General information for g2685.t3
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.t3 | isoform | g2685.t3 | 19711137 | 19712123 |
| chr_3 | g2685 | g2685.t3 | exon | g2685.t3.exon1 | 19711137 | 19711369 |
| chr_3 | g2685 | g2685.t3 | TTS | g2685.t3 | 19711154 | 19711154 |
| chr_3 | g2685 | g2685.t3 | exon | g2685.t3.exon2 | 19711422 | 19712123 |
| chr_3 | g2685 | g2685.t3 | cds | g2685.t3.CDS1 | 19711516 | 19712073 |
| chr_3 | g2685 | g2685.t3 | TSS | g2685.t3 | NA | NA |
Sequences
>g2685.t3 Gene=g2685 Length=935
GTGATAATCAACATACTGTAACAATTCAAGTTTATGAAGGTGAACGTCCAATGACCAAAG
ACAATCACTTATTAGGTAAATTCGATCTTACTGGCATTCCTCCTGCTCCACGTGGAATCC
CACAAATTGAAGTTTCATTTGAAATCGATGCTAATGGTATTCTTCAAGTATCAGCTGAAG
ATAAGGGCACAGGAAATCGCGAGAAAATTGTAATCACAAATGATCAAAACAGACTCACAC
CAGAAGATATTGAACGTATGATTAAGGATGCTGAGCGTTTTGCTGATGATGACAAGAAAC
TCAAGGAACGTGTCGAGGCACGTAATGAACTTGAGAGTTACGCATACAGTCTGAAAAATC
AAATTGGAGATAAGGAAAAACTTGGAGCAAAATTGTCAGATGATGAAAAGAGCAAAATGG
AAGAGGCTATTGACGAAAAGATCAAATGGTTAGAAGAAAATCAAGATACAGATGCTGAAG
ATTACAAGAAACAAAAGAAAGAACTTGAAGAAGTTGTGCAGCCAATTATCGCTAAATTAT
ATCAAGGACAAGGTGGTGTACCACCACCGACAGGCGATGATGATGATGATCTCAAAGACG
AATTGTAAAAAAGCTCCCAAAAATTCCTTCCCTTCGTACAACATACACAAACAATATTTT
CCTGAAATCAACCTCAATTTTTTTAATGTTAAATTGTTTATTATTCCGTTCTATATCCGT
TCTCAAAAAAAAATTCTTTTCATAGGTCGCATAAAAAAATACATTTTCCTAGAATTTAAT
TTATTAGTAGAAGAAAAAAGAAATTTACAACCAATGCACATGACTGAATGAGCGAATGCG
TGCGTGATCTTAATTTTGTAATGCATTAGTTTCTATTATGAAACAAATTGAATAAAAAAC
TAAACTAGTAAAACTTAGAAAATAATAGTTCTTTT
>g2685.t3 Gene=g2685 Length=185
MTKDNHLLGKFDLTGIPPAPRGIPQIEVSFEIDANGILQVSAEDKGTGNREKIVITNDQN
RLTPEDIERMIKDAERFADDDKKLKERVEARNELESYAYSLKNQIGDKEKLGAKLSDDEK
SKMEEAIDEKIKWLEENQDTDAEDYKKQKKELEEVVQPIIAKLYQGQGGVPPPTGDDDDD
LKDEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g2685.t3 | Coils | Coil | Coil | 135 | 155 | - |
| 7 | g2685.t3 | Gene3D | G3DSA:2.60.34.10 | Substrate Binding Domain Of DNAk; Chain A | 1 | 62 | 5.0E-25 |
| 8 | g2685.t3 | Gene3D | G3DSA:1.20.1270.10 | - | 63 | 166 | 5.5E-36 |
| 6 | g2685.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 163 | 185 | - |
| 2 | g2685.t3 | PANTHER | PTHR19375 | HEAT SHOCK PROTEIN 70KDA | 1 | 171 | 3.8E-84 |
| 3 | g2685.t3 | PANTHER | PTHR19375:SF380 | ENDOPLASMIC RETICULUM CHAPERONE BIP | 1 | 171 | 3.8E-84 |
| 1 | g2685.t3 | Pfam | PF00012 | Hsp70 protein | 1 | 165 | 7.0E-44 |
| 5 | g2685.t3 | SUPERFAMILY | SSF100920 | Heat shock protein 70kD (HSP70), peptide-binding domain | 1 | 95 | 1.23E-32 |
| 4 | g2685.t3 | SUPERFAMILY | SSF100934 | Heat shock protein 70kD (HSP70), C-terminal subdomain | 89 | 171 | 1.07E-26 |
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.
