General information for g4998.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Stress-activated map kinase-interacting protein 1.
Parent gene
- The parent gene g4998 is located on chr_2: 6378623..6380047 (+ 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 | g4998 | g4998.t3 | TSS | g4998.t3 | 6378365 | 6378365 |
| chr_2 | g4998 | g4998.t3 | isoform | g4998.t3 | 6378623 | 6379545 |
| chr_2 | g4998 | g4998.t3 | exon | g4998.t3.exon1 | 6378623 | 6379545 |
| chr_2 | g4998 | g4998.t3 | cds | g4998.t3.CDS1 | 6378638 | 6379543 |
| chr_2 | g4998 | g4998.t3 | TTS | g4998.t3 | 6380496 | 6380496 |
Sequences
>g4998.t3 Gene=g4998 Length=923
ATAAGTGAGCTAGTGATGAGTTCTGATAATTTAGCGAAAAATTTAGCCAATTCTTATGCG
AATGCATCGACATCCGGAAGTAGTTCGATGCCGACAAATGATGAAATTTCATTTTATGTC
TATCCAGATTTGATAAACAATAATGATGAAGATGAAGAAGACCTCTTGAGTAATTCATTT
GATATAAACTTCACTCAAGAGTTTGCATTTCGATTTAGAACAAATACAGCAGCAAAATTG
GAAAAAATTAGTGAAATGAAAAAAAAACAGAGTCAAATTAAAGTTGTAAAAATTGACGAT
ACAGTGATCAAGTTAAATCAAGAAGCTGGGGATGATAGTGAATTGTTTGTGAGAAAAGAT
TTAAGTAAAATATCGCTGCAATCAGATACAGTAAAATCGAAGCTAACGCAACAACTTGAA
ACTTTGCCTAAAATTAAACTGAATAAATATCGTGAATATTCAGTTTTTGATGGCTCCTCA
TACCCAAACAACGAATCTAAGACAATTAAAGTGTTTATTACACCCATAAAAGATTTAAGA
GACTATCCCCTTAAATGTTGCGTCCATTCAACAGCTAAAATAGAAGAATTTATCGGTTAT
ATTTTATTTAAATGTACAAATTTAAATCCCGAATATGCAGATCAGCTTGAGGAAGTTAAA
AATTATGGCCTCTTCATAAGTGATGAAACAGGTGAGCCGGATTTAGATTTTCCGGCGTTA
GATTTAAAAGAACAAGTCTCAAAGTATCAGTTTAATATTTTGGCGCTATCGAAAAGAATC
ATACCACCATATTTTCAAAATCGTACACTTTCAGTTAATTCAGATACAACCACAACAATC
ATCAATAATCTGCCAGTAAATCGTCAAGCGTCTATCGAGACAAATCGCTCAATTGCATCA
GCGCACATTCGTCAAAACGAACT
>g4998.t3 Gene=g4998 Length=302
MSSDNLAKNLANSYANASTSGSSSMPTNDEISFYVYPDLINNNDEDEEDLLSNSFDINFT
QEFAFRFRTNTAAKLEKISEMKKKQSQIKVVKIDDTVIKLNQEAGDDSELFVRKDLSKIS
LQSDTVKSKLTQQLETLPKIKLNKYREYSVFDGSSYPNNESKTIKVFITPIKDLRDYPLK
CCVHSTAKIEEFIGYILFKCTNLNPEYADQLEEVKNYGLFISDETGEPDLDFPALDLKEQ
VSKYQFNILALSKRIIPPYFQNRTLSVNSDTTTTIINNLPVNRQASIETNRSIASAHIRQ
NE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g4998.t3 | PANTHER | PTHR13335 | TARGET OF RAPAMYCIN COMPLEX 2 SUBUNIT MAPKAP1 | 44 | 284 | 0 |
| 2 | g4998.t3 | Pfam | PF05422 | Stress-activated map kinase interacting protein 1 (SIN1) | 9 | 116 | 0 |
| 1 | g4998.t3 | Pfam | PF16978 | SAPK-interacting protein 1 (Sin1), middle CRIM domain | 127 | 253 | 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:0031932 | TORC2 complex | CC |
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.
