General information for g2685.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Endoplasmic reticulum chaperone BiP.
Parent gene
- The parent gene g2685 is located on chr_3: 19712637..19714329 (- 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_3 | g2685 | g2685.t12 | TTS | g2685.t12 | 19711154 | 19711154 |
| chr_3 | g2685 | g2685.t12 | isoform | g2685.t12 | 19711516 | 19712302 |
| chr_3 | g2685 | g2685.t12 | exon | g2685.t12.exon1 | 19711516 | 19711891 |
| chr_3 | g2685 | g2685.t12 | cds | g2685.t12.CDS1 | 19711516 | 19711866 |
| chr_3 | g2685 | g2685.t12 | exon | g2685.t12.exon2 | 19712049 | 19712302 |
| chr_3 | g2685 | g2685.t12 | TSS | g2685.t12 | NA | NA |
Sequences
>g2685.t12 Gene=g2685 Length=630
TTATGGTGCTGCTGTTCAAGCTGGTGTTCTTTCAGGCGAACAAGACACAGACGCTATCGT
TCTTCTCGATGTCAATCCTTTGACTATGGGTATTGAAACAGTCGGAGGTGTGATGACAAA
ATTGATTCCAAGAAATACAGTTATTCCAACAAAGAAATCTCAAATTTTCTCCACTGCCAG
TGATAATCAACATACTGTAACAATTCAAGTTTATGAAGGTGAACGTCCAATGACCAAAGA
CAATCACTTATTAGACTCACACCAGAAGATATTGAACGTATGATTAAGGATGCTGAGCGT
TTTGCTGATGATGACAAGAAACTCAAGGAACGTGTCGAGGCACGTAATGAACTTGAGAGT
TACGCATACAGTCTGAAAAATCAAATTGGAGATAAGGAAAAACTTGGAGCAAAATTGTCA
GATGATGAAAAGAGCAAAATGGAAGAGGCTATTGACGAAAAGATCAAATGGTTAGAAGAA
AATCAAGATACAGATGCTGAAGATTACAAGAAACAAAAGAAAGAACTTGAAGAAGTTGTG
CAGCCAATTATCGCTAAATTATATCAAGGACAAGGTGGTGTACCACCACCGACAGGCGAT
GATGATGATGATCTCAAAGACGAATTGTAA
>g2685.t12 Gene=g2685 Length=116
MIKDAERFADDDKKLKERVEARNELESYAYSLKNQIGDKEKLGAKLSDDEKSKMEEAIDE
KIKWLEENQDTDAEDYKKQKKELEEVVQPIIAKLYQGQGGVPPPTGDDDDDLKDEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g2685.t12 | Coils | Coil | Coil | 66 | 86 | - |
| 6 | g2685.t12 | Gene3D | G3DSA:1.20.1270.10 | - | 1 | 97 | 6.8E-33 |
| 5 | g2685.t12 | MobiDBLite | mobidb-lite | consensus disorder prediction | 94 | 116 | - |
| 2 | g2685.t12 | PANTHER | PTHR19375 | HEAT SHOCK PROTEIN 70KDA | 1 | 103 | 1.0E-38 |
| 3 | g2685.t12 | PANTHER | PTHR19375:SF380 | ENDOPLASMIC RETICULUM CHAPERONE BIP | 1 | 103 | 1.0E-38 |
| 1 | g2685.t12 | Pfam | PF00012 | Hsp70 protein | 1 | 96 | 8.2E-13 |
| 4 | g2685.t12 | SUPERFAMILY | SSF100934 | Heat shock protein 70kD (HSP70), C-terminal subdomain | 20 | 102 | 2.88E-27 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005524 | ATP binding | MF |
| GO:0016887 | ATP hydrolysis activity | MF |
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.
