General information for g12695.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Battenin.
Parent gene
- The parent gene g12695 is located on chr_1: 25319417..25321396 (- 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 | g12695 | g12695.t3 | TTS | g12695.t3 | 25318873 | 25318873 |
| chr_1 | g12695 | g12695.t3 | isoform | g12695.t3 | 25318994 | 25320030 |
| chr_1 | g12695 | g12695.t3 | exon | g12695.t3.exon1 | 25318994 | 25320030 |
| chr_1 | g12695 | g12695.t3 | cds | g12695.t3.CDS1 | 25319357 | 25319881 |
| chr_1 | g12695 | g12695.t3 | TSS | g12695.t3 | NA | NA |
Sequences
>g12695.t3 Gene=g12695 Length=1037
TCTGTTTTTATTCTATCAATTTTAAATTAATTTTATTTTTCAAATCTAATTTTAGAACGC
GAATTTCAATATCATGTTTAATAGCAATTGGAGGATTTATTGTAGTAGGGTTTGCAACTG
AGCAATGGATCGCATTGACGGGAGTAGCAATGACTTCTTTTGCATCAGGACTAGGCGAAC
CAACTTTCTTAGCTTATTCAGCATTCTTTAATAAAAATGTCATATCTACTTGGTCTTCTG
GTACTGGTGGTGCTGGAATTTTCGGTGCCTTAGCATATTCAGTATTGCGTGAAATTGGTT
TGAATAATCAACAAACTATGCTCGTTATGGTGAGTGTGCCTGCTGCCGAATTCTTGACAT
TCTTCTTCTTACTGTCAAAGCCTGCTAGTAAACGCATTGAAGACCAGCACAAGGGTGATA
AAGTTGTTGATGACATTCCACCGATGACATCATTCAAAGAAAAGATTATTTACATCAAAC
AGCTGCTACATTTCATGATACCGCTCTGCTTAGTCTATCTCTTTGAGTATTATATCAATC
AAGGCTTATTTGAAATGGCTTATTTCCCAGAAAATATTCTTGATCTTGATAGCAAGCAAC
AATATCGATGGTATCAGGTAAGAGATGAAAATTTTTTAACCATTTCATATGAGATTTTAA
TAAAATTTTTTTAGGTCACATATCAAATTGGTGTTTTCATATCGAGATCATCAGTTAATG
TTGTTCATATTAAGCAAATTTGGATTATGGCTGTATTGCAAGGATTGAATGTTATTTTCT
TCATGTTTGAAGCTATTTATATGTTCACTCCAAGCATTTGGATTATTTTTGGACTGATTT
TGTTTGAAGGACTTTTAGGCGGTGGTGCTTATGTTAATACATTTTATAGAATGAGTCGTG
AAATTCCAGCAACTCGAAGAGAATATGCAATGTCTGTAGTTACATTATCTGATTCTCTTG
GAATAACACTTGCTGGGTTCCTTGCTATGCCAACACACAATTGGATCTGTAGCACACCAG
GACCAAGAATACCATAA
>g12695.t3 Gene=g12695 Length=174
MTSFASGLGEPTFLAYSAFFNKNVISTWSSGTGGAGIFGALAYSVLREIGLNNQQTMLVM
VSVPAAEFLTFFFLLSKPASKRIEDQHKGDKVVDDIPPMTSFKEKIIYIKQLLHFMIPLC
LVYLFEYYINQGLFEMAYFPENILDLDSKQQYRWYQVRDENFLTISYEILIKFF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g12695.t3 | PANTHER | PTHR10981 | BATTENIN | 2 | 158 | 3.3E-45 |
| 4 | g12695.t3 | PANTHER | PTHR10981:SF0 | BATTENIN | 2 | 158 | 3.3E-45 |
| 1 | g12695.t3 | Pfam | PF02487 | CLN3 protein | 1 | 87 | 4.2E-26 |
| 2 | g12695.t3 | Pfam | PF02487 | CLN3 protein | 98 | 157 | 8.5E-16 |
| 12 | g12695.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 24 | - |
| 14 | g12695.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 25 | 46 | - |
| 9 | g12695.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 47 | 57 | - |
| 13 | g12695.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 58 | 75 | - |
| 11 | g12695.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 76 | 106 | - |
| 15 | g12695.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 107 | 129 | - |
| 10 | g12695.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 130 | 174 | - |
| 8 | g12695.t3 | SUPERFAMILY | SSF103473 | MFS general substrate transporter | 24 | 126 | 7.32E-5 |
| 7 | g12695.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 24 | 46 | - |
| 5 | g12695.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 58 | 75 | - |
| 6 | g12695.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 107 | 129 | - |
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:0016020 | 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.
