General information for g16383.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16383 is located on chr_4: 9294914..9298248 (+ 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_4 | g16383 | g16383.t4 | isoform | g16383.t4 | 9294914 | 9296596 |
| chr_4 | g16383 | g16383.t4 | exon | g16383.t4.exon1 | 9294914 | 9295669 |
| chr_4 | g16383 | g16383.t4 | cds | g16383.t4.CDS1 | 9295060 | 9295669 |
| chr_4 | g16383 | g16383.t4 | exon | g16383.t4.exon2 | 9296441 | 9296596 |
| chr_4 | g16383 | g16383.t4 | cds | g16383.t4.CDS2 | 9296441 | 9296595 |
| chr_4 | g16383 | g16383.t4 | TSS | g16383.t4 | NA | NA |
| chr_4 | g16383 | g16383.t4 | TTS | g16383.t4 | NA | NA |
Sequences
>g16383.t4 Gene=g16383 Length=912
AGTTGATTAAAGAGAAAAATGAAAATATTGAAAAAATTACTCAAGAAATAGCAAATCTTG
AAAATCAAATTTCTACATTTGAAGAAGTTGAAGTTAAAATTGAAACAGTTGAAAAGAAGT
TGAAAGAACTCAACGAAAGTAAAGAAATGGAAAAAATGAAGGCAAATCAAGAAAGTTTGC
AAAATGAAATTTCAAATTTGGAAAATGCTCAAGCTGAACTTGATAAAATTATTGAATTTT
TACTTTCTATTTCTCACTTAACTGCTGAACTTGATTCAAAGCAAAAAGAAATAAATCAGA
ATATGAAAGAATTTGAAAACTTAAAAAGTGAATCTGAAACAATTTTTGCTGTTCTGTTTC
CTAATACGAAAATTGAGACAAAATTTCATCAACAAATACAAGAAAAACAAAAAGAATTGA
AAAATTTCATTAATGAAATGGAAGCAAAAATTAAAGTAAAACAAAACGAAAATGATCGCT
TTAAATTCGAATGTGACAGTTTACAAAAAACTGAAGAAAATCTTGAAAATGATATTAAAA
AAATTGAAGAAAACATTCGAAACTTATGCGGCGAAGAAGATTTTTCAGACGTTTTTGAAG
CTCAAAAGGAAAAAGTAGACAAAATGAAAATGGAACTAGCTCTCTTGGAATCTTCGAAAA
ATTACAACAATAATTATATTGAGAAAATTAATAAAACTCCATGCTGCCCTTTATGTTGCA
AAAAATTTGAAAATGAAGAAGCAGAAAAAATGATCATCAAATTAAGAGAAAGCAACAACC
AACTGCCAGAAAAGATTGCAACTGTTCAAAGCAATTTAAAAGTTGAAACATTAAAATATG
ATAAATTGAATGAAATCAACCCTTCTTATAAAAATCTTCAAGAATTTAAAAATAAAACTG
AAATAATAAAAG
>g16383.t4 Gene=g16383 Length=255
MEKMKANQESLQNEISNLENAQAELDKIIEFLLSISHLTAELDSKQKEINQNMKEFENLK
SESETIFAVLFPNTKIETKFHQQIQEKQKELKNFINEMEAKIKVKQNENDRFKFECDSLQ
KTEENLENDIKKIEENIRNLCGEEDFSDVFEAQKEKVDKMKMELALLESSKNYNNNYIEK
INKTPCCPLCCKKFENEEAEKMIIKLRESNNQLPEKIATVQSNLKVETLKYDKLNEINPS
YKNLQEFKNKTEIIK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g16383.t4 | Coils | Coil | Coil | 1 | 28 | - |
| 5 | g16383.t4 | Coils | Coil | Coil | 35 | 62 | - |
| 7 | g16383.t4 | Coils | Coil | Coil | 81 | 143 | - |
| 6 | g16383.t4 | Coils | Coil | Coil | 150 | 170 | - |
| 4 | g16383.t4 | Coils | Coil | Coil | 192 | 212 | - |
| 2 | g16383.t4 | PANTHER | PTHR18867 | RAD50 | 2 | 253 | 1.5E-12 |
| 1 | g16383.t4 | Pfam | PF04423 | Rad50 zinc hook motif | 171 | 217 | 1.8E-6 |
| 9 | g16383.t4 | ProSiteProfiles | PS51131 | Rad50 zinc-hook domain profile. | 143 | 239 | 9.408 |
| 3 | g16383.t4 | SUPERFAMILY | SSF75712 | Rad50 coiled-coil Zn hook | 146 | 236 | 3.14E-5 |
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