General information for g12535.t2
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.t2 | isoform | g12535.t2 | 24280326 | 24281840 |
| chr_1 | g12535 | g12535.t2 | exon | g12535.t2.exon1 | 24280326 | 24280963 |
| chr_1 | g12535 | g12535.t2 | cds | g12535.t2.CDS1 | 24280808 | 24280963 |
| chr_1 | g12535 | g12535.t2 | exon | g12535.t2.exon2 | 24281023 | 24281840 |
| chr_1 | g12535 | g12535.t2 | cds | g12535.t2.CDS2 | 24281023 | 24281682 |
| chr_1 | g12535 | g12535.t2 | TSS | g12535.t2 | NA | NA |
| chr_1 | g12535 | g12535.t2 | TTS | g12535.t2 | NA | NA |
Sequences
>g12535.t2 Gene=g12535 Length=1456
AAGTTTTGAATCAATATAGCAAACAGTGTTCACAAACAGATGAGAACACGATTGTTGGCA
TTTGCTCACAGCAACAACGTCATACTACTTTGAATCAAAACTTCACAGTTGATGGTAATG
CAGCAATAACAGTGAAAGAAGAACGTGAAACAATTATTATGACAATGTCAAATGGACCAA
GAAGTGATAGCAGTCGAGATAGTGGTACATCATCACCACAGCCAATAGAGAGCAAATTAG
TGAATGGCAATAGTGGCAGTTCATTAAATACTAAAATGTCAATTCATAATCGTCATGCAG
ATATCGGTAGCACATCATCAACAAAAATTACGGACGATGATTATAATGATATTGATAGTG
ATTCAAATGATTCAGTCTTTAGCACAAGCAGTTCGCTTGAAATTGATGAAGATTCGATGT
TCGAGGTTAAAGATATTTATCTTGGTGGTAGTTGTCTATTGAGAACAAAATGGCGGCAAG
ACATTGCAATTCCATATTTAAAATCTAAAAATATCTCCTACTATCTTCCTACAATTCACG
ATAATCTCACATTGAAAGAAACAAAAAAAGCTAGAAAGTTTAATAGAGATAAAAATGAAA
GTGGTGGAGGCTATAGTTTGGAAGAGACTGTAAATGGAGATGATTTGATGTTTAATCCGA
GAATTCTCGATTCAAGTCGTGTTTTGCTGTTTGTTATAACAAATGAAACACGATCACTTG
CACCAATGACACTTGCTGCACACTACATAGGGCTGGCCTATAATGTAGTTTTGTGCATAC
AAATGTTGCCCGATAACTGTACTATTGGAAATGATAAGCTAACTCCATCAGCAATAAAAG
ACTATAATCGTGGTCGTACATACTTAAGAGATTTAGCAGAACGTCAAAATATTCCTGTAT
TCGATGAGATTAAACAAGCACTTGATTGTGCGATAGATAAAGTAAAACTGTCAAAACCTC
GATGTTCTGTTTAGATAAATGGAATAACTTATTGCATTTTGATCAGCAAATAATAATTAT
AGCAGTGGACAGAAAGAATTTAGGTTTCTTTAACTTTCTTTTTTTTTTCTAAAATCAGAA
TATGTATTTTGCACCTAATTTTTTTAACTTCTTCTATCACACATAATGACACATGCAAAC
ACTCTAATCTGTATATATGATAGATTATTTTAACAGAACTTCTACAATTTTTTTTTAAAC
ATTTCAACCTTAAGAATGAATGATACAATTATAATAGACAAATAACTTAAGTCAACAAAA
AGTGTAAATTTAGAATTAAGAGCAAAAAAAAGTTTATCGACACATTTTAGTTTACTTAGT
GGAATTTTTTGAATTTAAGTCATAAAAAAGTTAATTAACTACATACTTATTAAAAAAGTT
TTAAAATTTTACCTCAAATATAATGTGTTTTATTTTTAAATTTTCAGATTAAAAGATACA
TAATTTTTAGCTATGT
>g12535.t2 Gene=g12535 Length=271
MTMSNGPRSDSSRDSGTSSPQPIESKLVNGNSGSSLNTKMSIHNRHADIGSTSSTKITDD
DYNDIDSDSNDSVFSTSSSLEIDEDSMFEVKDIYLGGSCLLRTKWRQDIAIPYLKSKNIS
YYLPTIHDNLTLKETKKARKFNRDKNESGGGYSLEETVNGDDLMFNPRILDSSRVLLFVI
TNETRSLAPMTLAAHYIGLAYNVVLCIQMLPDNCTIGNDKLTPSAIKDYNRGRTYLRDLA
ERQNIPVFDEIKQALDCAIDKVKLSKPRCSV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g12535.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 47 | - |
| 1 | g12535.t2 | PANTHER | PTHR36300 | RAW, ISOFORM A | 10 | 263 | 2.9E-66 |
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.
