General information for g12695.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t1 | TTS | g12695.t1 | 25318873 | 25318873 |
| chr_1 | g12695 | g12695.t1 | isoform | g12695.t1 | 25318994 | 25321396 |
| chr_1 | g12695 | g12695.t1 | exon | g12695.t1.exon1 | 25318994 | 25319356 |
| chr_1 | g12695 | g12695.t1 | cds | g12695.t1.CDS1 | 25318994 | 25319356 |
| chr_1 | g12695 | g12695.t1 | exon | g12695.t1.exon2 | 25319414 | 25319975 |
| chr_1 | g12695 | g12695.t1 | cds | g12695.t1.CDS2 | 25319414 | 25319975 |
| chr_1 | g12695 | g12695.t1 | exon | g12695.t1.exon3 | 25320041 | 25320165 |
| chr_1 | g12695 | g12695.t1 | cds | g12695.t1.CDS3 | 25320041 | 25320165 |
| chr_1 | g12695 | g12695.t1 | exon | g12695.t1.exon4 | 25320224 | 25320401 |
| chr_1 | g12695 | g12695.t1 | cds | g12695.t1.CDS4 | 25320224 | 25320401 |
| chr_1 | g12695 | g12695.t1 | exon | g12695.t1.exon5 | 25321347 | 25321396 |
| chr_1 | g12695 | g12695.t1 | cds | g12695.t1.CDS5 | 25321347 | 25321396 |
| chr_1 | g12695 | g12695.t1 | TSS | g12695.t1 | 25321604 | 25321604 |
Sequences
>g12695.t1 Gene=g12695 Length=1278
ATGACAAAAAAAAGTTTCAATATTTTTCATATATCGAACGATGATTCAAGTGGAAACAAT
GTACATCGAACAAGTGATGTTGAGAAAATTGACAAAACACGAGTGGAACCGAGAAACAAT
TGGCGTGATCTTATAGCTTATTGGATATTCGGTTTATGCAATAATTTTGGATATGTAGTT
ATGCTTACAGCTGCAAAAGATATTTTACAAGAATTAGGATCATCTTCTGAAGTTCACCAT
GGCTCAAGCAATCGACCATGCAATCTTGTTTCAACTGGTGCTGTCTTACTTGCGGATGTT
ATTCCTGGTCTATGCATTAAATTTCTATCTCCTTTTCTTCCATTTTGGCATGCAACGCGA
ATTTCAATATCATGTTTAATAGCAATTGGAGGATTTATTGTAGTAGGGTTTGCAACTGAG
CAATGGATCGCATTGACGGGAGTAGCAATGACTTCTTTTGCATCAGGACTAGGCGAACCA
ACTTTCTTAGCTTATTCAGCATTCTTTAATAAAAATGTCATATCTACTTGGTCTTCTGGT
ACTGGTGGTGCTGGAATTTTCGGTGCCTTAGCATATTCAGTATTGCGTGAAATTGGTTTG
AATAATCAACAAACTATGCTCGTTATGGTGAGTGTGCCTGCTGCCGAATTCTTGACATTC
TTCTTCTTACTGTCAAAGCCTGCTAGTAAACGCATTGAAGACCAGCACAAGGGTGATAAA
GTTGTTGATGACATTCCACCGATGACATCATTCAAAGAAAAGATTATTTACATCAAACAG
CTGCTACATTTCATGATACCGCTCTGCTTAGTCTATCTCTTTGAGTATTATATCAATCAA
GGCTTATTTGAAATGGCTTATTTCCCAGAAAATATTCTTGATCTTGATAGCAAGCAACAA
TATCGATGGTATCAGGTCACATATCAAATTGGTGTTTTCATATCGAGATCATCAGTTAAT
GTTGTTCATATTAAGCAAATTTGGATTATGGCTGTATTGCAAGGATTGAATGTTATTTTC
TTCATGTTTGAAGCTATTTATATGTTCACTCCAAGCATTTGGATTATTTTTGGACTGATT
TTGTTTGAAGGACTTTTAGGCGGTGGTGCTTATGTTAATACATTTTATAGAATGAGTCGT
GAAATTCCAGCAACTCGAAGAGAATATGCAATGTCTGTAGTTACATTATCTGATTCTCTT
GGAATAACACTTGCTGGGTTCCTTGCTATGCCAACACACAATTGGATCTGTAGCACACCA
GGACCAAGAATACCATAA
>g12695.t1 Gene=g12695 Length=425
MTKKSFNIFHISNDDSSGNNVHRTSDVEKIDKTRVEPRNNWRDLIAYWIFGLCNNFGYVV
MLTAAKDILQELGSSSEVHHGSSNRPCNLVSTGAVLLADVIPGLCIKFLSPFLPFWHATR
ISISCLIAIGGFIVVGFATEQWIALTGVAMTSFASGLGEPTFLAYSAFFNKNVISTWSSG
TGGAGIFGALAYSVLREIGLNNQQTMLVMVSVPAAEFLTFFFLLSKPASKRIEDQHKGDK
VVDDIPPMTSFKEKIIYIKQLLHFMIPLCLVYLFEYYINQGLFEMAYFPENILDLDSKQQ
YRWYQVTYQIGVFISRSSVNVVHIKQIWIMAVLQGLNVIFFMFEAIYMFTPSIWIIFGLI
LFEGLLGGGAYVNTFYRMSREIPATRREYAMSVVTLSDSLGITLAGFLAMPTHNWICSTP
GPRIP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 37 | g12695.t1 | CDD | cd06174 | MFS | 121 | 409 | 1.37519E-6 |
| 14 | g12695.t1 | Gene3D | G3DSA:1.20.1250.20 | MFS general substrate transporter like domains | 17 | 242 | 8.2E-10 |
| 13 | g12695.t1 | Gene3D | G3DSA:1.20.1250.20 | MFS general substrate transporter like domains | 259 | 420 | 5.5E-6 |
| 2 | g12695.t1 | PANTHER | PTHR10981 | BATTENIN | 32 | 422 | 5.4E-140 |
| 3 | g12695.t1 | PANTHER | PTHR10981:SF0 | BATTENIN | 32 | 422 | 5.4E-140 |
| 36 | g12695.t1 | PIRSF | PIRSF015974 | CLN3_BTN1 | 31 | 423 | 9.2E-149 |
| 11 | g12695.t1 | PRINTS | PR01315 | CLN3 Batten’s disease protein (battenin) signature | 47 | 69 | 1.3E-82 |
| 10 | g12695.t1 | PRINTS | PR01315 | CLN3 Batten’s disease protein (battenin) signature | 95 | 111 | 1.3E-82 |
| 8 | g12695.t1 | PRINTS | PR01315 | CLN3 Batten’s disease protein (battenin) signature | 147 | 169 | 1.3E-82 |
| 4 | g12695.t1 | PRINTS | PR01315 | CLN3 Batten’s disease protein (battenin) signature | 177 | 197 | 1.3E-82 |
| 5 | g12695.t1 | PRINTS | PR01315 | CLN3 Batten’s disease protein (battenin) signature | 303 | 318 | 1.3E-82 |
| 9 | g12695.t1 | PRINTS | PR01315 | CLN3 Batten’s disease protein (battenin) signature | 328 | 340 | 1.3E-82 |
| 7 | g12695.t1 | PRINTS | PR01315 | CLN3 Batten’s disease protein (battenin) signature | 351 | 375 | 1.3E-82 |
| 6 | g12695.t1 | PRINTS | PR01315 | CLN3 Batten’s disease protein (battenin) signature | 388 | 417 | 1.3E-82 |
| 1 | g12695.t1 | Pfam | PF02487 | CLN3 protein | 45 | 418 | 1.5E-124 |
| 20 | g12695.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 44 | - |
| 32 | g12695.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 45 | 65 | - |
| 16 | g12695.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 66 | 85 | - |
| 33 | g12695.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 86 | 109 | - |
| 22 | g12695.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 110 | 114 | - |
| 27 | g12695.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 115 | 135 | - |
| 18 | g12695.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 136 | 141 | - |
| 29 | g12695.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 142 | 168 | - |
| 24 | g12695.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 169 | 173 | - |
| 35 | g12695.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 174 | 195 | - |
| 17 | g12695.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 196 | 206 | - |
| 30 | g12695.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 207 | 224 | - |
| 25 | g12695.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 225 | 255 | - |
| 34 | g12695.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 256 | 278 | - |
| 15 | g12695.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 279 | 326 | - |
| 28 | g12695.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 327 | 347 | - |
| 21 | g12695.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 348 | 352 | - |
| 26 | g12695.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 353 | 376 | - |
| 19 | g12695.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 377 | 387 | - |
| 31 | g12695.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 388 | 410 | - |
| 23 | g12695.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 411 | 425 | - |
| 12 | g12695.t1 | SUPERFAMILY | SSF103473 | MFS general substrate transporter | 22 | 411 | 2.09E-21 |
| 44 | g12695.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 44 | 65 | - |
| 40 | g12695.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 94 | 116 | - |
| 39 | g12695.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 123 | 145 | - |
| 38 | g12695.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 173 | 195 | - |
| 41 | g12695.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 207 | 224 | - |
| 46 | g12695.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 256 | 278 | - |
| 45 | g12695.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 327 | 349 | - |
| 42 | g12695.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 354 | 376 | - |
| 43 | g12695.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 389 | 411 | - |
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 transcript has been annotated with K12389 (battenin)
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.
