General information for g2579.t7
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.t7 | TTS | g2579.t7 | 18829776 | 18829776 |
| chr_3 | g2579 | g2579.t7 | isoform | g2579.t7 | 18829890 | 18830991 |
| chr_3 | g2579 | g2579.t7 | exon | g2579.t7.exon1 | 18829890 | 18829975 |
| chr_3 | g2579 | g2579.t7 | cds | g2579.t7.CDS1 | 18829890 | 18829975 |
| chr_3 | g2579 | g2579.t7 | exon | g2579.t7.exon2 | 18830042 | 18830991 |
| chr_3 | g2579 | g2579.t7 | cds | g2579.t7.CDS2 | 18830042 | 18830852 |
| chr_3 | g2579 | g2579.t7 | TSS | g2579.t7 | 18831095 | 18831095 |
Sequences
>g2579.t7 Gene=g2579 Length=1036
ATGGCTACAATAAGTGAACTTAATAGATCAACAGAGGAGAAACTTGATTTAGCGCGGGAA
AAGCTAAAAGATATTAATGAGAGACTTGGGAGGTAAGATTGCGACAAAAATTTGATTGAT
TCATTTACAACTAAAATCAATGATTTTTAGTGAAAAAAGCGGCAGGGATTTGCTATCACA
ACGCAGAAGACCATATGATATAAAACGTACTATATCAATGAACTCAAATTCCAGTAATAA
TCGGAATAAAAATGAAATTTCATATGAGGAAGATGAGGATAATGTTGAGGAACATCCAAA
AATTATGTCGCGGGTCGTAAGCAGCAAAGATAACAATTCCGCAATTACAAAACGTGAACA
AGTCATCGCAATTCAGTCGCGAAAAAATGATCTCGAGAGGAATAAAAGGATGTTTGGCTG
CTTATTGGGAACACTACAAAAATTTAGAAAAGAAGAAAATTTTCTTAAATCAAAGGAAGA
AAAAAAGGCCAAAATTGAAAGAAAACTTGAAGAACAAGAGCAACTTGAAAAGATTAAAAT
TAAAGAAGAACGAGATGCATTAATAGCAAATCGAAAGAGACAGCAATTAGAAGTGAAAAT
TCTCGAGACAAAAATGATTAAAATAAAAGATTTAGCCGTTTATGAAGACAGCTATAAGCA
TTTAAGTAATTATGTTAAGACTGCAACCAAACCATCAATTTTTTGGTTGCCCAAATTAAT
GACACCAAAAGTCTCAATGCTGCAAAACAAAACTAGCACTGAAATAAAAGATATGATTGA
AGAGCGCAGAAAGCAAGTGGATGCAGATATAAAGGACATTGAAAATCAAATTGATAAAGA
GTGTGAATCAAATGACGATTACAACGATAAGAAATCCGCCAATAATCATAACAATAATTC
TATATTAGAAAGTGAAAATGGTAGAGAACGGAAAGAGAATAATGAAAAAGTGAAAAGAAG
GAGAGAGAGTAAAAGCTGTTCACCAGAAATTAAAAAGAGAGTATGTTCGCAAGTAGTAGT
CAAAAATAAAGACTAA
>g2579.t7 Gene=g2579 Length=298
MIFSEKSGRDLLSQRRRPYDIKRTISMNSNSSNNRNKNEISYEEDEDNVEEHPKIMSRVV
SSKDNNSAITKREQVIAIQSRKNDLERNKRMFGCLLGTLQKFRKEENFLKSKEEKKAKIE
RKLEEQEQLEKIKIKEERDALIANRKRQQLEVKILETKMIKIKDLAVYEDSYKHLSNYVK
TATKPSIFWLPKLMTPKVSMLQNKTSTEIKDMIEERRKQVDADIKDIENQIDKECESNDD
YNDKKSANNHNNNSILESENGRERKENNEKVKRRRESKSCSPEIKKRVCSQVVVKNKD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g2579.t7 | Coils | Coil | Coil | 109 | 158 | - |
| 8 | g2579.t7 | Coils | Coil | Coil | 210 | 244 | - |
| 4 | g2579.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 50 | - |
| 3 | g2579.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 23 | 37 | - |
| 5 | g2579.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 231 | 283 | - |
| 7 | g2579.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 231 | 246 | - |
| 6 | g2579.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 257 | 283 | - |
| 2 | g2579.t7 | PANTHER | PTHR12707 | PINN | 29 | 278 | 1.0E-33 |
| 1 | g2579.t7 | Pfam | PF04696 | pinin/SDK/memA/ protein conserved region | 86 | 204 | 1.3E-27 |
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.
