General information for g4936.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g4936 is located on chr_2: 6093839..6095477 (- 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_2 | g4936 | g4936.t9 | isoform | g4936.t9 | 6093820 | 6095477 |
| chr_2 | g4936 | g4936.t9 | exon | g4936.t9.exon1 | 6093820 | 6094424 |
| chr_2 | g4936 | g4936.t9 | cds | g4936.t9.CDS1 | 6093822 | 6094424 |
| chr_2 | g4936 | g4936.t9 | TTS | g4936.t9 | 6093823 | 6093823 |
| chr_2 | g4936 | g4936.t9 | exon | g4936.t9.exon2 | 6094514 | 6094755 |
| chr_2 | g4936 | g4936.t9 | cds | g4936.t9.CDS2 | 6094514 | 6094753 |
| chr_2 | g4936 | g4936.t9 | exon | g4936.t9.exon3 | 6095332 | 6095477 |
| chr_2 | g4936 | g4936.t9 | TSS | g4936.t9 | 6095568 | 6095568 |
Sequences
>g4936.t9 Gene=g4936 Length=993
ATGAATCAAAAATTCTTTATGTAAATAAAGGTGTAATCGCAGTGAAACACACATTGATGA
GTTAAATAACGAGTGTTAATCAATTGACAGCAACTAAAAATAAATTTATTATAAAATCGA
AAAAGAAATATTTTATATATTGGTGAATATGCAATCGAATTACTTTCAACGATCACAGAG
CAAAGTCTGGTTTGGCTCGCAACAACATAGCGTTTACGATAATTTTTATTCGCTGCCAAA
TTATTATGGTACAAAAAATACACTACAATCAATCACAGAACAAGAAGAATCTTTTTCTTC
ACCTAAAAATGAAAATGATGAACGCAAAAGAAGTTTTTTAATATGGGGTAATCGTCATAG
TCCATCTAGTCAAAGTCATAAAAGTCAGGATTCGGGTTTCTCAGATACAGAAAATTCGCC
ACAAAATGCAGAAGCAGTAGCAAAAAATCAAAGTATTGTTTCCGAGAGCCAATCAAATCA
GAGTTCACCATCTGCTAGTAGTAGAATTGCAACCCCTCCGACTGTAATAAGACGACCGAA
TAAATCAGATCAGAATCATATATATGAGGAAATATCGTCTGCACGCCGCATTTCGTTCAG
TGCACCATCATCGCCATTGAATAATAATAATAGCAGTAACAGTGAGACCGAAAATATCAA
CAATGAGTTGAAATCGCAGATCGACGGTATCAATTTCAACACGACATCACCGATGAATGC
CAATGACTCGGCAAGGTCTTCGTGCCGCTCATGCAAAATCAAAAGAAGTCGAGTGATAAC
TAAGCATGAGCAGAGTTCACGCAGCAAACAAAATCTTTCATTGGATAGCAATAATAATGA
CAGCTTCACAGAGTCTTATAATAATGAGACAGTATATTTTGGTTGTGGTAGTGATAGTGT
AATAATGGAAGAAAAGTCATTGCTTTTAAACTCCCCTAGTCATAAACATATAAATATGGG
ACGGATTTTCCCAACTGAAACATCAACCCCAAA
>g4936.t9 Gene=g4936 Length=281
MQSNYFQRSQSKVWFGSQQHSVYDNFYSLPNYYGTKNTLQSITEQEESFSSPKNENDERK
RSFLIWGNRHSPSSQSHKSQDSGFSDTENSPQNAEAVAKNQSIVSESQSNQSSPSASSRI
ATPPTVIRRPNKSDQNHIYEEISSARRISFSAPSSPLNNNNSSNSETENINNELKSQIDG
INFNTTSPMNANDSARSSCRSCKIKRSRVITKHEQSSRSKQNLSLDSNNNDSFTESYNNE
TVYFGCGSDSVIMEEKSLLLNSPSHKHINMGRIFPTETSTP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g4936.t9 | MobiDBLite | mobidb-lite | consensus disorder prediction | 67 | 136 | - |
| g4936.t9 | MobiDBLite | mobidb-lite | consensus disorder prediction | 67 | 132 | - |
| g4936.t9 | MobiDBLite | mobidb-lite | consensus disorder prediction | 206 | 227 | - |
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.
