General information for g2579.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g2579 is located on chr_3: 18830051..18830991 (- 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_3 | g2579 | g2579.t9 | TTS | g2579.t9 | 18829776 | 18829776 |
| chr_3 | g2579 | g2579.t9 | isoform | g2579.t9 | 18830051 | 18830843 |
| chr_3 | g2579 | g2579.t9 | exon | g2579.t9.exon1 | 18830051 | 18830843 |
| chr_3 | g2579 | g2579.t9 | cds | g2579.t9.CDS1 | 18830052 | 18830774 |
| chr_3 | g2579 | g2579.t9 | TSS | g2579.t9 | 18831095 | 18831095 |
Sequences
>g2579.t9 Gene=g2579 Length=793
AGTGAAAAAAGCGGCAGGGATTTGCTATCACAACGCAGAAGACCATATGATATAAAACGT
ACTATATCAATGAACTCAAATTCCAGTAATAATCGGAATAAAAATGAAATTTCATATGAG
GAAGATGAGGATAATGTTGAGGAACATCCAAAAATTATGTCGCGGGTCGTAAGCAGCAAA
GATAACAATTCCGCAATTACAAAACGTGAACAAGTCATCGCAATTCAGTCGCGAAAAAAT
GATCTCGAGAGGAATAAAAGGATGTTTGGCTGCTTATTGGGAACACTACAAAAATTTAGA
AAAGAAGAAAATTTTCTTAAATCAAAGGAAGAAAAAAAGGCCAAAATTGAAAGAAAACTT
GAAGAACAAGAGCAACTTGAAAAGATTAAAATTAAAGAAGAACGAGATGCATTAATAGCA
AATCGAAAGAGACAGCAATTAGAAGTGAAAATTCTCGAGACAAAAATGATTAAAATAAAA
GATTTAGCCGTTTATGAAGACAGCTATAAGCATTTAAGTAATTATGTTAAGACTGCAACC
AAACCATCAATTTTTTGGTTGCCCAAATTAATGACACCAAAAGTCTCAATGCTGCAAAAC
AAAACTAGCACTGAAATAAAAGATATGATTGAAGAGCGCAGAAAGCAAGTGGATGCAGAT
ATAAAGGACATTGAAAATCAAATTGATAAAGAGTGTGAATCAAATGACGATTACAACGAT
AAGAAATCCGCCAATAATCATAACAATAATTCTATATTAGAAAGTGAAAATGGTAGAGAA
CGGAAAGAGAATA
>g2579.t9 Gene=g2579 Length=241
MNSNSSNNRNKNEISYEEDEDNVEEHPKIMSRVVSSKDNNSAITKREQVIAIQSRKNDLE
RNKRMFGCLLGTLQKFRKEENFLKSKEEKKAKIERKLEEQEQLEKIKIKEERDALIANRK
RQQLEVKILETKMIKIKDLAVYEDSYKHLSNYVKTATKPSIFWLPKLMTPKVSMLQNKTS
TEIKDMIEERRKQVDADIKDIENQIDKECESNDDYNDKKSANNHNNNSILESENGRERKE
N
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g2579.t9 | Coils | Coil | Coil | 83 | 132 | - |
| 7 | g2579.t9 | Coils | Coil | Coil | 184 | 218 | - |
| 9 | g2579.t9 | Coils | Coil | Coil | 229 | 241 | - |
| 4 | g2579.t9 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 26 | - |
| 5 | g2579.t9 | MobiDBLite | mobidb-lite | consensus disorder prediction | 12 | 26 | - |
| 3 | g2579.t9 | MobiDBLite | mobidb-lite | consensus disorder prediction | 203 | 220 | - |
| 6 | g2579.t9 | MobiDBLite | mobidb-lite | consensus disorder prediction | 203 | 241 | - |
| 2 | g2579.t9 | PANTHER | PTHR12707 | PINN | 6 | 225 | 6.3E-33 |
| 1 | g2579.t9 | Pfam | PF04696 | pinin/SDK/memA/ protein conserved region | 60 | 178 | 7.9E-28 |
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 transcript has been annotated with K13114 (pinin)
Pathway
- This transcript belongs to the following pathways
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