General information for g6490.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Transcription initiation factor TFIID subunit 3.
Parent gene
- The parent gene g6490 is located on chr_2: 17247233..17248926 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_2 | g6490 | g6490.t5 | isoform | g6490.t5 | 17247233 | 17248926 |
| chr_2 | g6490 | g6490.t5 | exon | g6490.t5.exon1 | 17247233 | 17248705 |
| chr_2 | g6490 | g6490.t5 | cds | g6490.t5.CDS1 | 17247234 | 17248705 |
| chr_2 | g6490 | g6490.t5 | TTS | g6490.t5 | 17248093 | 17248093 |
| chr_2 | g6490 | g6490.t5 | exon | g6490.t5.exon2 | 17248764 | 17248926 |
| chr_2 | g6490 | g6490.t5 | cds | g6490.t5.CDS2 | 17248764 | 17248926 |
| chr_2 | g6490 | g6490.t5 | TSS | g6490.t5 | 17249160 | 17249160 |
Sequences
>g6490.t5 Gene=g6490 Length=1636
ATGGAAACATACACACATCAAGTTTTAAGAGTGGTTGTAGCTCAAATATGTCAAACAATT
GGATGGCAGAGTGTTACAGCAACTTCATTAGAAATTTTGATTGACATCCTCGACCGATAT
ATTCGAGAAATTTGCAAAACTACTAAAGATTATGCAGAACACTATAATCGAACAGAAGGA
AATCTTGATGATTTAGAATTGGTATTTAGAGACATGGGCATTAATATGAATGAGATTATC
GAGTATATAACTTATGTGGATCCAATTTTACCTGCTGTTAATATTCCAAAATATCCAATT
CCTAAAGAATCACATTTCAATTTTCTAAAACCAGGAAGTAAAGAAATATTGACAAGACCA
GTGCATATCCATGAACATTTGCCACCACTCAATCCTGTCGAAGAAGAACCAATAATTGTG
AATGGTGAAAAAGAAATTGATGTAGTTGGTTTGCCTAATGATGATGTCTTCAAGAGACCA
GCTGACACAAGTAGTGAAGGAAATGCTGTAAAAAAAATAAAATTAGAGGAAGAAGGACGA
GCAACGAGAGAAATTTCATCTGTTATGATGACTACTTCAGGGTTTATTTCTCCTGCACGT
GAAGGAAAAGCTCCAGAATCAAGGCCTCCAAAATTACCAGATGAATTTCCTAAAACAATC
ACGACAACGCCACATATTTCGCCTGTTCCAGGATTTAAGACTAAAGATTCACAAAATTCT
ATACCGGGTATAATTGATAAGAAACTTGAGAAAAAATTAAAGAAAAAGAGTCACGATAAA
GAAAAGAAAAAGGATAAGCAACACAAAGAAAAATATACATTGCCAGATCCAATGGAATTG
TCTCAATATGATCCACTTCCACCACCACAACAGCAACAATCTATGATATCTCATTTGCCT
CCTGCACCAATGAGTGAAGAAATGCTAATGGCTGAACGCAAGAAAGAATTAAAGAAATTA
AAAATGCAGAAAAAAGAGGAAGCAAAGAAGAAGAAAGAAAAAACTCAAAAGTTAACAATG
AAAAGTCAATCAATCGATCCAGGATTTTTGGATACTAAACCACCTTTTGATCCATTTCAT
CATGTTATCACACCTTCTACTTTGCCACAACCTCTACCAACAAGCAGCAGTCAAGTTCAA
GCTCACAGTTATTTGACTGGAGCAGCTCATTCAAACATTTTCTCGAGCTCTATACTTGAT
CAAGCATTTGGTTCACAAGCACCCTCATTGATGTCTGCTCAAAATCCTTTGATTGAAGGA
AAATTAGTTTCTGAACCAGACAAACAAAAACTCAACATTTTCAAAAAGATTTCTAAACCG
AAAGAAGATTCAATAAAACAACAACCACTTGATTTTATGACACCCTCAAAATTAGATCGA
TTTGATCCAAATCAACCATCTACTTCGGGAGAACCGCCATTTGATCCTCTTAAGAAAATT
CATAAATTACCAAAAGAAACAACACTAACAAGAGTTGATGACAGTAATGTACCAATGAAT
CTTTCTGGTAATTTATCAAGAAGTAATGAATCATCATTTGAAGAGATTACAAATATTCCT
AAAACACCCACTATTGCTCCTAAAACACCTGATTTCAAACTAACACAGAGCATAGAGAAA
AAAGAAAAGAAGGAAC
>g6490.t5 Gene=g6490 Length=545
METYTHQVLRVVVAQICQTIGWQSVTATSLEILIDILDRYIREICKTTKDYAEHYNRTEG
NLDDLELVFRDMGINMNEIIEYITYVDPILPAVNIPKYPIPKESHFNFLKPGSKEILTRP
VHIHEHLPPLNPVEEEPIIVNGEKEIDVVGLPNDDVFKRPADTSSEGNAVKKIKLEEEGR
ATREISSVMMTTSGFISPAREGKAPESRPPKLPDEFPKTITTTPHISPVPGFKTKDSQNS
IPGIIDKKLEKKLKKKSHDKEKKKDKQHKEKYTLPDPMELSQYDPLPPPQQQQSMISHLP
PAPMSEEMLMAERKKELKKLKMQKKEEAKKKKEKTQKLTMKSQSIDPGFLDTKPPFDPFH
HVITPSTLPQPLPTSSSQVQAHSYLTGAAHSNIFSSSILDQAFGSQAPSLMSAQNPLIEG
KLVSEPDKQKLNIFKKISKPKEDSIKQQPLDFMTPSKLDRFDPNQPSTSGEPPFDPLKKI
HKLPKETTLTRVDDSNVPMNLSGNLSRSNESSFEEITNIPKTPTIAPKTPDFKLTQSIEK
KEKKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g6490.t5 | Coils | Coil | Coil | 310 | 338 | - |
| 12 | g6490.t5 | Gene3D | G3DSA:1.10.20.10 | Histone | 1 | 86 | 1.5E-25 |
| 6 | g6490.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 190 | 280 | - |
| 11 | g6490.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 220 | 241 | - |
| 7 | g6490.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 321 | 350 | - |
| 8 | g6490.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 321 | 339 | - |
| 5 | g6490.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 459 | 479 | - |
| 9 | g6490.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 494 | 545 | - |
| 10 | g6490.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 494 | 524 | - |
| 2 | g6490.t5 | PANTHER | PTHR46452 | TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 3 | 1 | 541 | 8.6E-60 |
| 1 | g6490.t5 | Pfam | PF07524 | Bromodomain associated | 4 | 78 | 3.7E-21 |
| 4 | g6490.t5 | SMART | SM00576 | 17neu3 | 2 | 78 | 5.8E-25 |
| 3 | g6490.t5 | SUPERFAMILY | SSF47113 | Histone-fold | 12 | 74 | 3.18E-5 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0046982 | protein heterodimerization activity | MF |
KEGG
Orthology
- This transcript has been annotated with K14650 (transcription initiation factor TFIID subunit 3)
Pathway
- This transcript belongs to the following pathways
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
