General information for g12535.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g12535 is located on chr_1: 24296913..24298281 (- 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_1 | g12535 | g12535.t3 | isoform | g12535.t3 | 24280326 | 24281840 |
| chr_1 | g12535 | g12535.t3 | exon | g12535.t3.exon1 | 24280326 | 24280963 |
| chr_1 | g12535 | g12535.t3 | exon | g12535.t3.exon2 | 24281023 | 24281179 |
| chr_1 | g12535 | g12535.t3 | cds | g12535.t3.CDS1 | 24281135 | 24281179 |
| chr_1 | g12535 | g12535.t3 | exon | g12535.t3.exon3 | 24281281 | 24281840 |
| chr_1 | g12535 | g12535.t3 | cds | g12535.t3.CDS2 | 24281281 | 24281682 |
| chr_1 | g12535 | g12535.t3 | TSS | g12535.t3 | NA | NA |
| chr_1 | g12535 | g12535.t3 | TTS | g12535.t3 | NA | NA |
Sequences
>g12535.t3 Gene=g12535 Length=1355
AAGTTTTGAATCAATATAGCAAACAGTGTTCACAAACAGATGAGAACACGATTGTTGGCA
TTTGCTCACAGCAACAACGTCATACTACTTTGAATCAAAACTTCACAGTTGATGGTAATG
CAGCAATAACAGTGAAAGAAGAACGTGAAACAATTATTATGACAATGTCAAATGGACCAA
GAAGTGATAGCAGTCGAGATAGTGGTACATCATCACCACAGCCAATAGAGAGCAAATTAG
TGAATGGCAATAGTGGCAGTTCATTAAATACTAAAATGTCAATTCATAATCGTCATGCAG
ATATCGGTAGCACATCATCAACAAAAATTACGGACGATGATTATAATGATATTGATAGTG
ATTCAAATGATTCAGTCTTTAGCACAAGCAGTTCGCTTGAAATTGATGAAGATTCGATGT
TCGAGGTTAAAGATATTTATCTTGGTGGTAGTTGTCTATTGAGAACAAAATGGCGGCAAG
ACATTGCAATTCCATATTTAAAATCTAAAAATATCTCCTACTATCTTCCTACAATTCACG
ATAATCTCACATTGAAAGAAAATTCTCGATTCAAGTCGTGTTTTGCTGTTTGTTATAACA
AATGAAACACGATCACTTGCACCAATGACACTTGCTGCACACTACATAGGGCTGGCCTAT
AATGTAGTTTTGTGCATACAAATGTTGCCCGATAACTGTACTATTGGAAATGATAAGCTA
ACTCCATCAGCAATAAAAGACTATAATCGTGGTCGTACATACTTAAGAGATTTAGCAGAA
CGTCAAAATATTCCTGTATTCGATGAGATTAAACAAGCACTTGATTGTGCGATAGATAAA
GTAAAACTGTCAAAACCTCGATGTTCTGTTTAGATAAATGGAATAACTTATTGCATTTTG
ATCAGCAAATAATAATTATAGCAGTGGACAGAAAGAATTTAGGTTTCTTTAACTTTCTTT
TTTTTTTCTAAAATCAGAATATGTATTTTGCACCTAATTTTTTTAACTTCTTCTATCACA
CATAATGACACATGCAAACACTCTAATCTGTATATATGATAGATTATTTTAACAGAACTT
CTACAATTTTTTTTTAAACATTTCAACCTTAAGAATGAATGATACAATTATAATAGACAA
ATAACTTAAGTCAACAAAAAGTGTAAATTTAGAATTAAGAGCAAAAAAAAGTTTATCGAC
ACATTTTAGTTTACTTAGTGGAATTTTTTGAATTTAAGTCATAAAAAAGTTAATTAACTA
CATACTTATTAAAAAAGTTTTAAAATTTTACCTCAAATATAATGTGTTTTATTTTTAAAT
TTTCAGATTAAAAGATACATAATTTTTAGCTATGT
>g12535.t3 Gene=g12535 Length=148
MTMSNGPRSDSSRDSGTSSPQPIESKLVNGNSGSSLNTKMSIHNRHADIGSTSSTKITDD
DYNDIDSDSNDSVFSTSSSLEIDEDSMFEVKDIYLGGSCLLRTKWRQDIAIPYLKSKNIS
YYLPTIHDNLTLKENSRFKSCFAVCYNK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g12535.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 63 | - |
| 3 | g12535.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 58 | - |
| 1 | g12535.t3 | PANTHER | PTHR36300 | RAW, ISOFORM A | 8 | 134 | 7.7E-15 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
