General information for g11425.t14
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Mitochondrial proton/calcium exchanger protein.
Parent gene
- The parent gene g11425 is located on chr_1: 16158319..16159180 (- 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_1 | g11425 | g11425.t14 | TTS | g11425.t14 | 16156801 | 16156801 |
| chr_1 | g11425 | g11425.t14 | isoform | g11425.t14 | 16156950 | 16158968 |
| chr_1 | g11425 | g11425.t14 | exon | g11425.t14.exon1 | 16156950 | 16158333 |
| chr_1 | g11425 | g11425.t14 | cds | g11425.t14.CDS1 | 16156950 | 16158002 |
| chr_1 | g11425 | g11425.t14 | exon | g11425.t14.exon2 | 16158908 | 16158968 |
| chr_1 | g11425 | g11425.t14 | TSS | g11425.t14 | 16159218 | 16159218 |
Sequences
>g11425.t14 Gene=g11425 Length=1445
ATGAAGGCACTATTAAGTCATCATAAAACATTATTAAGGATTAAAAGCTATAAAATAAAT
GCTTATCGTCGAAGTATTCAAACATACACATCTCGCCCATACATCTTGAAGTGACAAATA
ATGCAAATAGCCTCAAGTATTGGAAAACACAATATTGTCCATACAATGCAACTTATCGGC
GGTCTATCTTCACATCAAGCTCATGCTTGGAAAAATCTTCTTCTAAAATTGAAGATGCAG
TGAAAACATTAAAAGAAGCTGAAAAAGAAAAGGAAAAGATTATTGAAGGAAAAAGTACAG
TTGTAGGAACTAGCCACGAATCGATAGATTCATCTAAAGCACAAGAAAATATTATAAACA
CTTCAAGTTCCCAACATTTAACGGAACAAAAAATGCAAAAAACAACGGAAGTTGTCCCAA
TAGTACCTGTCAAGAAGACAATGTTGCAAAAAATATGGGCTGAACTTGTACATTATTATC
ACGGTTTTAGATTGCTTTTCATTGACATTAACATTTCTCGAAAGTTACTATGGAAAGTTC
TCAATGGAGGAACTCTATCAAGGAGGGAACATCGGTTAATGATTAGAACGACATCAGATC
TTTTTCGACTTGTGCCATTTTCGGTTTTTATTATTGTTCCATTTATGGAATTGCTTTTAC
CATTAGCCATCAAGTTTTTCCCTGGCATGTTACCTTCAACTTTTCAAACAGCTTCTGAAG
AGGAAAGAAAAATAAAACAAAATCTAAAAGTAAAGATTGAGATGGCAAAGTTTTTACAGA
AAACTCTCGATGAAATGACAGTTCAACATAAAAATCATCGTTCTGAAGCAGCAAAAGAAT
TTTCTGAATTCTTTCAAAGAGTAAGAACATCAGGGACTTTTGCATCGTCTGATGAAATTA
TGAAATTTGCAAAACTTTTTGAAGATGAACTTACATTAGACGCACTTAATCGTCAACAAT
TACTTGCACTTTGTCGTGTGCTCGAAGTGAGTACGATAGGAACAACAAATATACTTAGAT
TTCAATTACATATGAAACTAAGAAATTTGGCTGCCGATGATCGAATGATTCAAAGAGAAG
GAATAGATTCATTAAATTTGGCAGAATTGCAACATGCATGTAGATCGCGTGGTATGAGAG
CGTATGGTATTCCTGAAGATAAACTTAAAATTCAACTTGCGGATTGGATTAATCTAAGTC
TCAATGAGAAAGTTCCTCCATCATTATTATTATTATCTAGAGCTTTAATGCTGCCAGAAG
ATGCCGAAGTTAGTGAAAAACTAAAAGCCACTATGGCAAGTTTACCTGAAACTATAGCAA
CACAAACTAAAGCTGTCATTGGAGAGCGAGAAGGAAAAATTGATAATAAAACAAAGATTG
AAATTCTTAAAGAAGAGCAACGTAGAATTAAAGAAGAAGAAGAAGAAAGGAAAGAAGCAG
AGGCA
>g11425.t14 Gene=g11425 Length=351
MQKTTEVVPIVPVKKTMLQKIWAELVHYYHGFRLLFIDINISRKLLWKVLNGGTLSRREH
RLMIRTTSDLFRLVPFSVFIIVPFMELLLPLAIKFFPGMLPSTFQTASEEERKIKQNLKV
KIEMAKFLQKTLDEMTVQHKNHRSEAAKEFSEFFQRVRTSGTFASSDEIMKFAKLFEDEL
TLDALNRQQLLALCRVLEVSTIGTTNILRFQLHMKLRNLAADDRMIQREGIDSLNLAELQ
HACRSRGMRAYGIPEDKLKIQLADWINLSLNEKVPPSLLLLSRALMLPEDAEVSEKLKAT
MASLPETIATQTKAVIGEREGKIDNKTKIEILKEEQRRIKEEEEERKEAEA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11425.t14 | Coils | Coil | Coil | 125 | 145 | - |
| 6 | g11425.t14 | Coils | Coil | Coil | 325 | 351 | - |
| 2 | g11425.t14 | PANTHER | PTHR14009 | LEUCINE ZIPPER-EF-HAND CONTAINING TRANSMEMBRANE PROTEIN | 16 | 350 | 8.4E-152 |
| 3 | g11425.t14 | PANTHER | PTHR14009:SF1 | MITOCHONDRIAL PROTON/CALCIUM EXCHANGER PROTEIN | 16 | 350 | 8.4E-152 |
| 1 | g11425.t14 | Pfam | PF07766 | LETM1-like protein | 18 | 282 | 5.4E-102 |
| 8 | g11425.t14 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 69 | - |
| 10 | g11425.t14 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 70 | 93 | - |
| 9 | g11425.t14 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 94 | 351 | - |
| 7 | g11425.t14 | ProSiteProfiles | PS51758 | Letm1 ribosome-binding (RBD) domain profile. | 116 | 335 | 28.493 |
| 4 | g11425.t14 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 70 | 92 | - |
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:0043022 | ribosome binding | MF |
| GO:0005743 | mitochondrial inner membrane | CC |
KEGG
Orthology
- This transcript has been annotated with K17800 (LETM1 and EF-hand domain-containing protein 1, mitochondrial)
Pathway
- This transcript belongs to the following pathways
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