General information for g6212.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative IST1-like protein.
Parent gene
- The parent gene g6212 is located on chr_2: 15279886..15281284 (- 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 | g6212 | g6212.t2 | TTS | g6212.t2 | 15272312 | 15272312 |
| chr_2 | g6212 | g6212.t2 | isoform | g6212.t2 | 15272541 | 15280755 |
| chr_2 | g6212 | g6212.t2 | exon | g6212.t2.exon1 | 15272541 | 15272743 |
| chr_2 | g6212 | g6212.t2 | cds | g6212.t2.CDS1 | 15272742 | 15272743 |
| chr_2 | g6212 | g6212.t2 | exon | g6212.t2.exon2 | 15279922 | 15280755 |
| chr_2 | g6212 | g6212.t2 | cds | g6212.t2.CDS2 | 15279922 | 15280552 |
| chr_2 | g6212 | g6212.t2 | TSS | g6212.t2 | 15280963 | 15280963 |
Sequences
>g6212.t2 Gene=g6212 Length=1037
GGTAAGATTTAACTTAATAATTGGATTTAATGATACAAATTACATCAATTACTACAGATT
TTATTGAGATAAACAAACCAGATAGAGCAAGGATTCGAGTTGAAAGTATAATAAGGGAAG
ACGTAAGTTTCTAATCTTTCATATTAATTATGACTCATCAACACATAAATAAATTTTCTC
ATTTTTAGTACCTTGTAGAAGCAATGGAGATTTTAGAAATGTTTTGCGATTTAATTCTTG
CAAGATTTGGATTGATAACGCAGTTAAAAGAACTTGATGAGGGAATTTCGGAAGCAGTTG
CAAGCATAATTTGGGTTGCACCTCGACTCATTTCTGATGTTCCTGAACTTAAAATCATTT
CTGATCAGTTAACTTTGAAGTATGGCAAGGCTTATGCAGATGCATGTAGAGCTGCAGTTC
CACCATCAAATGTTTCAGAGAAATTGCAGCATAAAATGTCGATTCAGGCTCCACCAAAAT
TATTGGTTGAAAAGTATCTAATTGAGATTGCAAAAATCTTCAATATCGATTATGAGCCTG
ATCAGAGTATAATGAAAGAAGATACAAGACCAGAAGGCTTTTTGATTGATTTTGGAAACA
GTAACAATTTGGATGGCAACAATCCAGGAAATTTCCCACCGCAACCAGGTTTTTCGGGAT
ATCCTTTGCCTCCACAACTTCCAATTTTGCCCGGTCCTCCACCATTTAATTATCCAGCTC
CATCAAACTCATTCACAGGACCAAGTGCTCCTTTTAACTATAATATACCACCTATGCCTC
AATCGCAAATGCCACCACAATTACCACAACAACCAAATGCATCACATGGACAATAGCACT
CACGAAGATTTTAAAACATGAAACTTATATTCAGTGACACTTTATCTTTTCGCAGATTAG
TTTTTCTTACTTCTTTGTGCCTTATATTGACTGTTTTATTCACAAATTATAAATTCAAGC
TCTTTAAATTGTATAATTTTTTAAATTTAAATTTTTTGCTTAAAAATTAAGAATTTTTAG
TTTGTTTACATTTTTAA
>g6212.t2 Gene=g6212 Length=210
MEILEMFCDLILARFGLITQLKELDEGISEAVASIIWVAPRLISDVPELKIISDQLTLKY
GKAYADACRAAVPPSNVSEKLQHKMSIQAPPKLLVEKYLIEIAKIFNIDYEPDQSIMKED
TRPEGFLIDFGNSNNLDGNNPGNFPPQPGFSGYPLPPQLPILPGPPPFNYPAPSNSFTGP
SAPFNYNIPPMPQSQMPPQLPQQPNASHGQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g6212.t2 | Gene3D | G3DSA:1.20.1260.60 | - | 1 | 122 | 2.7E-38 |
| 5 | g6212.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 162 | 210 | - |
| 4 | g6212.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 185 | 199 | - |
| 2 | g6212.t2 | PANTHER | PTHR12161:SF56 | IST1 HOMOLOG | 1 | 190 | 2.8E-46 |
| 3 | g6212.t2 | PANTHER | PTHR12161 | IST1 FAMILY MEMBER | 1 | 190 | 2.8E-46 |
| 1 | g6212.t2 | Pfam | PF03398 | Regulator of Vps4 activity in the MVB pathway | 1 | 109 | 3.4E-34 |
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:0015031 | protein transport | BP |
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.
