General information for g12499.t8
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.t8 | isoform | g12499.t8 | 24011380 | 24014781 |
| chr_1 | g12499 | g12499.t8 | exon | g12499.t8.exon1 | 24011380 | 24011437 |
| chr_1 | g12499 | g12499.t8 | exon | g12499.t8.exon2 | 24013414 | 24013553 |
| chr_1 | g12499 | g12499.t8 | exon | g12499.t8.exon3 | 24013637 | 24014025 |
| chr_1 | g12499 | g12499.t8 | cds | g12499.t8.CDS1 | 24013702 | 24014025 |
| chr_1 | g12499 | g12499.t8 | exon | g12499.t8.exon4 | 24014081 | 24014781 |
| chr_1 | g12499 | g12499.t8 | cds | g12499.t8.CDS2 | 24014081 | 24014275 |
| chr_1 | g12499 | g12499.t8 | TSS | g12499.t8 | NA | NA |
| chr_1 | g12499 | g12499.t8 | TTS | g12499.t8 | NA | NA |
Sequences
>g12499.t8 Gene=g12499 Length=1288
ATGTCGAAGCCCGAGAATGTTTTAATAATTGATCCGGCTCAAGAGCTGAAGTTTCGAGGC
CCATTCACACAGCCTGTGACTTCACATATGAGTCTGAAAAATCCTACTGACAAAAAAATC
GCATTCAAGATTAAAACAACAGCTCCGAAAAAATATTGTGTACGTCCTAATTGTGGAGTG
GTTGAACCAAAAAGCTCTTTTGCCTGCAACCATTTGTATATGATCCAAATGAGAAGAATA
AGCATAAATTTATGGTACAATCAATGGTTGTTCCAGAGGGTGAAATTAATATTGAGCAAT
TATGGAAGGATGTAAGTCCTGAGCAGTTAATGGATGCAAAATTACGTTGCACATTTGAGA
CACCGAATGAGAAAGTCAGTGAAAAGAGCAGTGTTAGTCAATTAACAACGCAAATGATTC
AAAATGAAGCGACTTTGTCAGACTCGCAACTGAAAACAGCTGTTGGAACATCTATTGTTG
ATTCCAGCAATAAACCAAGTGATGTTGATTTTGTTAGAGCAACTGCTGAAGTACGAGATC
TTCGTGAGGAGAACAGCAAAATGCATCAAGAAAATTTGGAACTAAAGGAGCAAATTATTC
GTTTGAAAGCTATGGTAGATAACCAAAAGGATACAACAAGTTCATCACCATCAGCTAAAA
TTATTTCAAATCCTTATTCACCACCACAACTTGGACAGCAGCAACAAATGCCCATTATAT
GGGTGATTGCAGCTGTTGCAATGGCCATTTTCGGTTTGATCCTTGGCAAATTTGTCCTTT
GAACGCATTAAGACTACAAAGCATGAAAAGCATACAGCAAACACAAGCAACAAGAAAAAT
GAATGATAAAAAAAATATAAAAAAGTAGCTCATCGTTTTTATTTCCAGCCAATGTGTCCA
ATTATGTGACAATTAATTATTCTTGTGGAGAGACATATGATGATGATGGTATAAAAATTA
AAGTGTTGGGATGGGCGTAAAGAATCATAATTTACATTAAAGATTTTTCCTAAAAACAAA
CATTATTACGACAGAAAGTTAAACTGTGGTCAAAACCAATAATGTAATGTCATATATTTC
TTTTCAATTAGAAAATTGTATTTAATGAAAAATTTTGAAACTATAAAATATAACTCATCA
ATTGGATTGAATGATTCTTCTTTCAGAAGTGATTCATTCTCTCTCTCTCTCCTTTCCTTT
CCATAATCTTTTTATTTTATTAAAAGAAAAATAAAAATAATGAGTAAAAAAGTCAAACTT
AATATAAAGAAAACATATATATAAAAAA
>g12499.t8 Gene=g12499 Length=172
MVVPEGEINIEQLWKDVSPEQLMDAKLRCTFETPNEKVSEKSSVSQLTTQMIQNEATLSD
SQLKTAVGTSIVDSSNKPSDVDFVRATAEVRDLREENSKMHQENLELKEQIIRLKAMVDN
QKDTTSSSPSAKIISNPYSPPQLGQQQQMPIIWVIAAVAMAIFGLILGKFVL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g12499.t8 | Coils | Coil | Coil | 83 | 124 | - |
| 2 | g12499.t8 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 1 | 36 | 1.7E-5 |
| 5 | g12499.t8 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 150 | - |
| 6 | g12499.t8 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 151 | 171 | - |
| 4 | g12499.t8 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 172 | 172 | - |
| 1 | g12499.t8 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 149 | 171 | - |
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.
