General information for g16541.t12
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.t12 | isoform | g16541.t12 | 9864531 | 9865826 |
| chr_4 | g16541 | g16541.t12 | exon | g16541.t12.exon1 | 9864531 | 9864833 |
| chr_4 | g16541 | g16541.t12 | cds | g16541.t12.CDS1 | 9864790 | 9864833 |
| chr_4 | g16541 | g16541.t12 | exon | g16541.t12.exon2 | 9864890 | 9865037 |
| chr_4 | g16541 | g16541.t12 | cds | g16541.t12.CDS2 | 9864890 | 9865037 |
| chr_4 | g16541 | g16541.t12 | exon | g16541.t12.exon3 | 9865116 | 9865268 |
| chr_4 | g16541 | g16541.t12 | cds | g16541.t12.CDS3 | 9865116 | 9865268 |
| chr_4 | g16541 | g16541.t12 | exon | g16541.t12.exon4 | 9865622 | 9865826 |
| chr_4 | g16541 | g16541.t12 | cds | g16541.t12.CDS4 | 9865622 | 9865639 |
| chr_4 | g16541 | g16541.t12 | TSS | g16541.t12 | NA | NA |
| chr_4 | g16541 | g16541.t12 | TTS | g16541.t12 | NA | NA |
Sequences
>g16541.t12 Gene=g16541 Length=809
GGTAAAAAATATTTTTAAAAATTTTATATTTTATTTTAAAATTTAAAGAAATCTGAAAAT
GAAAGTCTAGAATTTTTAGAAATTTTGAACCATTTTAAAAATTTTTGAGAATCGTTCAAA
AATTTAAAAAAAATTCTTAAAATTTTCAGCTTTTTCTTAATCAAAATAATTTACAATTAA
AAAAATTCAATTCCACAGAAAAACAAACTTCCAGCTCACTGTCCAAACTGTCCTAACGAT
AAATGCAGCAAATCAATAGATGGAAAAAATACATACTGTTGGAATATCGAACACTGTCAA
AGAACCAAATACTCAAACATGTTGCGATCCTAGTTGCATTGGTGGATGTGAAGATGATAA
ACCAAAAAATTGCTTTGCATGTCGAAAATTTGCTCTAGGAAATTATCCAAATATGCAATG
TTTAGACAAATGTCCTAATAATACTTATGCTTACCTCGATCGACGATGCTTAACAAAAGA
TCAATGTTATGACCTCAATACAGCAACTGCAACGGACAGCAGTGTCAAAAATCCTGATGC
ACTGTTTATTCCTTTTGAAAATGAATGTCGAAAAGATTGTCCACAAAATTATACAAAAGT
CAACACAAGAACTTTGGGATGAATCACATCGAATCGAAATTGTTCAAGGAAAACTTTTCT
TTCATTTTAATCCAAAACTTTGTTTTTATAAAATTGAACAATTGGCAAATAAAAGTGCAG
ATGGAAGGAAAAATCCAACAGAAATGATAGAAAATTATGATACAGCAAAAATTTCAAATG
GTGACAAAACTCCATGCAATGTCACGCCT
>g16541.t12 Gene=g16541 Length=120
MEKIHTVGISNTVKEPNTQTCCDPSCIGGCEDDKPKNCFACRKFALGNYPNMQCLDKCPN
NTYAYLDRRCLTKDQCYDLNTATATDSSVKNPDALFIPFENECRKDCPQNYTKVNTRTLG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g16541.t12 | CDD | cd00064 | FU | 21 | 69 | 0.0030695 |
| 4 | g16541.t12 | Gene3D | G3DSA:2.10.220.10 | Hormone Receptor | 8 | 119 | 0.0000000 |
| 1 | g16541.t12 | Pfam | PF00757 | Furin-like cysteine rich region | 17 | 116 | 0.0000000 |
| 3 | g16541.t12 | SMART | SM00261 | furin_3 | 18 | 64 | 0.0000001 |
| 2 | g16541.t12 | SUPERFAMILY | SSF57184 | Growth factor receptor domain | 19 | 116 | 0.0000000 |
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