General information for g5009.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Restin-like protein.
Parent gene
- The parent gene g5009 is located on chr_2: 6422853..6423614 (- 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 | g5009 | g5009.t6 | isoform | g5009.t6 | 6407858 | 6411618 |
| chr_2 | g5009 | g5009.t6 | exon | g5009.t6.exon1 | 6407858 | 6408340 |
| chr_2 | g5009 | g5009.t6 | cds | g5009.t6.CDS1 | 6407859 | 6408340 |
| chr_2 | g5009 | g5009.t6 | exon | g5009.t6.exon2 | 6408404 | 6408479 |
| chr_2 | g5009 | g5009.t6 | cds | g5009.t6.CDS2 | 6408404 | 6408479 |
| chr_2 | g5009 | g5009.t6 | exon | g5009.t6.exon3 | 6408736 | 6408846 |
| chr_2 | g5009 | g5009.t6 | cds | g5009.t6.CDS3 | 6408736 | 6408846 |
| chr_2 | g5009 | g5009.t6 | exon | g5009.t6.exon4 | 6409854 | 6409964 |
| chr_2 | g5009 | g5009.t6 | cds | g5009.t6.CDS4 | 6409854 | 6409964 |
| chr_2 | g5009 | g5009.t6 | exon | g5009.t6.exon5 | 6411092 | 6411157 |
| chr_2 | g5009 | g5009.t6 | cds | g5009.t6.CDS5 | 6411092 | 6411157 |
| chr_2 | g5009 | g5009.t6 | exon | g5009.t6.exon6 | 6411368 | 6411551 |
| chr_2 | g5009 | g5009.t6 | cds | g5009.t6.CDS6 | 6411368 | 6411475 |
| chr_2 | g5009 | g5009.t6 | exon | g5009.t6.exon7 | 6411616 | 6411618 |
| chr_2 | g5009 | g5009.t6 | TSS | g5009.t6 | NA | NA |
| chr_2 | g5009 | g5009.t6 | TTS | g5009.t6 | NA | NA |
Sequences
>g5009.t6 Gene=g5009 Length=1034
AAGATATTTCAAATGCGCACCCAATCATGGAATTTTTGTGCCTGAAGGAAAGGTTGTTTT
ATCACCATTAGCACGAAAAATGCGCCTTTCAAGACAAAATTCACAAGAATCGTTAACATC
AAACATTACACTTAACAGCTTGGCTTCGACAAATACTTCAAAATTGCGGTTAAATGCAAC
ACAAAAGCGCCTATCGACACTTAATAAGTCACCATCGGCAACGTCAACACCAAAACCCTC
GTTCTCGTTGCAGGACATTTTACGAGAGAAATCGAATCATATTGAACAAATCATGAAAGA
ACGAGATATTGAACGTGAAGAAATGGCAGCTCAAACAGTTCTTTATCAAAAGAATCTTAA
TCAGTATAAAGAAAAGTTGACTCATCTTCAAAAGCTTCTTGAAGACGAACGAAAGAAAAG
TGAAGATCTTCAATTTACTATAGATGAGGCACAAACAAACGCTGATGAAAATGAGCTCAC
ACTTCGCGAGAAAATTAAACAATTAGAGCAAATTTTGAAGCAGCAAACAAAGCAAGGTGC
AGGTGATTTCGTTATCGACACTTCACAGAATGATGAACTTATTTCAAAACTTCGGATTGA
AGTTGATGAACTCAAACAAAAATTACATAATGCAGAATCACTCAAATCGACATTGGAGAA
TCAAATACAGTCGTTGAATGAGAAAATTACTGATTATAGTAATGAGTTGGAGCTCAAATC
TTCTGCCAATGATGCAATTGAAAAGGTTTTCAAAGAAGAAATTGATTATCTTCAAGGTCG
AATCAATGAATTAGAAAAGGAAGTGTCTGACAAATCATCACAATTGGAGAATGATAAAGA
AAATTTATCTAAAATCGAGTGCTCTTATAATGAAAAATTATCATTACTTCAAAAAGAAAT
AGAAGAAAAAATAAATAATGAAAATTTACATGCCAGTGAATTAGATGCAAAAAATAAAGA
AATTGACTCGCTCAAGTCTGATATTGAAAAGCTCACTAGTTCTGACCTTGGTGCACAAGA
AGTCATAGGTAAAA
>g5009.t6 Gene=g5009 Length=318
MRLSRQNSQESLTSNITLNSLASTNTSKLRLNATQKRLSTLNKSPSATSTPKPSFSLQDI
LREKSNHIEQIMKERDIEREEMAAQTVLYQKNLNQYKEKLTHLQKLLEDERKKSEDLQFT
IDEAQTNADENELTLREKIKQLEQILKQQTKQGAGDFVIDTSQNDELISKLRIEVDELKQ
KLHNAESLKSTLENQIQSLNEKITDYSNELELKSSANDAIEKVFKEEIDYLQGRINELEK
EVSDKSSQLENDKENLSKIECSYNEKLSLLQKEIEEKINNENLHASELDAKNKEIDSLKS
DIEKLTSSDLGAQEVIGK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g5009.t6 | Coils | Coil | Coil | 61 | 81 | - |
| 4 | g5009.t6 | Coils | Coil | Coil | 93 | 152 | - |
| 3 | g5009.t6 | Coils | Coil | Coil | 168 | 216 | - |
| 2 | g5009.t6 | Coils | Coil | Coil | 221 | 255 | - |
| 5 | g5009.t6 | Coils | Coil | Coil | 288 | 308 | - |
| 1 | g5009.t6 | SUPERFAMILY | SSF46579 | Prefoldin | 175 | 265 | 7.59E-5 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5009/g5009.t6; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5009.t6.fa.iupred3.txt does not exist
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.
