General information for g11425.t11
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 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.t11 | TTS | g11425.t11 | 16155617 | 16155617 |
| chr_1 | g11425 | g11425.t11 | isoform | g11425.t11 | 16155734 | 16157266 |
| chr_1 | g11425 | g11425.t11 | exon | g11425.t11.exon1 | 16155734 | 16155852 |
| chr_1 | g11425 | g11425.t11 | cds | g11425.t11.CDS1 | 16155835 | 16155852 |
| chr_1 | g11425 | g11425.t11 | exon | g11425.t11.exon2 | 16155914 | 16156159 |
| chr_1 | g11425 | g11425.t11 | cds | g11425.t11.CDS2 | 16155914 | 16156159 |
| chr_1 | g11425 | g11425.t11 | exon | g11425.t11.exon3 | 16156215 | 16156319 |
| chr_1 | g11425 | g11425.t11 | cds | g11425.t11.CDS3 | 16156215 | 16156319 |
| chr_1 | g11425 | g11425.t11 | exon | g11425.t11.exon4 | 16156386 | 16157266 |
| chr_1 | g11425 | g11425.t11 | cds | g11425.t11.CDS4 | 16156386 | 16157261 |
| chr_1 | g11425 | g11425.t11 | TSS | g11425.t11 | NA | NA |
Sequences
>g11425.t11 Gene=g11425 Length=1351
GTGGTATGAGAGCGTATGGTATTCCTGAAGATAAACTTAAAATTCAACTTGCGGATTGGA
TTAATCTAAGTCTCAATGAGAAAGTTCCTCCATCATTATTATTATTATCTAGAGCTTTAA
TGCTGCCAGAAGATGCCGAAGTTAGTGAAAAACTAAAAGCCACTATGGCAAGTTTACCTG
AAACTATAGCAACACAAACTAAAGCTGTCATTGGAGAGCGAGAAGGAAAAATTGATAATA
AAACAAAGATTGAAATTCTTAAAGAAGAGCAACGTAGAATTAAAGAAGAAGAAGAAGAAA
GGAAAGAAGCAGAGGCAGAAATTAAGGCTAAAGAGGAGCAACAGCAACAGGCAAAGGCAT
CAGAAGAATTGTTACAAGATAAGGCTCCTATTATTCAATCCGATACAATAGTTAAACCTG
ATCAAATAACTGTTAGTTCTCAAGAACCTAAAGAGAGAGTATTACCAAAAATAGAAAAAG
AATTGACTTCAGAAGACTTGAAAATACTCACGGATGCTTTAAATGAAATCAGTAGTGAGA
AAAAATTATTATTGGCAAAAGAAGAAATTAAGGAAATTAAAGAAGAAATCGCAGAATATG
AGGAGGATGTCGAAGAGCTCAATAAAATTGTTGAACAAAAGCTTGAAAAGATACAACTGA
AAGAATCACGTGCAGCTAAATTGCTTCTCAAAAAAGTCAATTCTATGATTAGTAATTTAG
ATAAAGCTCTTGAAGATTTAGAGACAAAAGAGAAACAAATTAAAACATTAAATACTGAAC
CAAGTAAAGCAACTGAAGCTGTTGATGCAGTTATTGCAGAAGAAGCAAAGCGTACAGAAG
AACTTGTTCGTATTGATGAGATGATGAATGCCATTAGAAAGATACAAAAAGTTTCTGATG
AGTCTGTACTGGAGCAAATTGAAAAGTTGTTGTCAAGAATCGATGATGATCGTGATGGTT
CACTGAAAGTAGAAGATGTTTTAAAGATTATTGAAACTATTGGAAAGGAGAATATCAATT
TAAATGAGAAGCAAATTAACGAAATAATTGACTTGATTGATAAAGAGGAAATAATTGAAA
CCGAAGAAATGATTGAAAAAGCATTAAAAAAAGAACAAGAACAGCGTAATGTATTGAAGA
AAGCAAATGAAGATGATTTCACAACTAGTGAAGTTAATTTTATTTTGCAAGACAAAGCAA
CAGAAATCCAAGAACCATCATCAACAGAAAAGTTGATGAGAAAATTGTAAAAGCAAATAA
TCAGACGGTCAATGGTGTTGTTGATTCAACAACTACTCTTCCAAAGAAATCTGTTGAGAG
TCCACAGGACACAAAAAACAAAAGTGTGTGA
>g11425.t11 Gene=g11425 Length=414
MRAYGIPEDKLKIQLADWINLSLNEKVPPSLLLLSRALMLPEDAEVSEKLKATMASLPET
IATQTKAVIGEREGKIDNKTKIEILKEEQRRIKEEEEERKEAEAEIKAKEEQQQQAKASE
ELLQDKAPIIQSDTIVKPDQITVSSQEPKERVLPKIEKELTSEDLKILTDALNEISSEKK
LLLAKEEIKEIKEEIAEYEEDVEELNKIVEQKLEKIQLKESRAAKLLLKKVNSMISNLDK
ALEDLETKEKQIKTLNTEPSKATEAVDAVIAEEAKRTEELVRIDEMMNAIRKIQKVSDES
VLEQIEKLLSRIDDDRDGSLKVEDVLKIIETIGKENINLNEKQINEIIDLIDKEEIIETE
EMIEKALKKEQEQRNVLKKANEDDFTTSEVNFILQDKATEIQEPSSTEKLMRKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g11425.t11 | Coils | Coil | Coil | 78 | 126 | - |
| 6 | g11425.t11 | Coils | Coil | Coil | 181 | 222 | - |
| 7 | g11425.t11 | Coils | Coil | Coil | 228 | 258 | - |
| 5 | g11425.t11 | Coils | Coil | Coil | 353 | 383 | - |
| 4 | g11425.t11 | Gene3D | G3DSA:1.10.238.10 | - | 260 | 395 | 1.6E-5 |
| 1 | g11425.t11 | PANTHER | PTHR14009:SF8 | MITOCHONDRIAL PROTON/CALCIUM EXCHANGER PROTEIN | 1 | 364 | 3.0E-42 |
| 2 | g11425.t11 | PANTHER | PTHR14009 | LEUCINE ZIPPER-EF-HAND CONTAINING TRANSMEMBRANE PROTEIN | 1 | 364 | 3.0E-42 |
| 9 | g11425.t11 | ProSiteProfiles | PS51758 | Letm1 ribosome-binding (RBD) domain profile. | 1 | 135 | 9.091 |
| 10 | g11425.t11 | ProSiteProfiles | PS50222 | EF-hand calcium-binding domain profile. | 300 | 335 | 9.827 |
| 3 | g11425.t11 | SUPERFAMILY | SSF47473 | EF-hand | 275 | 371 | 1.41E-7 |
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:0005509 | calcium ion binding | MF |
| GO:0005743 | mitochondrial inner membrane | CC |
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.
