Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0000772

Physical Location & Seq

Genomic Coordinates Forward (+)

57041535 .. 57041926

Gene Structure 392 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG375300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 216 bp

ATGAAGTTTATCATGTTCAAATGTTATCATAGTTACATAAGAAATGACGCCAAATATGAATTGAGATGTATGAGAAATGCTTTAGATATGGGAGACAATGAAGAAATTATTGACATAGCTAAACGCTTTTATAGAATTGTGATTGAGCGGAATTTCACAAGGGGCCGTAAGTCAGAGCAAGTACAGGCTGCATTTCTTTACATTGCATGTCGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000126 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0006139 GO:0006351 GO:0006352 GO:0006383 GO:0006384 GO:0006399 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009303 GO:0009304 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0018130 GO:0019438 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044798 GO:0046483 GO:0070013 GO:0071704 GO:0090304 GO:0090576 GO:0097659 GO:0098781 GO:1901360 GO:1901362 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

BRF1 TFIIB

Protein Analysis

71

Amino Acids

8.67

Weight (kDa)

9.37

Isoelectric Point (pI)

46.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIIB	PF00382	16 - 71	1.6e-09	Transcription factor TFIIB repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0000772)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G30455 AT2G01280 AT2G01280 AT2G01280 AT2G45100 AT2G45100 AT2G45100 AT3G09360 AT3G09360 AT3G09360
fragaria_vesca	FvH4_4g11810 FvH4_4g11810 FvH4_4g11810 FvH4_4g11810 FvH4_4g11810 FvH4_4g11810 FvH4_4g11810 FvH4_4g11810 FvH4_4g11810 FvH4_4g11810 FvH4_4g11810 FvH4_5g32090 FvH4_5g32090 FvH4_5g32090 FvH4_5g32090 FvH4_5g32090 FvH4_5g32090 FvH4_5g32090 FvH4_5g32090 FvH4_5g32090 FvH4_5g32090 FvH4_5g32090 FvH4_5g32090 FvH4_7g06241
malus_domestica	MD04G1033900.v1.1
prunus_persica	Prupe.1G180700_v2.0.a1
pyrus_communis	pycom04g02830
rosa_chinensis	RchiOBHm_Chr4g0409121 RchiOBHm_Chr7g0228131
rosa_laevigata	RLG00000001586 RLG00000008590
rosa_multiflora	Rmu_sc0001348.1_g000036 Rmu_sc0001348.1_g000042 Rmu_sc0001526.1_g000006 Rmu_sc0001526.1_g000008 Rmu_sc0012031.1_g000013 Rmu_sc0021826.1_g000001 Rmu_ssc0000372.1_g000072
rosa_roxburghii	Rroxscaffold_2G00115130 Rroxscaffold_3G00231370 Rroxscaffold_5G00353680 Rroxscaffold_7G00191300
rosa_rugosa	Rorug04G0090500 Rorug04G0090600 Rorug04G0090700 Rorug07G0245700 Rorug07G0245800
rosa_samantha	Rh2AG319000 Rh4AG154400 Rh4BG152200 Rh4CG163600 Rh4CG264400 Rh4DG147400 Rh5DG375300 Rh7AG400000 Rh7BG381300 Rh7CG418200 Rh7DG396100
rosa_wichuraiana	Rw0G005090 Rw0G011060

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	148
AciI	CCGC	1 cut(s)	148
AcsI	RAATTY	1 cut(s)	151
AcyI	GRCGYC	1 cut(s)	48
AfaI	GTAC	1 cut(s)	183
AgsI	TTSAA	1 cut(s)	19
AluBI	AGCT	1 cut(s)	119
AluI	AGCT	1 cut(s)	119
Alw26I	GTCTC	1 cut(s)	87
AoxI	GGCC	1 cut(s)	163
ApeKI	GCWGC	1 cut(s)	188
ApoI	RAATTY	1 cut(s)	151
AspS9I	GGNCC	1 cut(s)	163
BbvI	GCAGC	1 cut(s)	175
BceAI	ACGGC	1 cut(s)	150
BcoDI	GTCTC	1 cut(s)	87
BisI	GCNGC	1 cut(s)	189
BlsI	GCNGC	1 cut(s)	190
BmgT120I	GGNCC	1 cut(s)	163
BmiI	GGNNCC	1 cut(s)	164
BsaHI	GRCGYC	1 cut(s)	48
Bse3DI	GCAATG	1 cut(s)	201
BseMI	GCAATG	1 cut(s)	201
BseXI	GCAGC	1 cut(s)	175
BshFI	GGCC	1 cut(s)	165
BsmAI	GTCTC	1 cut(s)	87
BsnI	GGCC	1 cut(s)	165
BspACI	CCGC	1 cut(s)	148
BspANI	GGCC	1 cut(s)	165
BspLI	GGNNCC	1 cut(s)	164
BsrBI	CCGCTC	1 cut(s)	148
BsrDI	GCAATG	1 cut(s)	201
BssNI	GRCGYC	1 cut(s)	48
BstACI	GRCGYC	1 cut(s)	48
BstMAI	GTCTC	1 cut(s)	87
BstNSI	RCATGY	1 cut(s)	210
BstV1I	GCAGC	1 cut(s)	175
BsuRI	GGCC	1 cut(s)	165
Cfr13I	GGNCC	1 cut(s)	163
CseI	GACGC	1 cut(s)	56
Csp6I	GTAC	1 cut(s)	182
CviAII	CATG	2 cut(s)	13, 207
CviJI	RGCY	3 cut(s)	119, 165, 188
CviKI_1	RGCY	3 cut(s)	119, 165, 188
CviQI	GTAC	1 cut(s)	182
FaeI	CATG	2 cut(s)	16, 210
FaiI	YATR	9 cut(s)	14, 30, 38, 57, 71, 89, 116, 132, 208
FatI	CATG	2 cut(s)	12, 206
Fnu4HI	GCNGC	1 cut(s)	189
Fsp4HI	GCNGC	1 cut(s)	189
GluI	GCNGC	1 cut(s)	189
HaeIII	GGCC	1 cut(s)	165
HgaI	GACGC	1 cut(s)	56
Hin1I	GRCGYC	1 cut(s)	48
Hin1II	CATG	2 cut(s)	16, 210
Hpy188I	TCNGA	1 cut(s)	175
HpyCH4V	TGCA	2 cut(s)	191, 206
Hsp92I	GRCGYC	1 cut(s)	48
Hsp92II	CATG	2 cut(s)	16, 210
LpnPI	CCDG	1 cut(s)	170
Lsp1109I	GCAGC	1 cut(s)	175
MaeIII	GTNAC	1 cut(s)	32
MbiI	CCGCTC	1 cut(s)	148
MboII	GAAGA	1 cut(s)	113
MluCI	AATT	4 cut(s)	59, 105, 135, 151
NlaIII	CATG	2 cut(s)	16, 210
NlaIV	GGNNCC	1 cut(s)	164
NspI	RCATGY	1 cut(s)	210
PkrI	GCNGC	1 cut(s)	190
PspN4I	GGNNCC	1 cut(s)	164
PspPI	GGNCC	1 cut(s)	163
RsaI	GTAC	1 cut(s)	183
RsaNI	GTAC	1 cut(s)	182
SatI	GCNGC	1 cut(s)	189
Sau96I	GGNCC	1 cut(s)	163
SetI	ASST	1 cut(s)	121
SgeI	CNNG	4 cut(s)	25, 171, 191, 197
Sse9I	AATT	4 cut(s)	59, 105, 135, 151
SsiI	CCGC	1 cut(s)	148
TasI	AATT	4 cut(s)	59, 105, 135, 151
TatI	WGTACW	1 cut(s)	181
TseI	GCWGC	1 cut(s)	188
TspDTI	ATGAA	3 cut(s)	17, 72, 114
XapI	RAATTY	1 cut(s)	151
XceI	RCATGY	1 cut(s)	210

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