General information for g8992.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Signal transducer and activator of transcription 5A.
Parent gene
- The parent gene g8992 is located on chr_2: 34418374..34420073 (+ 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 | g8992 | g8992.t2 | isoform | g8992.t2 | 34410907 | 34413196 |
| chr_2 | g8992 | g8992.t2 | exon | g8992.t2.exon1 | 34410907 | 34411368 |
| chr_2 | g8992 | g8992.t2 | exon | g8992.t2.exon2 | 34412296 | 34412439 |
| chr_2 | g8992 | g8992.t2 | cds | g8992.t2.CDS1 | 34412312 | 34412439 |
| chr_2 | g8992 | g8992.t2 | exon | g8992.t2.exon3 | 34412556 | 34413196 |
| chr_2 | g8992 | g8992.t2 | cds | g8992.t2.CDS2 | 34412556 | 34413195 |
| chr_2 | g8992 | g8992.t2 | TSS | g8992.t2 | NA | NA |
| chr_2 | g8992 | g8992.t2 | TTS | g8992.t2 | NA | NA |
Sequences
>g8992.t2 Gene=g8992 Length=1247
TTGGAGACTCTTTTCCTTATGTTTTATTGTTTTTTCATTCAAGTAAAAATGTATACTTTT
CAAGAGTATACTTACAATTTAAATTCTTCGAAATTGTTAAAAAAATTTAAATTTTTTGAT
GACTCATGACAATGAAAATGTTAAAATTTTACATTGACAACTTTTGAAAATTATCAAACT
AAAGAAATAAAAATTTTTAAAATTTAAATTTTATTAAAAATTCTTTTTAAAAACTTTAAA
ATTCCTAAAAATATAAAAAAAACTTTCTCATCTTCGAAAAAAAAGTTTCGTAATTCAGAT
CCATTAAAAAATTACCAATAATCGACCACTCCAAGCGAGTTGTTTAATTCTTGGAATTCA
AAAAAAGTTAGATCAAAAGCAAACGAGAAAACAAAAATTATTAGTATAATTTTGACATTT
AGCAAGTGAATTAGTCATAAACAAGTGCATTTGGTAGAAAAGAAAGTGATATATAATAAT
GGCTTTGTGGAACAAGTTGCTGCAATCGCGGCCTGAAGTGATGGAGCAAATTCGTGTATC
CTATGGAAACCATTTCCCCATGGAAGTTCGTCATTACCTATGCGATTGGCTTGAATCGAG
ACTACTTTCCGGTCCAATGGTTTTAGATCATGATCCACAGTTGGAAATTGAATCTGCACG
CTTTCTTAATGAACTACTTATTGAACTTGAAAGAAAAGCTAACGAAATGAGTTCAGATGA
GCTAATTACCGCGAAATTACGTTTATTAGAATCAGCGAAAAATTTCCGTCAATTATTTTC
ACACAATCCGAGTCAGCTGTATTCACATCTTCGTAATTGTCTGATGTTTGAAAAAAATAT
GCTCTGTTATCCTGAGGAATGTGGTGTTACACAAAACAGTGAGTTTACGCAAATTTTTCA
AGCCCTTGAGGAACTTGTTTCACGTATTCGCGCCAATGAGAATGAAAATCGTAATTTGAA
GAAGCGTTATGAGATTTTCTGCTGTGAACTGCATGAAGTTACCAAAAACAATGCACAATA
TGATATACTTGATACTCAAAATCCTGAACATCGTGAAAGAATTGCACAATTGAGACGTGA
ATCACAAGAGAAATTGCAATTGTCATTAAATCAACTGACTGGAATGCGATTGAATCTTGT
TGATAAATTTAAGGCAACAATCGAGCTTAGTGAGACTGTACAACAGAAAGTTATCGACAA
GTACTTAAATCAATGGCGTATGAATCAAGGATTAGCTGGTAATGGAG
>g8992.t2 Gene=g8992 Length=256
MALWNKLLQSRPEVMEQIRVSYGNHFPMEVRHYLCDWLESRLLSGPMVLDHDPQLEIESA
RFLNELLIELERKANEMSSDELITAKLRLLESAKNFRQLFSHNPSQLYSHLRNCLMFEKN
MLCYPEECGVTQNSEFTQIFQALEELVSRIRANENENRNLKKRYEIFCCELHEVTKNNAQ
YDILDTQNPEHRERIAQLRRESQEKLQLSLNQLTGMRLNLVDKFKATIELSETVQQKVID
KYLNQWRMNQGLAGNG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g8992.t2 | Coils | Coil | Coil | 60 | 80 | - |
| 12 | g8992.t2 | Coils | Coil | Coil | 143 | 163 | - |
| 10 | g8992.t2 | Coils | Coil | Coil | 181 | 201 | - |
| 8 | g8992.t2 | Gene3D | G3DSA:1.10.532.10 | Transcription Factor | 1 | 130 | 2.4E-33 |
| 9 | g8992.t2 | Gene3D | G3DSA:1.20.1050.20 | - | 131 | 256 | 1.1E-23 |
| 3 | g8992.t2 | PANTHER | PTHR11801 | SIGNAL TRANSDUCER AND ACTIVATOR OF TRANSCRIPTION | 1 | 256 | 8.3E-23 |
| 4 | g8992.t2 | PANTHER | PTHR11801:SF39 | SIGNAL TRANSDUCER AND ACTIVATOR OF TRANSCRIPTION 5B | 1 | 256 | 8.3E-23 |
| 1 | g8992.t2 | Pfam | PF02865 | STAT protein, protein interaction domain | 2 | 123 | 1.3E-28 |
| 2 | g8992.t2 | Pfam | PF01017 | STAT protein, all-alpha domain | 138 | 256 | 2.7E-19 |
| 7 | g8992.t2 | SMART | SM00964 | STAT_int_2 | 2 | 128 | 3.5E-28 |
| 6 | g8992.t2 | SUPERFAMILY | SSF48092 | Transcription factor STAT-4 N-domain | 1 | 125 | 1.01E-24 |
| 5 | g8992.t2 | SUPERFAMILY | SSF47655 | STAT | 134 | 256 | 1.69E-18 |
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:0042025 | host cell nucleus | CC |
| GO:0007165 | signal transduction | BP |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0003700 | DNA-binding transcription factor activity | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
