General information for g15132.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Transmembrane emp24 domain-containing protein 1.
Parent gene
- The parent gene g15132 is located on chr_4: 4057189..4058048 (- 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_4 | g15132 | g15132.t2 | isoform | g15132.t2 | 4056875 | 4057674 |
| chr_4 | g15132 | g15132.t2 | exon | g15132.t2.exon1 | 4056875 | 4057674 |
| chr_4 | g15132 | g15132.t2 | TTS | g15132.t2 | 4056888 | 4056888 |
| chr_4 | g15132 | g15132.t2 | cds | g15132.t2.CDS1 | 4057189 | 4057611 |
| chr_4 | g15132 | g15132.t2 | TSS | g15132.t2 | 4058166 | 4058166 |
Sequences
>g15132.t2 Gene=g15132 Length=800
GCTGACCATAAAAAATCAGACAATATTCATCGACTTGATAAGCCACATCCAGAAGCTGAC
TATATGTTTTGCTTTGACAACACAATCAGTCATTTCAATACTAAAACAGTCTTTTTTGAA
CTTATAATTGAAGATCCAAATAATCCAGTTGATGAAAATGATGTGATTTCTGATTTAGAA
GGACTTTCACCTGAAGAATTTTATGAAATGAAAGTTCAGGATATTCAAGATATTATTCAT
AATGTTAAGACAAAAATCAACAAAGCTCGACAATTGCAAGACATGCTGAGAAGTTTTGAA
GCAAGAGACAGAAATTTGGCTGAACTTAATTGCAGTCGTGTTAATTGGTTGAGTTTTTTC
ATTGTGTCATTGATGATTGTTGTAGGATTGATTCAAGTTTACATGATAAGAAGTTTATTT
GACACCGATCCAAAAGGAAGAAGAATTTGGCAAAAAATTAATAGTATTGTTGATAAACTT
AAGTAAATTTCTTAAGTTTGCATTAGAAATTCAAAATTACTTGCCAATTTTTTCGTATTT
AGATTTTTATTTAAAAATTGTGAAATTTGAAAAGAATTATTGACTATTCGCAAAAAAAAA
CATTTTGCATAAAAATTCTCCAGTAAAAAAATTGAAGCCAAAGAAAGCTTAAAAATATTT
ACGTAATAGTTTTTAGTTTTTCATCATATTTGACCTCATAATGCCATATTTATTTTAAAA
ATCAATTCATTGTAAAGGATTTTATCATTTATTGTCTTTATCTCAAAATAAATCTTGAAA
AAATTGTAAAAAATCTTTTG
>g15132.t2 Gene=g15132 Length=140
MFCFDNTISHFNTKTVFFELIIEDPNNPVDENDVISDLEGLSPEEFYEMKVQDIQDIIHN
VKTKINKARQLQDMLRSFEARDRNLAELNCSRVNWLSFFIVSLMIVVGLIQVYMIRSLFD
TDPKGRRIWQKINSIVDKLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g15132.t2 | Coils | Coil | Coil | 61 | 81 | - |
| 2 | g15132.t2 | PANTHER | PTHR22811 | TRANSMEMBRANE EMP24 DOMAIN-CONTAINING PROTEIN | 2 | 127 | 4.2E-39 |
| 3 | g15132.t2 | PANTHER | PTHR22811:SF59 | OPOSSUM, ISOFORM A | 2 | 127 | 4.2E-39 |
| 1 | g15132.t2 | Pfam | PF01105 | emp24/gp25L/p24 family/GOLD | 2 | 119 | 4.0E-22 |
| 9 | g15132.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 94 | - |
| 10 | g15132.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 95 | 119 | - |
| 8 | g15132.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 120 | 140 | - |
| 7 | g15132.t2 | ProSiteProfiles | PS50866 | GOLD domain profile. | 1 | 22 | 9.53 |
| 5 | g15132.t2 | SUPERFAMILY | SSF101576 | Supernatant protein factor (SPF), C-terminal domain | 1 | 27 | 1.2E-6 |
| 4 | g15132.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 93 | 115 | - |
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.
