Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7C

Orthogroup ID

OG0005126

Physical Location & Seq

Genomic Coordinates Forward (+)

69710406 .. 69714146

Gene Structure 3741 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7CG518300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 309 bp

ATGAGCAAGTCTTCTGCAGGGGAAGGTTCATCCTCAAAAGCGAAAGCTGGACCCTCACAGCCGGCAGAAACTTCATTTAAGCGCAAGCGTGGAGTCTTCCAAAAAGAATTGCAGCACATGATGTATGGTTTCGGAGATGATCCCAATCCTCTTCCAGAGAGTGTGGCTCTCATGGAGGATATTGTGGTTGAATATATTACAGATCTGGTACATAAAGCCCAAGATACTGGATCAAATAGGGGAAAGCTATCAGTGGAGGATTTTCTCTACCTAATCCGCAAGGTATCTTCAGTGCTGTATATATCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000428 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003712 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005669 GO:0006355 GO:0006357 GO:0007275 GO:0008150 GO:0009790 GO:0009791 GO:0009793 GO:0009888 GO:0009889 GO:0009960 GO:0010154 GO:0010468 GO:0010556 GO:0016591 GO:0019219 GO:0019222 GO:0022414 GO:0030880 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0055029 GO:0060255 GO:0061458 GO:0061695 GO:0065007 GO:0070013 GO:0080090 GO:0090575 GO:0097159 GO:0140110 GO:1901363 GO:1902494 GO:1903506 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03022 ko05168 map03022 map05168

Pfam Domains

Protein Families

TFIID-18kDa

Protein Analysis

102

Amino Acids

11.21

Weight (kDa)

6.73

Isoelectric Point (pI)

43.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIID-18kDa	PF02269	32 - 94	1e-20	Transcription initiation factor IID, 18kD subunit

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: 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)
AciI	CCGC	1 cut(s)	277
AclWI	GGATC	2 cut(s)	134, 238
AcuI	CTGAAG	1 cut(s)	273
AfaI	GTAC	1 cut(s)	210
AgsI	TTSAA	1 cut(s)	191
AluBI	AGCT	2 cut(s)	47, 247
AluI	AGCT	2 cut(s)	47, 247
AlwI	GGATC	2 cut(s)	134, 238
ApeKI	GCWGC	1 cut(s)	112
AspLEI	GCGC	1 cut(s)	84
AspS9I	GGNCC	1 cut(s)	50
AvaII	GGWCC	1 cut(s)	50
BbsI	GAAGAC	2 cut(s)	3, 88
BbvI	GCAGC	1 cut(s)	124
BfmI	CTRYAG	1 cut(s)	15
BglII	AGATCT	1 cut(s)	202
BisI	GCNGC	1 cut(s)	113
BlsI	GCNGC	1 cut(s)	114
Bme18I	GGWCC	1 cut(s)	50
BmgT120I	GGNCC	1 cut(s)	50
BmiI	GGNNCC	1 cut(s)	52
BpiI	GAAGAC	2 cut(s)	3, 88
BplI	GAGNNNNNCTC	2 cut(s)	151, 183
BsaBI	GATNNNNATC	1 cut(s)	144
Bse118I	RCCGGY	1 cut(s)	61
Bse1I	ACTGG	1 cut(s)	232
Bse8I	GATNNNNATC	1 cut(s)	144
BseGI	GGATG	1 cut(s)	29
BseJI	GATNNNNATC	1 cut(s)	144
BseNI	ACTGG	1 cut(s)	232
BseXI	GCAGC	1 cut(s)	124
BsiSI	CCGG	1 cut(s)	62
Bsp143I	GATC	3 cut(s)	139, 202, 230
BspACI	CCGC	1 cut(s)	277
BspLI	GGNNCC	1 cut(s)	52
BspMAI	CTGCAG	1 cut(s)	19
BspPI	GGATC	2 cut(s)	134, 238
BsrFI	RCCGGY	1 cut(s)	61
BsrI	ACTGG	1 cut(s)	232
BssAI	RCCGGY	1 cut(s)	61
BssMI	GATC	3 cut(s)	139, 202, 230
Bst6I	CTCTTC	1 cut(s)	156
BstC8I	GCNNGC	2 cut(s)	63, 86
BstF5I	GGATG	1 cut(s)	29
BstHHI	GCGC	1 cut(s)	84
BstKTI	GATC	3 cut(s)	142, 205, 233
BstMBI	GATC	3 cut(s)	139, 202, 230
BstSFI	CTRYAG	1 cut(s)	15
BstV1I	GCAGC	1 cut(s)	124
BstV2I	GAAGAC	2 cut(s)	3, 88
BstX2I	RGATCY	1 cut(s)	202
BstXI	CCANNNNNNTGG	1 cut(s)	227
BstYI	RGATCY	1 cut(s)	202
BtsCI	GGATG	1 cut(s)	29
BtsIMutI	CAGTG	2 cut(s)	258, 297
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	5 cut(s)	47, 61, 167, 218, 247
CviKI_1	RGCY	5 cut(s)	47, 61, 167, 218, 247
CviQI	GTAC	1 cut(s)	209
DpnI	GATC	3 cut(s)	141, 204, 232
DpnII	GATC	3 cut(s)	139, 202, 230
Eam1104I	CTCTTC	1 cut(s)	156
EarI	CTCTTC	1 cut(s)	156
Eco47I	GGWCC	1 cut(s)	50
Eco57I	CTGAAG	1 cut(s)	273
FaeI	CATG	2 cut(s)	121, 175
FaiI	YATR	7 cut(s)	119, 126, 173, 195, 213, 300, 302
FatI	CATG	2 cut(s)	117, 171
Fnu4HI	GCNGC	1 cut(s)	113
FokI	GGATG	1 cut(s)	16
Fsp4HI	GCNGC	1 cut(s)	113
GlaI	GCGC	1 cut(s)	83
GluI	GCNGC	1 cut(s)	113
HapII	CCGG	1 cut(s)	62
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
HinfI	GANTC	1 cut(s)	93
HpaII	CCGG	1 cut(s)	62
Hpy188I	TCNGA	1 cut(s)	134
Hpy188III	TCNNGA	1 cut(s)	155
HpyAV	CCTTC	1 cut(s)	17
HpyCH4V	TGCA	2 cut(s)	17, 112
Hsp92II	CATG	2 cut(s)	121, 175
HspAI	GCGC	1 cut(s)	82
KroI	GCCGGC	1 cut(s)	61
KroNI	GCCGGC	1 cut(s)	63
Kzo9I	GATC	3 cut(s)	139, 202, 230
LpnPI	CCDG	6 cut(s)	3, 33, 75, 168, 191, 213
Lsp1109I	GCAGC	1 cut(s)	124
MalI	GATC	3 cut(s)	141, 204, 232
MboI	GATC	3 cut(s)	139, 202, 230
MboII	GAAGA	4 cut(s)	3, 88, 143, 279
MflI	RGATCY	1 cut(s)	202
MluCI	AATT	1 cut(s)	107
MlyI	GAGTC	1 cut(s)	102
MnlI	CCTC	5 cut(s)	43, 64, 159, 169, 250
MroNI	GCCGGC	1 cut(s)	61
MseI	TTAA	1 cut(s)	78
MspI	CCGG	1 cut(s)	62
NaeI	GCCGGC	1 cut(s)	63
NdeII	GATC	3 cut(s)	139, 202, 230
NgoMIV	GCCGGC	1 cut(s)	61
NlaIII	CATG	2 cut(s)	121, 175
NlaIV	GGNNCC	1 cut(s)	52
PdiI	GCCGGC	1 cut(s)	63
PkrI	GCNGC	1 cut(s)	114
PleI	GAGTC	1 cut(s)	101
PpsI	GAGTC	1 cut(s)	101
PspN4I	GGNNCC	1 cut(s)	52
PspPI	GGNCC	1 cut(s)	50
PstI	CTGCAG	1 cut(s)	19
PsuI	RGATCY	1 cut(s)	202
RsaI	GTAC	1 cut(s)	210
RsaNI	GTAC	1 cut(s)	209
SaqAI	TTAA	1 cut(s)	78
SatI	GCNGC	1 cut(s)	113
Sau3AI	GATC	3 cut(s)	139, 202, 230
Sau96I	GGNCC	1 cut(s)	50
SchI	GAGTC	1 cut(s)	102
SetI	ASST	5 cut(s)	28, 49, 249, 273, 285
SfcI	CTRYAG	1 cut(s)	15
SinI	GGWCC	1 cut(s)	50
Sse9I	AATT	1 cut(s)	107
SsiI	CCGC	1 cut(s)	277
TasI	AATT	1 cut(s)	107
Tru1I	TTAA	1 cut(s)	78
Tru9I	TTAA	1 cut(s)	78
TscAI	CASTG	2 cut(s)	258, 297
TseI	GCWGC	1 cut(s)	112
TspDTI	ATGAA	2 cut(s)	18, 63
TspRI	CASTG	2 cut(s)	258, 297
VpaK11BI	GGWCC	1 cut(s)	50

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