General information for g11304.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11304 is located on chr_1: 15504636..15506200 (- 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 | g11304 | g11304.t12 | TTS | g11304.t12 | 15503334 | 15503334 |
| chr_1 | g11304 | g11304.t12 | isoform | g11304.t12 | 15503786 | 15506200 |
| chr_1 | g11304 | g11304.t12 | exon | g11304.t12.exon1 | 15503786 | 15504567 |
| chr_1 | g11304 | g11304.t12 | cds | g11304.t12.CDS1 | 15503788 | 15504567 |
| chr_1 | g11304 | g11304.t12 | exon | g11304.t12.exon2 | 15504646 | 15504858 |
| chr_1 | g11304 | g11304.t12 | cds | g11304.t12.CDS2 | 15504646 | 15504840 |
| chr_1 | g11304 | g11304.t12 | exon | g11304.t12.exon3 | 15506147 | 15506200 |
| chr_1 | g11304 | g11304.t12 | TSS | g11304.t12 | 15506200 | 15506200 |
Sequences
>g11304.t12 Gene=g11304 Length=1049
GATTGAGTGTACCGATTATTCTGTGTGAATTGTAATTTTTATTTTAAATTAATTTTTACA
AGAGCATGTAAAATGGATCTGCAGGTTTATGCAATTATTTTGATCGTATTTTTGGTGTCA
TTTTTGTCATATTTGTTCATATCAAGATTCTTGCCACATGGTAAGACATTTGATGAAATG
ATTGCTGAGAAGAAAAGAATGCGTGAGGAAGTTCTTGGAACATTGAAATCATCAAGTGGA
AAGCAAAATAATGCAACAAAAAAGAAAAAGGAGGTTCAATTGAAAGTTGTTAAAGAAGTA
ACAAGCAATGAGTCAGATGTGTCTGAAGAATCTGAAGTAAATCGATCAGAACCTGCAACT
CCACCAGAAATTCCACGTAAGCAGCAGGTGACTAACAAGACGCAAGTTAGTAGTCATAAC
AAGAAAGGTAATGGAAAAGGAAAGAGTGGTATATTGGTAAATAAGAATGAACCCTTAATG
GTCAAGGAACTTGAAGCTGTTGAAGAAAGCAATCATTTTGTTGAAATACATCCAAAAGAT
GCAATTGAGATTCATCGTGGAAAAGAAGAAGAGCAAAAGAGTACTAAGAATTTCAGAGAA
AACAAAAAATCTCACAAACAGCAGCAATCACAGCAACAAGTTATTAAAGAAACACCTCCG
GTTTCTCCGAAAAAAATTCAATCAGTTAAAGAAGTCAAGGTGAACGATGAAAAGATCATT
AAAAAGAAAAAATCTGAACAATTGAATTCTCCTATGTCGAAGACTGTTACTGATGGAAAT
TCAGTGCATATGGTTATTGATGAAACCGGAATATCTCCATTAATTCGTGAATTAAGCCGT
GCAGATTTAACAAAGAATCAAATTCAAGTTTTGATCGATTTCCTTCTCAACAAGCAATCA
GATACGACTGCAAAAGATCCGACTGAGTGGACCGAAGGAAAATCTGATATAAATCAAAAA
TTGAGGAAACAGCTTCAAGAAAAAGAAGCTCAGTTAAAAAATGAACAAGATGCGTTGTCT
GGTATGCAAATTAAGTTGAAAGAGTTGCG
>g11304.t12 Gene=g11304 Length=325
MDLQVYAIILIVFLVSFLSYLFISRFLPHGKTFDEMIAEKKRMREEVLGTLKSSSGKQNN
ATKKKKEVQLKVVKEVTSNESDVSEESEVNRSEPATPPEIPRKQQVTNKTQVSSHNKKGN
GKGKSGILVNKNEPLMVKELEAVEESNHFVEIHPKDAIEIHRGKEEEQKSTKNFRENKKS
HKQQQSQQQVIKETPPVSPKKIQSVKEVKVNDEKIIKKKKSEQLNSPMSKTVTDGNSVHM
VIDETGISPLIRELSRADLTKNQIQVLIDFLLNKQSDTTAKDPTEWTEGKSDINQKLRKQ
LQEKEAQLKNEQDALSGMQIKLKEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g11304.t12 | Coils | Coil | Coil | 164 | 184 | - |
| 8 | g11304.t12 | Coils | Coil | Coil | 294 | 321 | - |
| 5 | g11304.t12 | MobiDBLite | mobidb-lite | consensus disorder prediction | 76 | 130 | - |
| 6 | g11304.t12 | MobiDBLite | mobidb-lite | consensus disorder prediction | 101 | 120 | - |
| 3 | g11304.t12 | MobiDBLite | mobidb-lite | consensus disorder prediction | 154 | 182 | - |
| 4 | g11304.t12 | MobiDBLite | mobidb-lite | consensus disorder prediction | 154 | 206 | - |
| 1 | g11304.t12 | PANTHER | PTHR18939 | RIBOSOME BINDING PROTEIN-1 | 12 | 325 | 1.1E-16 |
| 10 | g11304.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 11 | g11304.t12 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 23 | - |
| 9 | g11304.t12 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 24 | 325 | - |
| 2 | g11304.t12 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 5 | 27 | - |
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:0030176 | integral component of endoplasmic reticulum 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.
