General information for g12499.t4
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.t4 | isoform | g12499.t4 | 24011380 | 24014215 |
| chr_1 | g12499 | g12499.t4 | exon | g12499.t4.exon1 | 24011380 | 24011441 |
| chr_1 | g12499 | g12499.t4 | exon | g12499.t4.exon2 | 24013414 | 24013570 |
| chr_1 | g12499 | g12499.t4 | exon | g12499.t4.exon3 | 24013637 | 24014025 |
| chr_1 | g12499 | g12499.t4 | cds | g12499.t4.CDS1 | 24013702 | 24014025 |
| chr_1 | g12499 | g12499.t4 | exon | g12499.t4.exon4 | 24014081 | 24014215 |
| chr_1 | g12499 | g12499.t4 | cds | g12499.t4.CDS2 | 24014081 | 24014215 |
| chr_1 | g12499 | g12499.t4 | TSS | g12499.t4 | NA | NA |
| chr_1 | g12499 | g12499.t4 | TTS | g12499.t4 | NA | NA |
Sequences
>g12499.t4 Gene=g12499 Length=743
ATGTCGAAGCCCGAGAATGTTTTAATAATTGATCCGGCTCAAGAGCTGAAGTTTCGAGGT
AAGCCCATTCACACAGCCTGTGACTTCACATATGAGTCTGAAAAATCCTACTGACAAAAA
AATCGCATTCAAGATTAAAACAACAGCTCCGAAAAAATATTGTGTACGTCCTAATTGTGG
AGTGGTTGAACCAAAAAGCTCTGTGGAAATTGCTAGTAATTTGCCTGCAACCATTTGTAT
ATGATCCAAATGAGAAGAATAAGCATAAATTTATGGTACAATCAATGGTTGTTCCAGAGG
GTGAAATTAATATTGAGCAATTATGGAAGGATGTAAGTCCTGAGCAGTTAATGGATGCAA
AATTACGTTGCACATTTGAGACACCGAATGAGAAAGTCAGTGAAAAGAGCAGTGTTAGTC
AATTAACAACGCAAATGATTCAAAATGAAGCGACTTTGTCAGACTCGCAACTGAAAACAG
CTGTTGGAACATCTATTGTTGATTCCAGCAATAAACCAAGTGATGTTGATTTTGTTAGAG
CAACTGCTGAAGTACGAGATCTTCGTGAGGAGAACAGCAAAATGCATCAAGAAAATTTGG
AACTAAAGGAGCAAATTATTCGTTTGAAAGCTATGGTAGATAACCAAAAGGATACAACAA
GTTCATCACCATCAGCTAAAATTATTTCAAATCCTTATTCACCACCACAACTTGGACAGC
AGCAACAAATGCCCATTATATGG
>g12499.t4 Gene=g12499 Length=153
MVVPEGEINIEQLWKDVSPEQLMDAKLRCTFETPNEKVSEKSSVSQLTTQMIQNEATLSD
SQLKTAVGTSIVDSSNKPSDVDFVRATAEVRDLREENSKMHQENLELKEQIIRLKAMVDN
QKDTTSSSPSAKIISNPYSPPQLGQQQQMPIIW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g12499.t4 | Coils | Coil | Coil | 83 | 124 | - |
| 2 | g12499.t4 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 1 | 36 | 1.4E-5 |
| 1 | g12499.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 120 | 153 | - |
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. There were no conditions that were differentially expressed