG	1 cut(s)	713
VpaK11BI	GGWCC	1 cut(s)	50
XagI	CCTNNNNNAGG	1 cut(s)	716
XmnI	GAANNNNTTC	1 cut(s)	502

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