General information for g8992.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Signal transducer and activator of transcription 5B.
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.t12 | TSS | g8992.t12 | 34412295 | 34412295 |
| chr_2 | g8992 | g8992.t12 | isoform | g8992.t12 | 34413152 | 34415067 |
| chr_2 | g8992 | g8992.t12 | exon | g8992.t12.exon1 | 34413152 | 34413187 |
| chr_2 | g8992 | g8992.t12 | cds | g8992.t12.CDS1 | 34413169 | 34413187 |
| chr_2 | g8992 | g8992.t12 | exon | g8992.t12.exon2 | 34413276 | 34413528 |
| chr_2 | g8992 | g8992.t12 | cds | g8992.t12.CDS2 | 34413276 | 34413528 |
| chr_2 | g8992 | g8992.t12 | exon | g8992.t12.exon3 | 34413833 | 34414660 |
| chr_2 | g8992 | g8992.t12 | cds | g8992.t12.CDS3 | 34413833 | 34414660 |
| chr_2 | g8992 | g8992.t12 | exon | g8992.t12.exon4 | 34414728 | 34415067 |
| chr_2 | g8992 | g8992.t12 | cds | g8992.t12.CDS4 | 34414728 | 34414755 |
| chr_2 | g8992 | g8992.t12 | TTS | g8992.t12 | NA | NA |
Sequences
>g8992.t12 Gene=g8992 Length=1457
ACTTAAATCAATGGCGTATGAATCAAGGATTAGCTGCACCACCGTCAAATGCCAATAATC
TCGACATCATTCAAGGCTGGTGTGAACATCTTGCTGACATTTTATGGAATACACGCGAGC
AAATTAAAATGGTCTCTAAATATCGCAAACAAGTGAATGTTGATGAGCAAAGTTTACCAG
ACTTTTTGCCCGAACTTTTTGCTAAAGTCACTGGTCTACTTGAACATTTGATTACACGTT
CGTTTATCATTGAAAAACAACCACCGCAAGTTATGAAAACAAATACAAGATTCGCATCAA
CAGTTCGTTTATTAATTGGAAATACTTTGAATATTAAAATGAATAGTCCACTAGTAAAGG
TAACAATCGTATCGGAACAACAGGCACAACAAACACAGCAGACAAATAAATGCTCAGAGC
ACACGTGTGGTGAAATCCTAAATAGCACTGGAAATATGGAATATAATGAAACAACAAAGC
AACTGTCAGTCAGTTTTCGTAACATGCAATTGAAGAAAATTAAGAGAGCTGAAAAGAAAG
GTACAGAGAGTGTGATGGATGAGAAGTTTGCATTGCTCTTCCAGTCAAGCTTTGCCATTG
GCCATGGTGATTTGGTATTTAGTGTTTGGGCACTTTCATTGCCTGTTGTTGTTATTGTGC
ATGGCAATCAGGAACCACAGTCATGGGCCACAATCACATGGGATAATGCATTTGCCGAAA
TCAATCGTCAGCCATTCGCAGTGCCCGAAAAAGTGCCATGGAATCGTTTAGCTGAGGCAC
TTAATATGAAATTCCGCGCATCAACTGGTCGCACACTAACACCAGAAAATTTGCATTTTT
TGGCTGAGAAAGCTTTTAAATTACAAGTTCCAATGCCGCCCACAGACGATTATCAAATCA
CTTGGTCACAATTCTGTAAAGAACCTTTGCCAGATCGCACATTCACTTTCTGGGAATGGT
TTTATGCTGCAATGAAATTGACACGTGAACATTTGCGTGGACCTTGGAATGATGGCTCAA
TTGTTGGTTTTATTCACAAACGCACAGCTGAAGATCAATTATTCAAGTGTCAACGCGGAA
CTTTCTTGCTGCGATTCTCTGACAGCGAGTTAGGTAAGAGGCATAACAATTGCTTGGGTA
AATGAAGGCAATGATGGAAATCCATGTGTGCTTCATATTCAGCCCTTCACAGCCAAGGAC
TTTGCAACACGCTCGTTATCAGATCGTATTCGTGATTTTGATGATCTAACAATTTTATAT
CCGAACAAGGCGAAGAATGAAGCTTTCGATAAATATACGACACCATCTGGTCAACCTAAG
AATAAGGATTACATCCCATCTGAAATTCGCGCCATTCTTTCGACATCAAATTCGAGCAAT
CTGTCATACGCCAACACACCGGCATCATTTATGCAGTCACCGGATCCATCACGTGACACG
CCTTCTGTTCAGAGCGG
>g8992.t12 Gene=g8992 Length=375
MNQGLAAPPSNANNLDIIQGWCEHLADILWNTREQIKMVSKYRKQVNVDEQSLPDFLPEL
FAKVTGLLEHLITRSFIIEKQPPQVMKTNTRFASTVRLLIGNTLNIKMNSPLVKVTIVSE
QQAQQTQQTNKCSEHTCGEILNSTGNMEYNETTKQLSVSFRNMQLKKIKRAEKKGTESVM
DEKFALLFQSSFAIGHGDLVFSVWALSLPVVVIVHGNQEPQSWATITWDNAFAEINRQPF
AVPEKVPWNRLAEALNMKFRASTGRTLTPENLHFLAEKAFKLQVPMPPTDDYQITWSQFC
KEPLPDRTFTFWEWFYAAMKLTREHLRGPWNDGSIVGFIHKRTAEDQLFKCQRGTFLLRF
SDSELGKRHNNCLGK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g8992.t12 | Gene3D | G3DSA:1.20.1050.20 | - | 2 | 76 | 0 |
| 8 | g8992.t12 | Gene3D | G3DSA:2.60.40.630 | - | 77 | 215 | 0 |
| 10 | g8992.t12 | Gene3D | G3DSA:1.10.238.10 | - | 216 | 334 | 0 |
| 11 | g8992.t12 | Gene3D | G3DSA:3.30.505.10 | SHC Adaptor Protein | 335 | 371 | 0 |
| 3 | g8992.t12 | PANTHER | PTHR11801 | SIGNAL TRANSDUCER AND ACTIVATOR OF TRANSCRIPTION | 4 | 366 | 0 |
| 4 | g8992.t12 | PANTHER | PTHR11801:SF47 | SIGNAL TRANSDUCER AND ACTIVATOR OF TRANSCRIPTION 5A | 4 | 366 | 0 |
| 1 | g8992.t12 | Pfam | PF01017 | STAT protein, all-alpha domain | 9 | 68 | 0 |
| 2 | g8992.t12 | Pfam | PF02864 | STAT protein, DNA binding domain | 80 | 213 | 0 |
| 5 | g8992.t12 | SUPERFAMILY | SSF47655 | STAT | 12 | 76 | 0 |
| 7 | g8992.t12 | SUPERFAMILY | SSF49417 | p53-like transcription factors | 71 | 325 | 0 |
| 6 | g8992.t12 | SUPERFAMILY | SSF55550 | SH2 domain | 326 | 366 | 0 |
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:0003677 | DNA binding | MF |
| GO:0007165 | signal transduction | BP |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0060397 | growth hormone receptor signaling pathway via JAK-STAT | 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.
