General information for g2685.t13
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t13 | TTS | g2685.t13 | 19711154 | 19711154 |
| chr_3 | g2685 | g2685.t13 | isoform | g2685.t13 | 19711763 | 19712400 |
| chr_3 | g2685 | g2685.t13 | exon | g2685.t13.exon1 | 19711763 | 19712400 |
| chr_3 | g2685 | g2685.t13 | cds | g2685.t13.CDS1 | 19711765 | 19712217 |
| chr_3 | g2685 | g2685.t13 | TSS | g2685.t13 | NA | NA |
Sequences
>g2685.t13 Gene=g2685 Length=638
GGTGGTTCAACACGTATTCCAAAAGTTCAGCAATTGGTCAAAGAATTCTTCAATGGAAAA
GAACCATCACGTGGCATCAATCCAGATGAAGCTGTTGCTTATGGTGCTGCTGTTCAAGCT
GGTGTTCTTTCAGGCGAACAAGACACAGACGCTATCGTTCTTCTCGATGTCAATCCTTTG
ACTATGGGTATTGAAACAGTCGGAGGTGTGATGACAAAATTGATTCCAAGAAATACAGTT
ATTCCAACAAAGAAATCTCAAATTTTCTCCACTGCCAGTGATAATCAACATACTGTAACA
ATTCAAGTTTATGAAGGTGAACGTCCAATGACCAAAGACAATCACTTATTAGGTAAATTC
GATCTTACTGGCATTCCTCCTGCTCCACGTGGAATCCCACAAATTGAAGTTTCATTTGAA
ATCGATGCTAATGGTATTCTTCAAGTATCAGCTGAAGATAAGGGCACAGGAAATCGCGAG
AAAATTGTAATCACAAATGATCAAAACAGACTCACACCAGAAGATATTGAACGTATGATT
AAGGATGCTGAGCGTTTTGCTGATGATGACAAGAAACTCAAGGAACGTGTCGAGGCACGT
AATGAACTTGAGAGTTACGCATACAGTCTGAAAAATCA
>g2685.t13 Gene=g2685 Length=151
MGIETVGGVMTKLIPRNTVIPTKKSQIFSTASDNQHTVTIQVYEGERPMTKDNHLLGKFD
LTGIPPAPRGIPQIEVSFEIDANGILQVSAEDKGTGNREKIVITNDQNRLTPEDIERMIK
DAERFADDDKKLKERVEARNELESYAYSLKN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2685.t13 | Gene3D | G3DSA:2.60.34.10 | Substrate Binding Domain Of DNAk; Chain A | 1 | 151 | 0 |
| 2 | g2685.t13 | PANTHER | PTHR19375 | HEAT SHOCK PROTEIN 70KDA | 1 | 151 | 0 |
| 3 | g2685.t13 | PANTHER | PTHR19375:SF380 | ENDOPLASMIC RETICULUM CHAPERONE BIP | 1 | 151 | 0 |
| 1 | g2685.t13 | Pfam | PF00012 | Hsp70 protein | 1 | 150 | 0 |
| 4 | g2685.t13 | SUPERFAMILY | SSF100920 | Heat shock protein 70kD (HSP70), peptide-binding domain | 1 | 143 | 0 |
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.
