General information for g13362.t20
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13362 is located on chr_1: 29520833..29521109 (+ 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 | g13362 | g13362.t20 | TSS | g13362.t20 | 29516185 | 29516185 |
| chr_1 | g13362 | g13362.t20 | isoform | g13362.t20 | 29517093 | 29518642 |
| chr_1 | g13362 | g13362.t20 | exon | g13362.t20.exon1 | 29517093 | 29517375 |
| chr_1 | g13362 | g13362.t20 | cds | g13362.t20.CDS1 | 29517107 | 29517375 |
| chr_1 | g13362 | g13362.t20 | exon | g13362.t20.exon2 | 29517891 | 29518352 |
| chr_1 | g13362 | g13362.t20 | cds | g13362.t20.CDS2 | 29517891 | 29518352 |
| chr_1 | g13362 | g13362.t20 | exon | g13362.t20.exon3 | 29518532 | 29518642 |
| chr_1 | g13362 | g13362.t20 | cds | g13362.t20.CDS3 | 29518532 | 29518640 |
| chr_1 | g13362 | g13362.t20 | TTS | g13362.t20 | NA | NA |
Sequences
>g13362.t20 Gene=g13362 Length=856
AAGTGGACAAAGTGATGACGAACATTTATCATGAAAAATATTTTTTCTTATACATCATTG
TCTTTATAATATGCATTATCAATCAATGTACAAGCATTAGTGATTTAAATCATTCAAATT
ATAAAAATGAAAATAAAAATTTCACACATCATCAGCAAAAAGACAATTTTCTTATCATTG
ATCATCTCAATGATAACGAACGAGAGACGAGACTAAAATGGAAAAATCTCATGGGAAAGG
AAACGACACTTGATATGGACAACAATGAAAGATTTGTTAACAGTTCTTTGAAATTAACGT
CTCTATGGCAACTGACAGATGGCAAAGATTTTGCACAACTCATTTTTAATGGTAATAGTC
TCATCGATTGTGAAAATATTGATAATGGAAATGATATCATTGGTGATTTCGTGAGTAAAT
TCATTGAAGAATATCAATTTATCCGTCATGAGAAATTAAGTAGTACAAAACATGCAAAGA
AGCATCATCAATACCAACAGAATGCGAATCTTAATGAAGAAGTACTTAAAATGAAGTCAA
ATGTAAAGTTTATTCAACTGAAAAAATTACAAGATATTCCCGAGCATTTACTCAGGCTCA
TGAATTTGAAAAAATTGAAAAAACAATGCAATCGTTTGCATAAAAAAATAAAACAAAAAT
TGCAACAACAACATCATCATCATACGGTCGATGAAGAAGAAGATGAAGAAGATTTTAATG
CCAAAAATGAAAATATGATACACAGAACAAAACGTCAAACTGACTCATGGTTTTTGGCAC
CAAATTCGAAATGGTGTGGTAGTGGAAGTAGTGCTAATGGTTATAAAGAACTGGGTCCTT
CAAAAGCTGACACATG
>g13362.t20 Gene=g13362 Length=280
MTNIYHEKYFFLYIIVFIICIINQCTSISDLNHSNYKNENKNFTHHQQKDNFLIIDHLND
NERETRLKWKNLMGKETTLDMDNNERFVNSSLKLTSLWQLTDGKDFAQLIFNGNSLIDCE
NIDNGNDIIGDFVSKFIEEYQFIRHEKLSSTKHAKKHHQYQQNANLNEEVLKMKSNVKFI
QLKKLQDIPEHLLRLMNLKKLKKQCNRLHKKIKQKLQQQHHHHTVDEEEDEEDFNAKNEN
MIHRTKRQTDSWFLAPNSKWCGSGSSANGYKELGPSKADT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g13362.t20 | Coils | Coil | Coil | 163 | 183 | - |
| 3 | g13362.t20 | Coils | Coil | Coil | 195 | 218 | - |
| 2 | g13362.t20 | MobiDBLite | mobidb-lite | consensus disorder prediction | 214 | 234 | - |
| 5 | g13362.t20 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 8 | - |
| 7 | g13362.t20 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 9 | 29 | - |
| 6 | g13362.t20 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 30 | 280 | - |
| 1 | g13362.t20 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 9 | 28 | - |
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.
