General information for g1876.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g1876 is located on chr_3: 13596110..13607402 (+ 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_3 | g1876 | g1876.t2 | isoform | g1876.t2 | 13595714 | 13597043 |
| chr_3 | g1876 | g1876.t2 | exon | g1876.t2.exon1 | 13595714 | 13597043 |
| chr_3 | g1876 | g1876.t2 | cds | g1876.t2.CDS1 | 13596110 | 13597042 |
| chr_3 | g1876 | g1876.t2 | TSS | g1876.t2 | NA | NA |
| chr_3 | g1876 | g1876.t2 | TTS | g1876.t2 | NA | NA |
Sequences
>g1876.t2 Gene=g1876 Length=1330
TAACTTTGTCTTCATTAAATGAAATCTATAGCGTGTAAGAAAGAGAGAAATAATGTTTCA
TTACACTCCTGTTTTCTCATTCAGACACACATATTGAAGTTTCTTTGTACTCAACAGAAG
TCAAAGTGTGTTCCTCGTTTTGGGCATACACTTCAGACTTATTTTAGCTTTCGGTGTAAC
ACGTTCGTAATTTTCGTGTGTTCCAAAAAAACTATAAGAAAAAAGGGAAAAAATTATCAT
AATTTCGTCGCGAGTGCGATTGTTAATGAAAAAAATGATTGAAAATTAGAATAATCAAAG
AAAATTAAATTGTGGCAAAATAAAAAAAAAAATAAATTTTTTGATAAAGAATTTTAAAGG
ATTGAAAAATTATTTTAGTGACAATTTGTTTCAAATATGATGGACATTAGTATGTATGGA
AATCATCATGCTAATCATTCGAGTGGATTTCAAAATCCTGATATAGGTACAGGTGGATAT
TCATATTTTTCATCATCTGGCCATCATCATCACCATCACATACAAAATCATCAAAGTCAA
GCGTATGCAAATGCAAGTGGATTGCAACAGACGAGTGGCAATGGCAGCAATGGATCAAAT
CACTTTTATTCATCTGCTATTGCAACTCATCCGCATCTGTACAGTCCAACTGCTATAGAA
TATGGAATTCATACCTCATCATCTAACAATTCACCCGATCAATATTATGATGCTCAAAGT
AATGAAGGTTACTATGTGACTACCAATGGCACTGCAACAAATAATAATAATAACAGCTCT
AGCAATAATAACAATACTAGCAGCTCACCTGAGACTCACATCATTAGCTCAGATAATGGC
TTAAGCTATACAAATTTGGACTATATCGCTTATCAGCAAGCTGCAGCAGCTCATCATAAT
CAAACACAGGGATATAATATTTCAATTCAGGGAGGTGACGATAAATTGGCCATAACGCAT
CATTATAATGAAGAATTGCTGCTAAACAGCCACCAGCATCATCAACATGCCACTCATCAT
CATAATCATAATGCGACAACAGCTAACCCATGGCATCATCCAAATACAAGCAATCATAAT
TTTATGGAAGCCAATGTTGGTCTGGTAAATCAGATGCAAGCAATAAGCAGCAACAATTTG
ACACCGCAATCACAAATTCAAATTCAGCATGCCATGCACTCGCCAAACAGTATTCAATCG
TCATCATCACCCACGCTGCAAAGTCAACAACAGCAATCACAGGATTCACAAAATCAACAA
CAGCAGCAAGCTCAAAATGTACCGACCTATAAATGGATGCAAGTGAAACGAAATGTGCCA
AAACCACAAA
>g1876.t2 Gene=g1876 Length=311
MMDISMYGNHHANHSSGFQNPDIGTGGYSYFSSSGHHHHHHIQNHQSQAYANASGLQQTS
GNGSNGSNHFYSSAIATHPHLYSPTAIEYGIHTSSSNNSPDQYYDAQSNEGYYVTTNGTA
TNNNNNSSSNNNNTSSSPETHIISSDNGLSYTNLDYIAYQQAAAAHHNQTQGYNISIQGG
DDKLAITHHYNEELLLNSHQHHQHATHHHNHNATTANPWHHPNTSNHNFMEANVGLVNQM
QAISSNNLTPQSQIQIQHAMHSPNSIQSSSSPTLQSQQQQSQDSQNQQQQQAQNVPTYKW
MQVKRNVPKPQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g1876.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 121 | 140 | - |
| g1876.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 255 | 311 | - |
| g1876.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 255 | 300 | - |
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