AT1G12400

Transcription factor TFIIH complex subunit Tfb5

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0016634
Physical Location & Seq
Forward (+)
4221779 .. 4222875
1097 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G12400.3

Sequence Viewer

Length: 216 bp
ATGGTTAATGCAATCAAAGGAGTGTTCGTCTCTTGCGATATTCCGATGACACAATTCATAGTGAACATGAACAATTCGATGCCTCCGTCTCAGAAATTCATAATTCATGTACTTGATAGTACTCACTTGTTCGTGCAACCACATGTAGAGCAGATGATCCGCAGCGCCATTTCTGATTTTAGAGATCAAAACTCTTACGAGAAGCCCACTTCTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03022 ko03420 map03022 map03420
Pfam Domains
Protein Families
Tfb5

Protein Analysis

71

Amino Acids

8.11

Weight (kDa)

6.23

Isoelectric Point (pI)

36.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Tfb5 PF06331 15 - 74 2e-20 Transcription factor TFIIH complex subunit Tfb5
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0016634)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G12400 AT1G12400
malus_domestica MD04G1245800.v1.1 MD12G1192500.v1.1
prunus_persica Prupe.5G081100_v2.0.a1
pyrus_communis pycom04g21670 pycom06g06390
rosa_chinensis RchiOBHm_Chr7g0201071
rosa_multiflora Rmu_sc0010648.1_g000001
rosa_roxburghii Rroxscaffold_3G00255540
rosa_samantha Rh7AG187700 Rh7BG191200 Rh7DG193400
rosa_wichuraiana Rw7G016480

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 160
AclWI GGATC 1 cut(s) 151
AcsI RAATTY 1 cut(s) 95
AfaI GTAC 2 cut(s) 111, 121
AflIII ACRYGT 1 cut(s) 142
Alw26I GTCTC 2 cut(s) 34, 93
AlwI GGATC 1 cut(s) 151
ApeKI GCWGC 1 cut(s) 162
ApoI RAATTY 1 cut(s) 95
AspLEI GCGC 1 cut(s) 167
BbvI GCAGC 1 cut(s) 174
BcoDI GTCTC 2 cut(s) 34, 93
BfoI RGCGCY 1 cut(s) 168
BisI GCNGC 1 cut(s) 163
BlsI GCNGC 1 cut(s) 164
BmcAI AGTACT 1 cut(s) 121
BmsI GCATC 1 cut(s) 69
BsaXI ACNNNNNCTCC 2 cut(s) 12, 42
BseMII CTCAG 1 cut(s) 104
BseXI GCAGC 1 cut(s) 174
BsmAI GTCTC 2 cut(s) 34, 93
BsmBI CGTCTC 2 cut(s) 34, 93
Bsp143I GATC 2 cut(s) 156, 184
BspACI CCGC 1 cut(s) 160
BspCNI CTCAG 1 cut(s) 103
BspPI GGATC 1 cut(s) 151
BssMI GATC 2 cut(s) 156, 184
BstDEI CTNAG 2 cut(s) 90, 213
BstH2I RGCGCY 1 cut(s) 168
BstHHI GCGC 1 cut(s) 167
BstKTI GATC 2 cut(s) 159, 187
BstMAI GTCTC 2 cut(s) 34, 93
BstMBI GATC 2 cut(s) 156, 184
BstNSI RCATGY 1 cut(s) 146
BstV1I GCAGC 1 cut(s) 174
CfoI GCGC 1 cut(s) 167
Csp6I GTAC 2 cut(s) 110, 120
CviAII CATG 3 cut(s) 67, 107, 143
CviJI RGCY 1 cut(s) 205
CviKI_1 RGCY 1 cut(s) 205
CviQI GTAC 2 cut(s) 110, 120
DdeI CTNAG 2 cut(s) 90, 213
DpnI GATC 2 cut(s) 158, 186
DpnII GATC 2 cut(s) 156, 184
Esp3I CGTCTC 2 cut(s) 34, 93
FaeI CATG 3 cut(s) 70, 110, 146
FaiI YATR 5 cut(s) 59, 68, 101, 108, 144
FatI CATG 3 cut(s) 66, 106, 142
Fnu4HI GCNGC 1 cut(s) 163
Fsp4HI GCNGC 1 cut(s) 163
FspEI CC 7 cut(s) 3, 57, 96, 99, 153, 173, 181
GlaI GCGC 1 cut(s) 166
GluI GCNGC 1 cut(s) 163
HaeII RGCGCY 1 cut(s) 168
HhaI GCGC 1 cut(s) 167
Hin1II CATG 3 cut(s) 70, 110, 146
Hin6I GCGC 1 cut(s) 165
HinP1I GCGC 1 cut(s) 165
Hpy166II GTNNAC 1 cut(s) 64
Hpy188I TCNGA 3 cut(s) 45, 93, 175
Hpy8I GTNNAC 1 cut(s) 64
HpyCH4V TGCA 2 cut(s) 11, 136
HpyF3I CTNAG 2 cut(s) 90, 213
Hsp92II CATG 3 cut(s) 70, 110, 146
HspAI GCGC 1 cut(s) 165
Kzo9I GATC 2 cut(s) 156, 184
Lsp1109I GCAGC 1 cut(s) 174
LweI GCATC 1 cut(s) 69
MalI GATC 2 cut(s) 158, 186
MboI GATC 2 cut(s) 156, 184
MluCI AATT 4 cut(s) 53, 73, 95, 102
MnlI CCTC 1 cut(s) 93
MseI TTAA 1 cut(s) 6
NdeII GATC 2 cut(s) 156, 184
NlaIII CATG 3 cut(s) 70, 110, 146
NspI RCATGY 1 cut(s) 146
PciI ACATGT 1 cut(s) 142
PcsI WCGNNNNNNNCGW 2 cut(s) 33, 83
PkrI GCNGC 1 cut(s) 164
PscI ACATGT 1 cut(s) 142
RsaI GTAC 2 cut(s) 111, 121
RsaNI GTAC 2 cut(s) 110, 120
SaqAI TTAA 1 cut(s) 6
SatI GCNGC 1 cut(s) 163
Sau3AI GATC 2 cut(s) 156, 184
ScaI AGTACT 1 cut(s) 121
SfaNI GCATC 1 cut(s) 69
SgeI CNNG 8 cut(s) 45, 79, 119, 125, 139, 145, 155, 211
Sse9I AATT 4 cut(s) 53, 73, 95, 102
SsiI CCGC 1 cut(s) 160
TaqI TCGA 1 cut(s) 77
TasI AATT 4 cut(s) 53, 73, 95, 102
TatI WGTACW 2 cut(s) 109, 119
Tru1I TTAA 1 cut(s) 6
Tru9I TTAA 1 cut(s) 6
TseI GCWGC 1 cut(s) 162
TspDTI ATGAA 4 cut(s) 46, 83, 88, 95
TspGWI ACGGA 1 cut(s) 75
XapI RAATTY 1 cut(s) 95
XceI RCATGY 1 cut(s) 146
ZrmI AGTACT 1 cut(s) 121
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.