General information for g16541.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16541 is located on chr_4: 9864531..9869096 (+ 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_4 | g16541 | g16541.t3 | TSS | g16541.t3 | 9860594 | 9860594 |
| chr_4 | g16541 | g16541.t3 | isoform | g16541.t3 | 9860780 | 9863227 |
| chr_4 | g16541 | g16541.t3 | exon | g16541.t3.exon1 | 9860780 | 9862898 |
| chr_4 | g16541 | g16541.t3 | cds | g16541.t3.CDS1 | 9860780 | 9861100 |
| chr_4 | g16541 | g16541.t3 | exon | g16541.t3.exon2 | 9863131 | 9863227 |
| chr_4 | g16541 | g16541.t3 | TTS | g16541.t3 | NA | NA |
Sequences
>g16541.t3 Gene=g16541 Length=2216
ATGGAAAAAGTCATCAAAAATACAACATACACGAATCATTTACCGCGTGGATATTTTAAA
AAACGAAAACCACCTGATGAAATTATATCAAGTGACGAAACAAGTTCATCATCAATGCAT
ATAAATAGTTACAGTAGTCTAAGTTGTAGATTTAGTGATAATCGATATGTAAATAAATTT
TTTCAATTATGCACATTTTTAATATTAACTACTGTTCTTGGTGTAAACGCAAATGACGAA
TTACGACTAAGACGAGCTATTGAGAATTTTTCACAAACAACGCCAACACCATTAACATTG
CCTAATGATGGAAGTAAGTAGAAATTTCTTCATTTTAATATTCATGATTTAAAATTAAAT
AAAAAAATTTCAATTGTTTTTAATATGTGTGAACTTATGGAAAAATTTATTTTTAAGTAA
AAAACCATTATGATTTATCAAAATGAAACAATGGGAAATCCAAGGCCTAGAACTCTTTTT
GTTATTCCCATCAAAATATCTTTTTTTGGATAAAAAATTTATAAATGGACTTTTTTAAAA
ACTACTACAGTTTTAAAACGATAACACAAAACTATGTAGTCCTTTCTGATTTTTATTTCT
TATGCTCATAGCTTTATCGTTAAAATTTTTATGTTCTTAATAAGCGAGAAAATCATGATA
TCAAAAATAACAAAAAAATATGAAGAGTTCTCAGGCCTTTGGGTTTTTACTTCCACGCTT
ACGCATGGAAGAATTAAGATTAAGATTTGATTTTTCCTGGGTGGAGTAATTGCCAACTCA
CAGATTACGTAGACTGAACAGTCTTTTGTGAGCTAATCCTGGCACACGATAGCGATCGAG
TTGACTATATAAGAAATTTTTTGAAATTAATTATAAAACTGTTTTTGAATCTTAAATATT
TTATGGTTCAATGAAGTTTTAAATTTATTTTTATTATTCAATTTAATTAAAAGTTTTCAA
AATAAATTTTAACATTAAATTATATTTTAAAATGCCGACTTTAAAGAGAATACAAATCAA
ATCTTTTTTAGTTTTTGACTTGATTCTCTAGCAATGTGAAGCATGGAGAAAAATTTAAGA
ATTTATTACTCGCATTTTTTAGTCTCAAAAATTTTATCAATATTTTACATTTTGTAGAGC
TGTTAGAAGTTGTGCTACATAATTAAGAATTAGTTGAAACTTTTTTGACTTCATTTTTTA
AAATAATTTTTTAAAACAGCATTTGACATTAACTAGTGCAGTTTATTATACGAAAAAAAA
TTTAGTAAAATTTTTGAGATTTGTTCCTATAAAGTCAAATTTATTAGCCATAAAAAGAAA
TTTTACAAGTGTTATAAATTTTTATGACAGTTATGACAAAATTTCACTGTTATAAAACTT
TTACAACTGTCATAAAAAAAATTTATAACAATTAAAAATTTTCTTTTTAAGGCTAATAAA
TTTGACTTTATAACGACAAATCTCAAAAACTTAATGTCATTTAGAAATTATTTTTCTCTG
TGTAGAATTGTCTTCATTAATCACTTTAATTTCAAAAATTGCTTCAAATGCTCAAAAGTA
AAATTTTAAAGTTTAGTGTCAATGAAATTTTTAAAGAAAAGATTATTCATGTCATCTTTG
ATTTCTTCTTTTACCTTTGTAACAATGCAATGATTTCATTTCCTTAATAAATTAGTAAAT
ATCTAAAGAAAAATTTTAATATCTACTTCGCATTTCTCCAATAATAAATGTGTAACTTAC
TAATTGTAAAGTTCATGGAAATACGACATTTGCATGCGACTACGAGAGTAACGACGCAAT
TTGCAGTTTGTTTTCTAATGCAAGTATTTCTTTCTTTTTATTTATTATTATTGACATTGA
AATTTATCGCAATTTGCAGTGACTACTTTTACTTAGTTATAAATCATAAGGTGATTAGTT
TTAAAAAATTTCTTAACTTATTTGAAAAAATACTTTAGAATGTGTCAAACTTAATTTATC
GTGATAAAAATCAGAACAACAGGGCCACAAAGTCAGACGAAAATTAAATAAATATGTTGC
TTTAAATCGTCTCATGTCGCGGCAATCGTTAGTGACCACATTGCTATGATTTGACTCTTA
AATAGTCTCGCCTCGAACTTTTTGTCTTCAATTTTCTTGACTAATTTAGGAAATATTCAA
ATGAATAAATAATTTAAATTCACATCTCAAATTACGCTTGTAAACTTACAAAATGC
>g16541.t3 Gene=g16541 Length=106
MEKVIKNTTYTNHLPRGYFKKRKPPDEIISSDETSSSSMHINSYSSLSCRFSDNRYVNKF
FQLCTFLILTTVLGVNANDELRLRRAIENFSQTTPTPLTLPNDGSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g16541.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 16 | 40 | - |
| 3 | g16541.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 59 | - |
| 4 | g16541.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 60 | 77 | - |
| 2 | g16541.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 78 | 106 | - |
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.
