General information for g5646.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 g5646 is located on chr_2: 10877836..10887095 (- 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 | g5646 | g5646.t1 | TTS | g5646.t1 | 10877703 | 10877703 |
| chr_2 | g5646 | g5646.t1 | isoform | g5646.t1 | 10877836 | 10878453 |
| chr_2 | g5646 | g5646.t1 | exon | g5646.t1.exon1 | 10877836 | 10878453 |
| chr_2 | g5646 | g5646.t1 | cds | g5646.t1.CDS1 | 10877836 | 10878453 |
| chr_2 | g5646 | g5646.t1 | TSS | g5646.t1 | 10878570 | 10878570 |
Sequences
>g5646.t1 Gene=g5646 Length=618
ATGAGAGGATTACCAGAACTTCTTAATCTTGTTGATGAAATTTATCACGAATTTGAAGAA
CCATCGAAAATGGAGCTGTCAATTCCATCACTTCCAGTTGTCTTTCTTGAAGAGCGACCC
ACATTAAAAACACTTTCACGACCCATCAATAGACAACTTGCACGCAGACCATGTCCATAT
GCCAGAATAACAGCAGCTCGTAATGAACTTGCAAAATCAAAAGAGAAAGATTTTTCTGTC
GCTCTTGATGTCTCATCTTTCCAACCCGAGGAAATATCTGTAAAAGTGAAGGATCGTGAC
ATAATTGTCGAGGCAAAACACGAAGAGCGTAAAGACGAGTACGGTTATGTATCGCGACAA
TTTACACGTAGATATCAGCTACCCGATGAATACGATCCAGACACTGTCTCGACGTACTTG
AATGCAGATGGCAAAATGACAATAAAGGCACTCAAACCAAAAGTTGCTGAACCTCACGAG
CGCATCATTCCAATAAAGCGAGTGACAGACGTCGACCATGAAGAAGAGCAAGAAAAGAGT
GTGAAAAAGAAAAAGGATTCGATAGAGTCAGCAACAATAGAAAATAATACGGAAAAAGAA
CAACAGGAAGAACCATAA
>g5646.t1 Gene=g5646 Length=205
MRGLPELLNLVDEIYHEFEEPSKMELSIPSLPVVFLEERPTLKTLSRPINRQLARRPCPY
ARITAARNELAKSKEKDFSVALDVSSFQPEEISVKVKDRDIIVEAKHEERKDEYGYVSRQ
FTRRYQLPDEYDPDTVSTYLNADGKMTIKALKPKVAEPHERIIPIKRVTDVDHEEEQEKS
VKKKKDSIESATIENNTEKEQQEEP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g5646.t1 | CDD | cd06526 | metazoan_ACD | 72 | 152 | 5.656E-36 |
| 9 | g5646.t1 | Gene3D | G3DSA:2.60.40.790 | - | 59 | 203 | 4.6E-26 |
| 11 | g5646.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 165 | 205 | - |
| 2 | g5646.t1 | PANTHER | PTHR45640 | HEAT SHOCK PROTEIN HSP-12.2-RELATED | 72 | 179 | 5.4E-36 |
| 7 | g5646.t1 | PRINTS | PR00299 | Alpha crystallin signature | 72 | 92 | 1.4E-18 |
| 6 | g5646.t1 | PRINTS | PR00299 | Alpha crystallin signature | 94 | 107 | 1.4E-18 |
| 4 | g5646.t1 | PRINTS | PR00299 | Alpha crystallin signature | 109 | 128 | 1.4E-18 |
| 5 | g5646.t1 | PRINTS | PR00299 | Alpha crystallin signature | 131 | 152 | 1.4E-18 |
| 3 | g5646.t1 | PRINTS | PR00299 | Alpha crystallin signature | 160 | 175 | 1.4E-18 |
| 1 | g5646.t1 | Pfam | PF00011 | Hsp20/alpha crystallin family | 72 | 166 | 7.0E-23 |
| 12 | g5646.t1 | ProSiteProfiles | PS01031 | Small heat shock protein (sHSP) domain profile. | 60 | 168 | 19.259 |
| 8 | g5646.t1 | SUPERFAMILY | SSF49764 | HSP20-like chaperones | 73 | 165 | 1.85E-13 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5646/g5646.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5646.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 K09545 (heat shock protein beta-6)
Pathway
This gene does not belong to any 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.
