General information for g16669.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16669 is located on chr_4: 10455839..10456858 (+ 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 | g16669 | g16669.t2 | TSS | g16669.t2 | 10446253 | 10446253 |
| chr_4 | g16669 | g16669.t2 | isoform | g16669.t2 | 10446413 | 10447421 |
| chr_4 | g16669 | g16669.t2 | exon | g16669.t2.exon1 | 10446413 | 10446750 |
| chr_4 | g16669 | g16669.t2 | exon | g16669.t2.exon2 | 10446807 | 10447421 |
| chr_4 | g16669 | g16669.t2 | cds | g16669.t2.CDS1 | 10446906 | 10447421 |
| chr_4 | g16669 | g16669.t2 | TTS | g16669.t2 | NA | NA |
Sequences
>g16669.t2 Gene=g16669 Length=953
ATGAAAGCTAAAAAGCGTGGAAAATTTCAAAAAATAAACTTTTGTGCAATTTTTCATCTT
TCAATTTTAATTTTTGTTTCAAAATTTAATAAAATTGAAGCAGTTGGTTCATGTGATAGA
ACAAGACAAGTTTTTGAAGGTGTGAATTATGGAGAAATCACTGATGGTCTCAATTCTAAT
TACACTCAAGTATGAAATAAAAATAAAAAATTTTAAAATTATTAATTTTATTTTCTTTTA
AGGATTCTCATTGCGAATGGTTGATAAAAGCCGAAAATAGTTCACAATTTATTACATTAA
AATTTCTATCACTTAAGACTGAATGTTCATATGACTATATTTTTATTTATGATGGAAATT
CATATTCATCATCGCCATTACTCGGAAGTTTCAGTGGTCAAACTGATCCACAAGATATTA
CAGCAACTTCCGGTTTTATGCTCATACTTTTATACAGTGATACAAATTACAATCTTGATG
GCTTCAGAGCGACATTTAGTATCACAAATTGTCTCAAAAATTGCTCATCAAATGGACTTT
GTGTAAATCATAAATGTCATTGCAATTCTGATTATTCTGGCAATGATTGTAGTGTAAAAA
TTTGTAAAAATTGTGCAAATGAAAAATTATCATCGAATGAGTCACAATGGGTGTGGATAA
CACAAAATTATAATAGTTTCACACCGAGAACAGCACACATTGCTATTTATGATGATGTCA
CAGATGCTGTTTACACATTTGGTGGTTATGACTTAAATAATATACTTGGAAAATTAGAAA
TTTATCAGTTTAATGATAGCAAATGGATTGATGAAGATGAAAAAGAAATTTCAATTGGAA
TAAAAAATGACAATGATGAATTTTGGTTTAGAGATGCTCTACTGGCTCATGTCAATTCAA
AAAGAAATAAAAGTAATTTAAATTTACATGAAAATGAAAAAATTCAAATCAGC
>g16669.t2 Gene=g16669 Length=172
MLILLYSDTNYNLDGFRATFSITNCLKNCSSNGLCVNHKCHCNSDYSGNDCSVKICKNCA
NEKLSSNESQWVWITQNYNSFTPRTAHIAIYDDVTDAVYTFGGYDLNNILGKLEIYQFND
SKWIDEDEKEISIGIKNDNDEFWFRDALLAHVNSKRNKSNLNLHENEKIQIS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g16669.t2 | Gene3D | G3DSA:2.60.120.260 | - | 18 | 55 | 2.20e-05 |
| 3 | g16669.t2 | PANTHER | PTHR10574 | NETRIN/LAMININ-RELATED | 1 | 58 | 0.00e+00 |
| 5 | g16669.t2 | PANTHER | PTHR10574:SF407 | - | 1 | 58 | 0.00e+00 |
| 2 | g16669.t2 | PANTHER | PTHR10574 | NETRIN/LAMININ-RELATED | 71 | 159 | 0.00e+00 |
| 4 | g16669.t2 | PANTHER | PTHR10574:SF407 | - | 71 | 159 | 0.00e+00 |
| 1 | g16669.t2 | Pfam | PF18720 | Tenascin EGF domain | 28 | 52 | 1.00e-07 |
| 6 | g16669.t2 | SUPERFAMILY | SSF117281 | Kelch motif | 69 | 124 | 1.57e-05 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005515 | protein binding | MF |
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