Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0005126

Physical Location & Seq

Genomic Coordinates Reverse (-)

37917903 .. 37919594

Gene Structure 1692 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG173300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 426 bp

ATGAGCAAGTCTTCTGCAGGGGAAGGTTCATCCTCAAAAGCGAAAGCTGGACCCTCGCAGCCGGCCGAAACTTCATTTAAGCGCAAGCGTGGAGTCTTCCAAAAAGAATTGCAGCACATGATGTATGGTTTCGGAGATGATCCCAATCCTCTTCCGGAGAGTGTGGCTCTCATGGAGGACATAGTGGTTGAATACATTACAGATTTGGTACATAAAGCCCAAGATACTGGATCAAATAGGGGAAAGCTATCAGTGGAGGATTTTCTCTACCTAATCCGCAAGGATTCTCCAAAACTTAACCGCTGTAAAGAATTGCTGTCTATGAATGAAGAGCTAAAGCAAGCAAGGAAGGCTTTTGAGACAGATGAAGAGAACCTGCGGAAAGCTTTTGAGGCAGATGATGATAAACTGGGATCAACAGAATAA

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

141

Amino Acids

15.79

Weight (kDa)

5.35

Isoelectric Point (pI)

43.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIID-18kDa	PF02269	32 - 120	1.1e-31	Transcription initiation factor IID, 18kD subunit

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)
Acc36I	ACCTGC	1 cut(s)	384
AccIII	TCCGGA	1 cut(s)	154
AciI	CCGC	3 cut(s)	277, 301, 379
AclWI	GGATC	3 cut(s)	134, 238, 421
AcoI	YGGCCR	1 cut(s)	63
AfaI	GTAC	1 cut(s)	210
AgsI	TTSAA	1 cut(s)	191
AluBI	AGCT	4 cut(s)	47, 247, 334, 386
AluI	AGCT	4 cut(s)	47, 247, 334, 386
Alw26I	GTCTC	1 cut(s)	353
AlwI	GGATC	3 cut(s)	134, 238, 421
Aor13HI	TCCGGA	1 cut(s)	154
AoxI	GGCC	1 cut(s)	63
ApeKI	GCWGC	2 cut(s)	58, 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	2 cut(s)	70, 124
BcoDI	GTCTC	1 cut(s)	353
BfmI	CTRYAG	1 cut(s)	15
BfuAI	ACCTGC	1 cut(s)	384
BisI	GCNGC	2 cut(s)	59, 113
BlsI	GCNGC	2 cut(s)	60, 114
Bme18I	GGWCC	1 cut(s)	50
BmgT120I	GGNCC	1 cut(s)	50
BmiI	GGNNCC	1 cut(s)	52
BmrI	ACTGGG	1 cut(s)	419
BmuI	ACTGGG	1 cut(s)	419
BpiI	GAAGAC	2 cut(s)	3, 88
BplI	GAGNNNNNCTC	2 cut(s)	151, 183
BsaBI	GATNNNNATC	1 cut(s)	144
BsaWI	WCCGGW	1 cut(s)	154
Bse118I	RCCGGY	1 cut(s)	61
Bse1I	ACTGG	2 cut(s)	232, 414
Bse8I	GATNNNNATC	1 cut(s)	144
BseAI	TCCGGA	1 cut(s)	154
BseGI	GGATG	1 cut(s)	29
BseJI	GATNNNNATC	1 cut(s)	144
BseNI	ACTGG	2 cut(s)	232, 414
BseX3I	CGGCCG	1 cut(s)	63
BseXI	GCAGC	2 cut(s)	70, 124
Bsh1285I	CGRYCG	1 cut(s)	66
BshFI	GGCC	1 cut(s)	65
BsiEI	CGRYCG	1 cut(s)	66
BsiSI	CCGG	2 cut(s)	62, 155
BsmAI	GTCTC	1 cut(s)	353
BsnI	GGCC	1 cut(s)	65
Bsp13I	TCCGGA	1 cut(s)	154
Bsp143I	GATC	3 cut(s)	139, 230, 413
BspACI	CCGC	3 cut(s)	277, 301, 379
BspANI	GGCC	1 cut(s)	65
BspEI	TCCGGA	1 cut(s)	154
BspLI	GGNNCC	1 cut(s)	52
BspMAI	CTGCAG	1 cut(s)	19
BspMI	ACCTGC	1 cut(s)	384
BspPI	GGATC	3 cut(s)	134, 238, 421
BspQI	GCTCTTC	1 cut(s)	324
BsrFI	RCCGGY	1 cut(s)	61
BsrI	ACTGG	2 cut(s)	232, 414
BssAI	RCCGGY	1 cut(s)	61
BssMI	GATC	3 cut(s)	139, 230, 413
Bst6I	CTCTTC	3 cut(s)	156, 324, 363
BstC8I	GCNNGC	3 cut(s)	63, 86, 342
BstF5I	GGATG	1 cut(s)	29
BstHHI	GCGC	1 cut(s)	84
BstKTI	GATC	3 cut(s)	142, 233, 416
BstMAI	GTCTC	1 cut(s)	353
BstMBI	GATC	3 cut(s)	139, 230, 413
BstMCI	CGRYCG	1 cut(s)	66
BstMWI	GCNNNNNNNGC	2 cut(s)	350, 392
BstSFI	CTRYAG	1 cut(s)	15
BstV1I	GCAGC	2 cut(s)	70, 124
BstV2I	GAAGAC	2 cut(s)	3, 88
BstXI	CCANNNNNNTGG	1 cut(s)	227
BstZI	CGGCCG	1 cut(s)	63
BsuRI	GGCC	1 cut(s)	65
BtsCI	GGATG	1 cut(s)	29
BtsIMutI	CAGTG	1 cut(s)	258
BveI	ACCTGC	1 cut(s)	384
Cac8I	GCNNGC	3 cut(s)	63, 86, 342
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	9 cut(s)	47, 61, 65, 167, 218, 247, 334, 353, 386
CviKI_1	RGCY	9 cut(s)	47, 61, 65, 167, 218, 247, 334, 353, 386
CviQI	GTAC	1 cut(s)	209
DpnI	GATC	3 cut(s)	141, 232, 415
DpnII	GATC	3 cut(s)	139, 230, 413
EaeI	YGGCCR	1 cut(s)	63
EagI	CGGCCG	1 cut(s)	63
Eam1104I	CTCTTC	3 cut(s)	156, 324, 363
EarI	CTCTTC	3 cut(s)	156, 324, 363
EclXI	CGGCCG	1 cut(s)	63
Eco47I	GGWCC	1 cut(s)	50
Eco52I	CGGCCG	1 cut(s)	63
FaeI	CATG	2 cut(s)	121, 175
FaiI	YATR	6 cut(s)	119, 126, 173, 182, 213, 323
FalI	AAGNNNNNCTT	2 cut(s)	337, 369
FatI	CATG	2 cut(s)	117, 171
Fnu4HI	GCNGC	2 cut(s)	59, 113
FokI	GGATG	1 cut(s)	16
Fsp4HI	GCNGC	2 cut(s)	59, 113
GlaI	GCGC	1 cut(s)	83
GluI	GCNGC	2 cut(s)	59, 113
HaeIII	GGCC	1 cut(s)	65
HapII	CCGG	2 cut(s)	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
HindIII	AAGCTT	1 cut(s)	384
HinfI	GANTC	2 cut(s)	93, 284
HpaII	CCGG	2 cut(s)	62, 155
Hpy188I	TCNGA	1 cut(s)	134
Hpy188III	TCNNGA	1 cut(s)	155
HpyAV	CCTTC	2 cut(s)	17, 343
HpyCH4V	TGCA	2 cut(s)	17, 112
HpyF10VI	GCNNNNNNNGC	2 cut(s)	350, 392
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	3 cut(s)	139, 230, 413
LguI	GCTCTTC	1 cut(s)	324
LpnPI	CCDG	7 cut(s)	3, 33, 75, 168, 213, 389, 395
Lsp1109I	GCAGC	2 cut(s)	70, 124
MalI	GATC	3 cut(s)	141, 232, 415
MboI	GATC	3 cut(s)	139, 230, 413
MboII	GAAGA	5 cut(s)	3, 88, 143, 341, 380
MluCI	AATT	2 cut(s)	107, 311
MlyI	GAGTC	1 cut(s)	102
MnlI	CCTC	6 cut(s)	43, 64, 159, 169, 250, 385
MroI	TCCGGA	1 cut(s)	154
MroNI	GCCGGC	1 cut(s)	61
MseI	TTAA	2 cut(s)	78, 297
MspA1I	CMGCKG	1 cut(s)	303
MspI	CCGG	2 cut(s)	62, 155
MwoI	GCNNNNNNNGC	2 cut(s)	350, 392
NaeI	GCCGGC	1 cut(s)	63
NdeII	GATC	3 cut(s)	139, 230, 413
NgoMIV	GCCGGC	1 cut(s)	61
NlaIII	CATG	2 cut(s)	121, 175
NlaIV	GGNNCC	1 cut(s)	52
PciSI	GCTCTTC	1 cut(s)	324
PdiI	GCCGGC	1 cut(s)	63
PfeI	GAWTC	1 cut(s)	284
PkrI	GCNGC	2 cut(s)	60, 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
RsaI	GTAC	1 cut(s)	210
RsaNI	GTAC	1 cut(s)	209
SapI	GCTCTTC	1 cut(s)	324
SaqAI	TTAA	2 cut(s)	78, 297
SatI	GCNGC	2 cut(s)	59, 113
Sau3AI	GATC	3 cut(s)	139, 230, 413
Sau96I	GGNCC	1 cut(s)	50
SchI	GAGTC	1 cut(s)	102
SetI	ASST	7 cut(s)	28, 49, 249, 273, 336, 378, 388
SfcI	CTRYAG	1 cut(s)	15
SinI	GGWCC	1 cut(s)	50
Sse9I	AATT	2 cut(s)	107, 311
SsiI	CCGC	3 cut(s)	277, 301, 379
TasI	AATT	2 cut(s)	107, 311
TfiI	GAWTC	1 cut(s)	284
Tru1I	TTAA	2 cut(s)	78, 297
Tru9I	TTAA	2 cut(s)	78, 297
TscAI	CASTG	1 cut(s)	258
TseI	GCWGC	2 cut(s)	58, 112
TspDTI	ATGAA	5 cut(s)	18, 63, 338, 342, 381
TspRI	CASTG	1 cut(s)	258
VpaK11BI	GGWCC	1 cut(s)	50

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