General information for g12001.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g12001 is located on chr_1: 20282853..20286592 (+ 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 | g12001 | g12001.t2 | TSS | g12001.t2 | 20280976 | 20280976 |
| chr_1 | g12001 | g12001.t2 | isoform | g12001.t2 | 20280987 | 20283585 |
| chr_1 | g12001 | g12001.t2 | exon | g12001.t2.exon1 | 20280987 | 20281058 |
| chr_1 | g12001 | g12001.t2 | cds | g12001.t2.CDS1 | 20280992 | 20281058 |
| chr_1 | g12001 | g12001.t2 | exon | g12001.t2.exon2 | 20281145 | 20281235 |
| chr_1 | g12001 | g12001.t2 | cds | g12001.t2.CDS2 | 20281145 | 20281235 |
| chr_1 | g12001 | g12001.t2 | exon | g12001.t2.exon3 | 20281670 | 20281857 |
| chr_1 | g12001 | g12001.t2 | cds | g12001.t2.CDS3 | 20281670 | 20281841 |
| chr_1 | g12001 | g12001.t2 | exon | g12001.t2.exon4 | 20282680 | 20282785 |
| chr_1 | g12001 | g12001.t2 | exon | g12001.t2.exon5 | 20282851 | 20283585 |
| chr_1 | g12001 | g12001.t2 | TTS | g12001.t2 | 20283580 | 20283580 |
Sequences
>g12001.t2 Gene=g12001 Length=1192
GAACTATGACAAAGACTAGTTCGGAAGTGCATCAGCAGGGAGATAGAATTATTAAAACGA
CTACTACAGAAGTTATTACAAAATCATCAACAATGCAACCACAAAAAAAGGTATCACCAT
TCGAGAAATTCCGTCAACTTGATCGTCAAAATTCCCTTCCAAATTCACCATCACCTCGAA
CACCAACAACACCCACTACTCCCGGAGGTTCTAAGAAAAATGGTCCACTTTTTTCCTTCA
CTGATCCAGCACTCGCTAAGCGAGCATCCACCGTCAAAGAACAATTATTACAATGGGCGC
AGATGAAGACGAAAGAATATGAGGTAGAGAATTGAATCGACAAAAAGTTTTCATTTGCCG
CTCTTATACACCACTTTTTACCCGATGCATTTGATTATAGCAAATTAACACCTAAAGATA
GAAGACATAATTTTACTTTGGCATTCCGGATTGCAGACCGGTATTTGTCCTTTGCTTGAT
GTTGACGATATGGTTATGTATAAAAAGCCAGATTGGAAATGTGTGTTTTGCTACGTCCAG
TCAATATATCGAAGATTTAAAGATGAAATATAAAAGCAAAGGAAGAATATTAAGCATCAA
AAAGGCTTTTTAAATGGAAAATTTCTTCTTATTCATCACATTGATTTTAAGATAAAAAAA
AGTTTTTATGACAATAGTCTTTATGTTGAAATTTAAATTTGAGCAAGTCAAATGTATCAT
AATTTTTGTTGATTTATTCAATTTTATTTTCTTTTAAATTGTGATGTATAGAACGTGTAT
TAATTTTGTAAATTTTAATTCATCTGACTTAATTTTTGATGATTTTTTCTCCTTTCTTTT
TTACATTTTTGTCAATCTGTGGTTGTTGATTTTCTTTGAATGAAAAAATAATTTTTTATT
TTAAAAGAAGATAATTTTGTTTGCAAACATAAAACTCTCAAAATGGTGCAGGTTTATTGT
ACTAACTTTTCTATAACTATTTTTTTAATAAAACACTCATAACAGCAATGCTGTAATCAA
AAAATTATGTGAAACTAATCATTAGAGTTAATTAAAATATTTTTTGTAACTTGATAATCA
TGAAACCATTATGAAATTGTTGGAAAAAAAACTAAAACTATGAAACAAAAAAGCAATACA
ATTGTAAAAACTTTTTACTGATGACAATAAAAATATTTTATTGAATCAAATT
>g12001.t2 Gene=g12001 Length=109
MTKTSSEVHQQGDRIIKTTTTEVITKSSTMQPQKKVSPFEKFRQLDRQNSLPNSPSPRTP
TTPTTPGGSKKNGPLFSFTDPALAKRASTVKEQLLQWAQMKTKEYEVEN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g12001.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 78 | - |
| g12001.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 35 | - |
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. There were no conditions that were differentially expressed