General information for g12499.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g12499 is located on chr_1: 24016098..24016328 (+ 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 | g12499 | g12499.t12 | isoform | g12499.t12 | 24013644 | 24015282 |
| chr_1 | g12499 | g12499.t12 | exon | g12499.t12.exon1 | 24013644 | 24014025 |
| chr_1 | g12499 | g12499.t12 | cds | g12499.t12.CDS1 | 24013690 | 24014025 |
| chr_1 | g12499 | g12499.t12 | exon | g12499.t12.exon2 | 24014081 | 24015282 |
| chr_1 | g12499 | g12499.t12 | cds | g12499.t12.CDS2 | 24014081 | 24014275 |
| chr_1 | g12499 | g12499.t12 | TSS | g12499.t12 | NA | NA |
| chr_1 | g12499 | g12499.t12 | TTS | g12499.t12 | NA | NA |
Sequences
>g12499.t12 Gene=g12499 Length=1584
GCAACCATTTGTATATGATCCAAATGAGAAGAATAAGCATAAATTTATGGTACAATCAAT
GGTTGTTCCAGAGGGTGAAATTAATATTGAGCAATTATGGAAGGATGTAAGTCCTGAGCA
GTTAATGGATGCAAAATTACGTTGCACATTTGAGACACCGAATGAGAAAGTCAGTGAAAA
GAGCAGTGTTAGTCAATTAACAACGCAAATGATTCAAAATGAAGCGACTTTGTCAGACTC
GCAACTGAAAACAGCTGTTGGAACATCTATTGTTGATTCCAGCAATAAACCAAGTGATGT
TGATTTTGTTAGAGCAACTGCTGAAGTACGAGATCTTCGTGAGGAGAACAGCAAAATGCA
TCAAGAAAATTTGGAACTAAAGGAGCAAATTATTCGTTTGAAAGCTATGGTAGATAACCA
AAAGGATACAACAAGTTCATCACCATCAGCTAAAATTATTTCAAATCCTTATTCACCACC
ACAACTTGGACAGCAGCAACAAATGCCCATTATATGGGTGATTGCAGCTGTTGCAATGGC
CATTTTCGGTTTGATCCTTGGCAAATTTGTCCTTTGAACGCATTAAGACTACAAAGCATG
AAAAGCATACAGCAAACACAAGCAACAAGAAAAATGAATGATAAAAAAAATATAAAAAAG
TAGCTCATCGTTTTTATTTCCAGCCAATGTGTCCAATTATGTGACAATTAATTATTCTTG
TGGAGAGACATATGATGATGATGGTATAAAAATTAAAGTGTTGGGATGGGCGTAAAGAAT
CATAATTTACATTAAAGATTTTTCCTAAAAACAAACATTATTACGACAGAAAGTTAAACT
GTGGTCAAAACCAATAATGTAATGTCATATATTTCTTTTCAATTAGAAAATTGTATTTAA
TGAAAAATTTTGAAACTATAAAATATAACTCATCAATTGGATTGAATGATTCTTCTTTCA
GAAGTGATTCATTCTCTCTCTCTCTCCTTTCCTTTCCATAATCTTTTTATTTTATTAAAA
GAAAAATAAAAATAATGAGTAAAAAAGTCAAACTTAATATAAAGAAAACATATATATAAA
AAAATAGAGAGCAGGTTCATTTAATTAATTATTTAATCCATTAATGTTACACACAAATTC
ACTCATAAAAGAGAAGAAAAGAAATTATCGCATTCATTTATGGATGATAATTTGAAAAGT
AAACGAATTACTTTTAATTGTTGCTTTATTGTTTCTTCTAATTTTGCAAGTTGCTATAAT
TCTTTTCCTTTCTCTAATATCATCATCTTATGTGTTTTTATACAAAAGAAAAATTTATAT
TTTTTTGTGTCAAATTTTTATGTTATAATTTTTTTATATAATTTCTAAATGAATGAAAGA
AATCCGTACGTCAAAAAACAATTTAAATGATAAAAAAAGTATAAAAACCAAGCATGTTAA
AGTCAAAACTATTAAGAAATTCACCAAAGTGAGACTTATGTGTACACTATTAATGCAATA
GCATTATTACACATTAAGTTCTCACTATGAGTGAATAATATAAGAAAAAAATTTACATTA
TTTGATGGGGGGGTGGATGTTGAA
>g12499.t12 Gene=g12499 Length=176
MVQSMVVPEGEINIEQLWKDVSPEQLMDAKLRCTFETPNEKVSEKSSVSQLTTQMIQNEA
TLSDSQLKTAVGTSIVDSSNKPSDVDFVRATAEVRDLREENSKMHQENLELKEQIIRLKA
MVDNQKDTTSSSPSAKIISNPYSPPQLGQQQQMPIIWVIAAVAMAIFGLILGKFVL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12499.t12 | Coils | Coil | Coil | 87 | 128 | - |
| 3 | g12499.t12 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 1 | 40 | 2.1E-8 |
| 6 | g12499.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 154 | - |
| 7 | g12499.t12 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 155 | 175 | - |
| 5 | g12499.t12 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 176 | 176 | - |
| 2 | g12499.t12 | SUPERFAMILY | SSF49354 | PapD-like | 1 | 40 | 5.23E-5 |
| 1 | g12499.t12 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 153 | 175 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
