General information for g4502.t40
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g4502 is located on chr_2: 2920023..2924003 (- 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 | g4502 | g4502.t40 | TTS | g4502.t40 | 2919771 | 2919771 |
| chr_2 | g4502 | g4502.t40 | isoform | g4502.t40 | 2920023 | 2923778 |
| chr_2 | g4502 | g4502.t40 | exon | g4502.t40.exon1 | 2920023 | 2920275 |
| chr_2 | g4502 | g4502.t40 | exon | g4502.t40.exon2 | 2920402 | 2920611 |
| chr_2 | g4502 | g4502.t40 | exon | g4502.t40.exon3 | 2920677 | 2920774 |
| chr_2 | g4502 | g4502.t40 | exon | g4502.t40.exon4 | 2920915 | 2921007 |
| chr_2 | g4502 | g4502.t40 | exon | g4502.t40.exon5 | 2922916 | 2922997 |
| chr_2 | g4502 | g4502.t40 | exon | g4502.t40.exon6 | 2923128 | 2923308 |
| chr_2 | g4502 | g4502.t40 | cds | g4502.t40.CDS1 | 2923305 | 2923308 |
| chr_2 | g4502 | g4502.t40 | exon | g4502.t40.exon7 | 2923366 | 2923597 |
| chr_2 | g4502 | g4502.t40 | cds | g4502.t40.CDS2 | 2923366 | 2923597 |
| chr_2 | g4502 | g4502.t40 | exon | g4502.t40.exon8 | 2923663 | 2923778 |
| chr_2 | g4502 | g4502.t40 | cds | g4502.t40.CDS3 | 2923663 | 2923768 |
| chr_2 | g4502 | g4502.t40 | TSS | g4502.t40 | NA | NA |
Sequences
>g4502.t40 Gene=g4502 Length=1265
TTAATCTTCCATGCTCTCGTTGCGATCAGGAGAACGGTTGTTGTTTACTGATCCTGAACG
TGATCTCGATCTTGAACGAGACTTGTCATTTTTGTCCTCAGAGCGTGAGCGGTCACGAGA
ACGCGATTTTCCCTTATCAGAGGCGTTGCTTTCACTTCTATTTCTGTCACGATTTGATCG
CTTGCTGTCACTACGAGCTGAATCTCGACTGCGAGAACGTGATTTCTCAGAATATCGTGA
ATTTGAGCGACTCTTCTTCTTCTCTACAGGTGATTTCGAACGACTTCCACGAGACTTTGA
ACGGCTCTCATCTCTTGATCTACGCGAGCTGCGTCTTGAGCGGGAACTGTGAACGACGAC
GTGATCGGCTTCTAGAGCGGCTTGATGATGATGATCTTGCACCTCCACGACCTCTTCCAT
TACGACGAGTGTCTTCAACTAAACGAATGCGACGTCCATTGAGTTCTGTATCATCCAACT
TCTCAATAGCAGTTTTCATGTCTTTTGCTGATGCAAATTCAACAACTCTTATATGATACA
TTCGAATTATTTTTACAACTTACCAGCATAAGTGACTTCACCAGCTTGACGCATATAATC
CTTGAGATCCTGCCAACTAACGCGTGATGACAAATTCTCAACAATTAAACGATATTCTGT
TCGCAATGGTGGCCCATATCGCGAGCTATTTCTGGAACTATTATCGACCTCCTCCGCCTC
TTCTGCCATATCTGTCATCATATCTATCTCTATGACTCCCACGTGCTGTTCCACGAGCTG
GCTCAACTACAACTCTAAAAAACAATTCTTTCCCATTCAACTCATAAACAGCATCATCTG
CATCTCGATAGTCTTCAAATTCAACGAAGCCATAACCATTTTTAATCAAAATATCTCTTG
TTCTTCCATAACCTTTGAAAAACTTTTCCAAATCTCGCTCGCGTGTTCCATATGGCAAGC
CTCCGACGTATACTCTTGATCCAACCATTGTTATACGACTTGTTTATTTGCTGTCTATTT
AATGACTATATTAATGAATGCAACTATTTTTTAAGAGCAATTTTCACTTTTCACTGCCTA
ATTACTGATTTTAAAATATTTCAACAACGATATAGCGTGCTGACCACTGCTCTTGAAATA
TCAATTTTCGAAAAAAAAGTTTCAAGCCCCACTAAAACTTTTTCGAAGTTTGTCGAAAAT
AACAAAAACAAAAAAGGTAAAACTTTTTTAAAAACTCTTTTTAGGTGTTAATTAAATCCC
AATTA
>g4502.t40 Gene=g4502 Length=113
MLSLRSGERLLFTDPERDLDLERDLSFLSSERERSRERDFPLSEALLSLLFLSRFDRLLS
LRAESRLRERDFSEYREFERLFFFSTGDFERLPRDFERLSSLDLRELRLEREL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g4502.t40 | Coils | Coil | Coil | 104 | 113 | - |
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