General information for g7546.t13
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Translocon-associated protein subunit beta.
Parent gene
- The parent gene g7546 is located on chr_2: 24459122..24466735 (- 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 | g7546 | g7546.t13 | isoform | g7546.t13 | 24457652 | 24459128 |
| chr_2 | g7546 | g7546.t13 | exon | g7546.t13.exon1 | 24457652 | 24458007 |
| chr_2 | g7546 | g7546.t13 | TTS | g7546.t13 | 24457655 | 24457655 |
| chr_2 | g7546 | g7546.t13 | cds | g7546.t13.CDS1 | 24457898 | 24458007 |
| chr_2 | g7546 | g7546.t13 | exon | g7546.t13.exon2 | 24458106 | 24458460 |
| chr_2 | g7546 | g7546.t13 | cds | g7546.t13.CDS2 | 24458106 | 24458460 |
| chr_2 | g7546 | g7546.t13 | exon | g7546.t13.exon3 | 24458603 | 24459128 |
| chr_2 | g7546 | g7546.t13 | TSS | g7546.t13 | NA | NA |
Sequences
>g7546.t13 Gene=g7546 Length=1237
ATGACAAGTGAAAAAAAATTTTTGATATGTTTTATGAATGAATATAATCTGTGTGTCGTT
TTATTTACTATGAAATATTTAGATTAGTATTCTTTAGTCGTGATTCACCAAAACAGCTGA
TTGACTGGTTTTACTGATACAAAAATAAATCGCCAGCGATTTAAAAATGTATATTCTATA
CAATCTTTCCTCACAACTTACACTACTGTCTCGCAAAAAAAAAATTATATTAAAAATTTT
CTGAAAATGCTCAAATTTCTAATTTAAATTAAAAAAATGATTTTTTTTAACTAAAATTGT
ATAAAAATTTGTTTTATCTTATAAAATCTCGTTAAATTCTTATAAGAAAAATTCTTTTTT
CAACTGTTACGAAAATTTTAAATTTTCCCCTAATTTTTCAGTTTATATTGCCCTACAATG
ACATTTGTGGTGCTACGTTGGAACACGAAAACATAAAAAGTTAGAAAGTAATTTTCATAA
TAATTTAATTAATTCGCAAAGTACACTCTATTATAAAATAATTAAGATGAACAAGCTAGT
GAAATGTCTTGCATTATTCTTCTTTGCATCAATGGTGATGGCTACTGATTCAGGAGATTC
TCGAGCACGATTATTAGTTTCAAAACAAATCCTCAATAAATATCTTGTTGAACAACGCGA
TGTCATGGTAAAATATACTTTATTCAATATTGGAAATGGTGCCGCCACACACGTCAGCTT
AGAAGATCAAGGTTTTCCAGCTGAAGCTTTTGATTTAGTCAGCGGAAAGTTGGAAGTTCA
AATTGATAGAATTGCACCAGCTACAAATGTCACTCATGTAGTTGTTGTTCGACCAAGAGC
GCACGGATACTTTAACTTCACTGCAGCTGCTATTAGCTACCTTCAGAGCCAGGCGAAGGT
GGAATTATTAATTTGGCTCAATTCAACAAACAATTCTCATCACATCTCTTTGATTGGATT
GCTTTCGTCATCATGTGTCTCCCAACAGTAGCCATTCCATACAGTTTATTCTACAAATCA
AAGACAAAGTACGAGCTCTTGGCACAAAAGAAAAAGGCCAACTAAAAAAAGACTTAGAAA
TTTTAACATCTTCTGTTTTCGTTAGACTCATTTTTTAAGAAAACCCAATTGTGTGAGTAA
AAATCATCATCATCCTTTTGTTATGAGATATTTTGTGTAAAACAAATTTTAAAAGAGTGT
AAGAAGCTGAAATCCAATAAAAAGTTCATAAATGAAA
>g7546.t13 Gene=g7546 Length=154
MNKLVKCLALFFFASMVMATDSGDSRARLLVSKQILNKYLVEQRDVMVKYTLFNIGNGAA
THVSLEDQGFPAEAFDLVSGKLEVQIDRIAPATNVTHVVVVRPRAHGYFNFTAAAISYLQ
SQAKVELLIWLNSTNNSHHISLIGLLSSSCVSQQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g7546.t13 | PANTHER | PTHR12861 | TRANSLOCON-ASSOCIATED PROTEIN, BETA SUBUNIT PRECURSOR TRAP-BETA SIGNAL SEQUENCE RECEPTOR BETA SUBUNIT | 1 | 124 | 3.2E-36 |
| 2 | g7546.t13 | Pfam | PF05753 | Translocon-associated protein beta (TRAPB) | 9 | 129 | 1.9E-41 |
| 7 | g7546.t13 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 8 | g7546.t13 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 9 | g7546.t13 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 14 | - |
| 10 | g7546.t13 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 19 | - |
| 6 | g7546.t13 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 154 | - |
| 5 | g7546.t13 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 1 | g7546.t13 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 4 | g7546.t13 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 19 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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. There were no conditions that were differentially expressed