General information for g5648.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5648 is located on chr_2: 10883329..10884457 (+ 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 | g5648 | g5648.t8 | TSS | g5648.t8 | 10883199 | 10883199 |
| chr_2 | g5648 | g5648.t8 | isoform | g5648.t8 | 10883329 | 10884144 |
| chr_2 | g5648 | g5648.t8 | exon | g5648.t8.exon1 | 10883329 | 10883899 |
| chr_2 | g5648 | g5648.t8 | cds | g5648.t8.CDS1 | 10883329 | 10883899 |
| chr_2 | g5648 | g5648.t8 | exon | g5648.t8.exon2 | 10884019 | 10884144 |
| chr_2 | g5648 | g5648.t8 | cds | g5648.t8.CDS2 | 10884019 | 10884053 |
| chr_2 | g5648 | g5648.t8 | TTS | g5648.t8 | 10884274 | 10884274 |
Sequences
>g5648.t8 Gene=g5648 Length=697
ATGGCATTATTACCAGTTTTATTGGACTTAGTCGATGATCTTTATGAGAATCTCGAGAAT
CCATCAAGAAATGAGATTCCATTGCTGTATTTACCTCAAAGAAGTGTGCAAGGAGGCTGC
CCAAGAATGACAAGACGTCATTGCCCAAGAGGTGATGCAAAAGAATGCCCAGCTAAAGCA
GACATGGAAAAGAAAGAAGAAATTAAAGAAAATCAACAATCTGTGCCATCAGAAGGTTGC
CCAAAAGCTTGTACAAGAGGACAATGTCAAAAGACCGGCAAATGTCAACGTGAAGGCATG
AAACAGAAAGACTGGAATGCTTTAGCATTTTATGATCATCCATTAGCTCGTCAGTTCCCT
TGGGAATTATTGAGACACTGTCAAAACCAAAGAGAATGTCCAGTAAAGACACCAGAAGAC
TTTGAAGTTATTCTCAATGTGAAATCATTCAAACCAGAAGATATTTCTGTCAAGGTCAAA
GGACGTGAAATAATTATTGAAGGAAAGCATGAAGAGCGACAAGAAGATAATGGTTTTGTA
TCTCGTCAATTTACTCGTCGATATGTTTTGGCGTGTTGCTTCAACACCACAACCAAAGAA
GGATGATGAAAACAAAGGTGAATCTTCATCGGCAATCACTGAGGAAAAGAAAGCAGCTGA
TTTCGAGATCGTTGACAATGTCGAGAAGAAGGAATAA
>g5648.t8 Gene=g5648 Length=201
MALLPVLLDLVDDLYENLENPSRNEIPLLYLPQRSVQGGCPRMTRRHCPRGDAKECPAKA
DMEKKEEIKENQQSVPSEGCPKACTRGQCQKTGKCQREGMKQKDWNALAFYDHPLARQFP
WELLRHCQNQRECPVKTPEDFEVILNVKSFKPEDISVKVKGREIIIEGKHEERQEDNGFV
SRQFTRRYVLACCFNTTTKEG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g5648.t8 | CDD | cd06526 | metazoan_ACD | 139 | 190 | 0.000 |
| 7 | g5648.t8 | Gene3D | G3DSA:2.60.40.790 | - | 118 | 198 | 0.000 |
| 2 | g5648.t8 | PANTHER | PTHR45640 | HEAT SHOCK PROTEIN HSP-12.2-RELATED | 82 | 190 | 0.000 |
| 4 | g5648.t8 | PRINTS | PR00299 | Alpha crystallin signature | 135 | 155 | 0.000 |
| 3 | g5648.t8 | PRINTS | PR00299 | Alpha crystallin signature | 157 | 170 | 0.000 |
| 5 | g5648.t8 | PRINTS | PR00299 | Alpha crystallin signature | 172 | 191 | 0.000 |
| 1 | g5648.t8 | Pfam | PF00011 | Hsp20/alpha crystallin family | 136 | 190 | 0.000 |
| 8 | g5648.t8 | ProSiteProfiles | PS01031 | Small heat shock protein (sHSP) domain profile. | 123 | 201 | 13.151 |
| 6 | g5648.t8 | SUPERFAMILY | SSF49764 | HSP20-like chaperones | 135 | 193 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5648/g5648.t8; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5648.t8.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.
