General information for g5829.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein lethal(2)essential for life.
Parent gene
- The parent gene g5829 is located on chr_2: 12116567..12117115 (- 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 | g5829 | g5829.t1 | TTS | g5829.t1 | 12116386 | 12116386 |
| chr_2 | g5829 | g5829.t1 | isoform | g5829.t1 | 12116567 | 12117115 |
| chr_2 | g5829 | g5829.t1 | exon | g5829.t1.exon1 | 12116567 | 12117115 |
| chr_2 | g5829 | g5829.t1 | cds | g5829.t1.CDS1 | 12116567 | 12117115 |
| chr_2 | g5829 | g5829.t1 | TSS | g5829.t1 | 12117167 | 12117167 |
Sequences
>g5829.t1 Gene=g5829 Length=549
ATGGCGCTACTACCATCAACATGGAAAGACATGGATGATTTTTACGCTGATCCTTGGAGA
TTACATCGTCAGCTGGTTCCAAGTTGGAGAAGACCATGGCTAGATGATTTCGGTTTTGGA
CTTTATTCATATGATTGGGATATGCCGAAAGAATTCCGTCAATTTGAACAGAGATTTCGA
GAAGTTCATAGAAAATTGTGGAAAGATTTTCCCGAGCTTGGTGCAATTGACACTTCAAAT
GGTTTTAAAGTTTGTGTTGATGTTCAACAATTTAAACCCTATGAAATTACAGTGAGAACA
GATAATAATGTCGTGACAGTTGAAGGAAGACATGAAGAACGTAAAGATTGGCATGGATTT
GTCAGTCGTTCATTTTTACGCCGTTATACGCTGCCTGCTAATTGCAATCCTTATGGAGTC
ACTTCAGAACTTTCTTCTGATGGAGTTTTAACAATTCGAGCACCACCAAGAGTTTTACCA
CCAATAAGAGGCGAAAGAAAAATTGCCATCGAGCACACTGGACCTGTCAAAGCAATCAAA
GCCAACTGA
>g5829.t1 Gene=g5829 Length=182
MALLPSTWKDMDDFYADPWRLHRQLVPSWRRPWLDDFGFGLYSYDWDMPKEFRQFEQRFR
EVHRKLWKDFPELGAIDTSNGFKVCVDVQQFKPYEITVRTDNNVVTVEGRHEERKDWHGF
VSRSFLRRYTLPANCNPYGVTSELSSDGVLTIRAPPRVLPPIRGERKIAIEHTGPVKAIK
AN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g5829.t1 | CDD | cd06526 | metazoan_ACD | 77 | 155 | 0.000 |
| 9 | g5829.t1 | Gene3D | G3DSA:2.60.40.790 | - | 48 | 181 | 0.000 |
| 2 | g5829.t1 | PANTHER | PTHR45640:SF23 | HEAT SHOCK PROTEIN 22-RELATED | 65 | 177 | 0.000 |
| 3 | g5829.t1 | PANTHER | PTHR45640 | HEAT SHOCK PROTEIN HSP-12.2-RELATED | 65 | 177 | 0.000 |
| 5 | g5829.t1 | PRINTS | PR00299 | Alpha crystallin signature | 76 | 96 | 0.000 |
| 7 | g5829.t1 | PRINTS | PR00299 | Alpha crystallin signature | 98 | 111 | 0.000 |
| 6 | g5829.t1 | PRINTS | PR00299 | Alpha crystallin signature | 113 | 132 | 0.000 |
| 4 | g5829.t1 | PRINTS | PR00299 | Alpha crystallin signature | 135 | 156 | 0.000 |
| 1 | g5829.t1 | Pfam | PF00011 | Hsp20/alpha crystallin family | 77 | 170 | 0.000 |
| 10 | g5829.t1 | ProSiteProfiles | PS01031 | Small heat shock protein (sHSP) domain profile. | 64 | 173 | 19.995 |
| 8 | g5829.t1 | SUPERFAMILY | SSF49764 | HSP20-like chaperones | 69 | 170 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5829/g5829.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5829.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K09543 (heat shock protein beta-2)
Pathway
- This transcript belongs to the following pathways
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.
