Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0017155

Physical Location & Seq

Genomic Coordinates Forward (+)

24709212 .. 24709586

Gene Structure 375 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG209200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 375 bp

ATGACAAGCGGTGTCGTCTACCTGAATGTTATCCAGGATGTGATCAACAAGGTCAGACAAGAGTTCATAGATGGCCCCGGAGAAAAACTACTCATGCAGCTTCAAGCAACTTGGGAGGCCAAGATGATGCAAGCCGGTGTTGTTGGTACGCCTGCTGTGGATCTCAATGTACCAGTGTTCCCCCCATTACCGTTACACGTTCCAGTTCAACCACAACCGCCTCTACCGGAAACTGGAGACAACTTGTTAAATACTATTCCTCCCGGAGCACCATACATGCAACCTCCTTATCCTGGGATTACCTCTCAAACATATCAGACCGCTGGTGACGGGTTTATACCCAAGCAAGTGGAGCCGGAGAGGTCTTCAAGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0000976 GO:0000977 GO:0000979 GO:0001012 GO:0001046 GO:0001047 GO:0001067 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005672 GO:0006139 GO:0006351 GO:0006352 GO:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016591 GO:0017025 GO:0018130 GO:0019438 GO:0022607 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043565 GO:0043933 GO:0044085 GO:0044212 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0046483 GO:0051123 GO:0055029 GO:0061695 GO:0065003 GO:0065004 GO:0070013 GO:0070897 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090575 GO:0097159 GO:0097659 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902494 GO:1990234 GO:1990837

KEGG Pathways

Metabolic & Signaling

ko03022 ko05203 map03022 map05203

Pfam Domains

Protein Families

TFIIA

Protein Analysis

124

Amino Acids

13.43

Weight (kDa)

4.53

Isoelectric Point (pI)

54.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIIA	PF03153	6 - 69	2.9e-10	Transcription factor IIA, alpha/beta subunit

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0017155)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G59230
fragaria_vesca	FvH4_3g17941
rosa_chinensis	RchiOBHm_Chr5g0029921 RchiOBHm_Chr5g0029991 RchiOBHm_Chr5g0030001
rosa_laevigata	RLG00000033202
rosa_multiflora	Rmu_co8060810.1_g000001 Rmu_sc0003368.1_g000023
rosa_samantha	Rh5AG209200 Rh5BG207900 Rh5CG231300 Rh5DG212100
rosa_wichuraiana	Rw5G019020

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	18
AciI	CCGC	3 cut(s)	9, 218, 321
AclWI	GGATC	1 cut(s)	168
AfaI	GTAC	2 cut(s)	148, 171
AfiI	CCNNNNNNNGG	2 cut(s)	233, 293
AflIII	ACRYGT	1 cut(s)	196
AgsI	TTSAA	3 cut(s)	104, 209, 369
AjnI	CCWGG	2 cut(s)	33, 292
AluBI	AGCT	1 cut(s)	100
AluI	AGCT	1 cut(s)	100
Alw21I	GWGCWC	1 cut(s)	271
Alw26I	GTCTC	1 cut(s)	231
AlwI	GGATC	1 cut(s)	168
AoxI	GGCC	2 cut(s)	73, 117
ApeKI	GCWGC	1 cut(s)	97
AspS9I	GGNCC	1 cut(s)	74
AsuC2I	CCSGG	2 cut(s)	78, 264
AsuHPI	GGTGA	1 cut(s)	338
BbsI	GAAGAC	1 cut(s)	357
Bbv12I	GWGCWC	1 cut(s)	271
BbvI	GCAGC	1 cut(s)	109
BccI	CCATC	1 cut(s)	65
BciT130I	CCWGG	2 cut(s)	35, 294
BclI	TGATCA	1 cut(s)	42
BcnI	CCSGG	2 cut(s)	78, 264
BcoDI	GTCTC	1 cut(s)	231
BisI	GCNGC	1 cut(s)	98
BlsI	GCNGC	1 cut(s)	99
Bme1390I	CCNGG	4 cut(s)	35, 78, 264, 294
BmgT120I	GGNCC	1 cut(s)	74
BmiI	GGNNCC	2 cut(s)	76, 354
BmrFI	CCNGG	4 cut(s)	35, 78, 264, 294
BmsI	GCATC	1 cut(s)	117
BpiI	GAAGAC	1 cut(s)	357
BpmI	CTGGAG	1 cut(s)	255
BpuMI	CCSGG	2 cut(s)	78, 264
BsaJI	CCNNGG	2 cut(s)	76, 293
BsaWI	WCCGGW	1 cut(s)	226
BsaXI	ACNNNNNCTCC	2 cut(s)	244, 274
Bsc4I	CCNNNNNNNGG	2 cut(s)	233, 293
Bse118I	RCCGGY	1 cut(s)	134
Bse1I	ACTGG	3 cut(s)	173, 203, 238
BseBI	CCWGG	2 cut(s)	35, 294
BseDI	CCNNGG	2 cut(s)	76, 293
BseGI	GGATG	1 cut(s)	43
BseLI	CCNNNNNNNGG	2 cut(s)	233, 293
BseNI	ACTGG	3 cut(s)	173, 203, 238
BseXI	GCAGC	1 cut(s)	109
BshFI	GGCC	2 cut(s)	75, 119
BsiHKAI	GWGCWC	1 cut(s)	271
BsiSI	CCGG	5 cut(s)	78, 135, 227, 264, 356
BslI	CCNNNNNNNGG	2 cut(s)	233, 293
BsmAI	GTCTC	1 cut(s)	231
BsnI	GGCC	2 cut(s)	75, 119
Bsp1286I	GDGCHC	1 cut(s)	271
Bsp143I	GATC	2 cut(s)	42, 160
BspACI	CCGC	3 cut(s)	9, 218, 321
BspANI	GGCC	2 cut(s)	75, 119
BspLI	GGNNCC	2 cut(s)	76, 354
BspPI	GGATC	1 cut(s)	168
BsrFI	RCCGGY	1 cut(s)	134
BsrI	ACTGG	3 cut(s)	173, 203, 238
BssAI	RCCGGY	1 cut(s)	134
BssECI	CCNNGG	2 cut(s)	76, 293
BssMI	GATC	2 cut(s)	42, 160
Bst2UI	CCWGG	2 cut(s)	35, 294
Bst4CI	ACNGT	1 cut(s)	192
BstC8I	GCNNGC	2 cut(s)	132, 153
BstF5I	GGATG	1 cut(s)	43
BstKTI	GATC	2 cut(s)	45, 163
BstMAI	GTCTC	1 cut(s)	231
BstMBI	GATC	2 cut(s)	42, 160
BstMWI	GCNNNNNNNGC	1 cut(s)	352
BstNI	CCWGG	2 cut(s)	35, 294
BstNSI	RCATGY	1 cut(s)	280
BstSCI	CCNGG	4 cut(s)	33, 76, 262, 292
BstV1I	GCAGC	1 cut(s)	109
BstV2I	GAAGAC	1 cut(s)	357
BstX2I	RGATCY	1 cut(s)	160
BstXI	CCANNNNNNTGG	1 cut(s)	349
BstYI	RGATCY	1 cut(s)	160
BsuRI	GGCC	2 cut(s)	75, 119
BtsCI	GGATG	1 cut(s)	43
BtsIMutI	CAGTG	1 cut(s)	180
Cac8I	GCNNGC	2 cut(s)	132, 153
Cfr10I	RCCGGY	1 cut(s)	134
Cfr13I	GGNCC	1 cut(s)	74
Csp6I	GTAC	2 cut(s)	147, 170
CviAII	CATG	2 cut(s)	94, 277
CviJI	RGCY	5 cut(s)	75, 100, 119, 134, 355
CviKI_1	RGCY	5 cut(s)	75, 100, 119, 134, 355
CviQI	GTAC	2 cut(s)	147, 170
DpnI	GATC	2 cut(s)	44, 162
DpnII	GATC	2 cut(s)	42, 160
EcoRII	CCWGG	2 cut(s)	33, 292
FaeI	CATG	2 cut(s)	97, 280
FaiI	YATR	6 cut(s)	68, 95, 274, 278, 313, 338
FatI	CATG	2 cut(s)	93, 276
FbaI	TGATCA	1 cut(s)	42
FblI	GTMKAC	1 cut(s)	18
Fnu4HI	GCNGC	1 cut(s)	98
FokI	GGATG	1 cut(s)	50
Fsp4HI	GCNGC	1 cut(s)	98
GluI	GCNGC	1 cut(s)	98
GsuI	CTGGAG	1 cut(s)	255
HaeIII	GGCC	2 cut(s)	75, 119
HapII	CCGG	5 cut(s)	78, 135, 227, 264, 356
Hin1II	CATG	2 cut(s)	97, 280
HpaII	CCGG	5 cut(s)	78, 135, 227, 264, 356
HphI	GGTGA	1 cut(s)	338
Hpy166II	GTNNAC	1 cut(s)	19
Hpy188I	TCNGA	2 cut(s)	56, 318
Hpy8I	GTNNAC	1 cut(s)	19
HpyCH4III	ACNGT	1 cut(s)	192
HpyCH4IV	ACGT	1 cut(s)	198
HpyCH4V	TGCA	3 cut(s)	97, 130, 280
HpyF10VI	GCNNNNNNNGC	1 cut(s)	352
HpySE526I	ACGT	1 cut(s)	198
Hsp92II	CATG	2 cut(s)	97, 280
Ksp22I	TGATCA	1 cut(s)	42
Kzo9I	GATC	2 cut(s)	42, 160
LmnI	GCTCC	2 cut(s)	266, 352
Lsp1109I	GCAGC	1 cut(s)	109
LweI	GCATC	1 cut(s)	117
MaeII	ACGT	1 cut(s)	198
MaeIII	GTNAC	2 cut(s)	192, 326
MalI	GATC	2 cut(s)	44, 162
MboI	GATC	2 cut(s)	42, 160
MboII	GAAGA	1 cut(s)	357
MflI	RGATCY	1 cut(s)	160
MhlI	GDGCHC	1 cut(s)	271
MnlI	CCTC	6 cut(s)	109, 231, 270, 294, 313, 354
MseI	TTAA	1 cut(s)	248
MspA1I	CMGCKG	1 cut(s)	323
MspI	CCGG	5 cut(s)	78, 135, 227, 264, 356
MspR9I	CCNGG	4 cut(s)	35, 78, 264, 294
MvaI	CCWGG	2 cut(s)	35, 294
MwoI	GCNNNNNNNGC	1 cut(s)	352
NciI	CCSGG	2 cut(s)	78, 264
NdeII	GATC	2 cut(s)	42, 160
NlaIII	CATG	2 cut(s)	97, 280
NlaIV	GGNNCC	2 cut(s)	76, 354
NmuCI	GTSAC	1 cut(s)	326
NspI	RCATGY	1 cut(s)	280
PfoI	TCCNGGA	2 cut(s)	33, 262
PkrI	GCNGC	1 cut(s)	99
Psp6I	CCWGG	2 cut(s)	33, 292
PspGI	CCWGG	2 cut(s)	33, 292
PspN4I	GGNNCC	2 cut(s)	76, 354
PspPI	GGNCC	1 cut(s)	74
PsuI	RGATCY	1 cut(s)	160
RsaI	GTAC	2 cut(s)	148, 171
RsaNI	GTAC	2 cut(s)	147, 170
SaqAI	TTAA	1 cut(s)	248
SatI	GCNGC	1 cut(s)	98
Sau3AI	GATC	2 cut(s)	42, 160
Sau96I	GGNCC	1 cut(s)	74
ScrFI	CCNGG	4 cut(s)	35, 78, 264, 294
SduI	GDGCHC	1 cut(s)	271
SetI	ASST	7 cut(s)	24, 54, 102, 201, 286, 305, 365
SfaNI	GCATC	1 cut(s)	117
SsiI	CCGC	3 cut(s)	9, 218, 321
StyD4I	CCNGG	4 cut(s)	33, 76, 262, 292
TaaI	ACNGT	1 cut(s)	192
TaiI	ACGT	1 cut(s)	201
Tru1I	TTAA	1 cut(s)	248
Tru9I	TTAA	1 cut(s)	248
TscAI	CASTG	1 cut(s)	180
TseFI	GTSAC	1 cut(s)	326
TseI	GCWGC	1 cut(s)	97
Tsp45I	GTSAC	1 cut(s)	326
TspDTI	ATGAA	1 cut(s)	55
TspRI	CASTG	1 cut(s)	180
XceI	RCATGY	1 cut(s)	280
XmiI	GTMKAC	1 cut(s)	18

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