General information for g8254.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein aubergine.
Parent gene
- The parent gene g8254 is located on chr_2: 29355791..29357045 (- 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_2 | g8254 | g8254.t2 | isoform | g8254.t2 | 29355126 | 29357045 |
| chr_2 | g8254 | g8254.t2 | exon | g8254.t2.exon1 | 29355126 | 29355450 |
| chr_2 | g8254 | g8254.t2 | cds | g8254.t2.CDS1 | 29355128 | 29355450 |
| chr_2 | g8254 | g8254.t2 | exon | g8254.t2.exon2 | 29355516 | 29355727 |
| chr_2 | g8254 | g8254.t2 | cds | g8254.t2.CDS2 | 29355516 | 29355727 |
| chr_2 | g8254 | g8254.t2 | exon | g8254.t2.exon3 | 29355788 | 29356608 |
| chr_2 | g8254 | g8254.t2 | cds | g8254.t2.CDS3 | 29355788 | 29356599 |
| chr_2 | g8254 | g8254.t2 | exon | g8254.t2.exon4 | 29356824 | 29357045 |
| chr_2 | g8254 | g8254.t2 | TSS | g8254.t2 | 29357045 | 29357045 |
| chr_2 | g8254 | g8254.t2 | TTS | g8254.t2 | NA | NA |
Sequences
>g8254.t2 Gene=g8254 Length=1580
ATTCGTCTTTAGTCTCTTGACCAGTACAGTTTATATATAAATTTTTTCGTTTTATTAAGT
TTGATTATCATTTCTAACGACAAATTTGTGCTATTTAATAATTGCAAAATTAAAATAAGT
AGATGAAAAGTAAAAAATCTTCAAGTTTGATTGATAATTTTTTCATATTTTGATTACAAT
AAAAATCTACTTGGTGATCTCAAAAAAATTTACCGGCATAAGTGAAATAAAATGAGTAAT
TATGATCAGTATAGAGGACGTCGAGGTGGTCACAGTGGAAATTCTGATAGAAATTATGAG
CGAGAGAGAAGCAATCATTATCCAGATTATAGTAGAAACAGAGATAATAGTAGCAATAGA
GACTCTAATAGAAGAAATGAAGACAGAGGAAACGAATTTGGTCGTGGTTATGATTCAAGC
CGTAAAAGATTTCATGATGATGGTCCAAGTACATCAGGTACTTATCGTGGAAATTTTTCA
AAACGTGGCAGAGGTGGAAGAGGAGGCAGAGGCAGTGGAAACAAAAAAGATCCACGTCCA
GAATTCCCAAGTGAAATCGATTCTCGTCCTAAAAATTTCACAGAAAAAGTCGCTTCTTAT
AATCAGGGAGATGAAAGTGTTACACTCGTTACCAATTATTTTGAATTTAATTTGAGAAAA
TTCAGATCAAAAATTATTGTCACTATGTGCTTTGTTGATTTTAATCCTATGGTTGCGAAT
AAATGGGAGAAGAGTTATTTGATTGCTCAACATAAGGCACGACTGGGAACATATGTTTAC
GATAATTCTGCTTCTATTTATCTTGCACAGCCTCTTGAAAAAGGTGATAGGATTAGTCTT
GAAAGTAGAGGAAGAAATAATCAAACATATAGCATTATTTTGACAGCAAAAAACAATATA
TCACCAACTGATTCTATGTTTTTGACCGTTATTAATTTGATTATAAGACAAGCTATGATT
GCATGTAATTTTGACCTTATCGGACGAAATTACTTTGATCCTTCCACAGCATCTAACATG
GAACAATATAGATTACAAATCTGGGATGGATTTAAAACATCAGTTCGTCAACATGAAGAA
AAGTTATTGATGTGTTGTGACTTGGCTCATAAAGTTATACGTAATGAAAATATTTATACA
ATGATTCAAGACGTGATCAATGACACAAGAAGAAGAGGAGATTATCAAAAAACCGTCAAA
CAAAAGTTATTAGGAATGGTTGTTTTAACAAACTATAATAACAAAACTTATAAAGTTTCT
GACATCGATTTCGAAAAAAATCCATTGTCAACTTTTACTATGAAAGGAAGATCTAAAAGT
TATATTGATTACTATAAAGAATTTTACAAAATTACAATTAGAGATCCGAAACAACCGTTA
CTGGTACATAAGCCAAAAGCAAAAGAACGTCGTGGTGGAGCAAAAGACATAATTTACCTT
GTACCTGAACTATGTCAAGCAACTGGTCTAGATGAAAGTGTAAGAAAAAATTTTCAATTG
ATGCGCGATATGGCAAACAAAACACGCAAAACACCAAGAGAACGCGCTGAGTTACTGCAA
AATTTTGTTAAAAAATTGCA
>g8254.t2 Gene=g8254 Length=449
MSNYDQYRGRRGGHSGNSDRNYERERSNHYPDYSRNRDNSSNRDSNRRNEDRGNEFGRGY
DSSRKRFHDDGPSTSGTYRGNFSKRGRGGRGGRGSGNKKDPRPEFPSEIDSRPKNFTEKV
ASYNQGDESVTLVTNYFEFNLRKFRSKIIVTMCFVDFNPMVANKWEKSYLIAQHKARLGT
YVYDNSASIYLAQPLEKGDRISLESRGRNNQTYSIILTAKNNISPTDSMFLTVINLIIRQ
AMIACNFDLIGRNYFDPSTASNMEQYRLQIWDGFKTSVRQHEEKLLMCCDLAHKVIRNEN
IYTMIQDVINDTRRRGDYQKTVKQKLLGMVVLTNYNNKTYKVSDIDFEKNPLSTFTMKGR
SKSYIDYYKEFYKITIRDPKQPLLVHKPKAKERRGGAKDIIYLVPELCQATGLDESVRKN
FQLMRDMANKTRKTPRERAELLQNFVKKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g8254.t2 | CDD | cd02845 | PAZ_piwi_like | 309 | 413 | 3.82269E-43 |
| 6 | g8254.t2 | Gene3D | G3DSA:2.170.260.10 | paz domain | 298 | 420 | 6.7E-39 |
| 11 | g8254.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 115 | - |
| 10 | g8254.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 12 | 72 | - |
| 9 | g8254.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 93 | 115 | - |
| 3 | g8254.t2 | PANTHER | PTHR22891 | EUKARYOTIC TRANSLATION INITIATION FACTOR 2C | 55 | 447 | 4.5E-77 |
| 4 | g8254.t2 | PANTHER | PTHR22891:SF164 | PIWI-LIKE PROTEIN 1 | 55 | 447 | 4.5E-77 |
| 2 | g8254.t2 | Pfam | PF08699 | Argonaute linker 1 domain | 250 | 296 | 7.4E-5 |
| 1 | g8254.t2 | Pfam | PF02170 | PAZ domain | 305 | 432 | 2.7E-31 |
| 12 | g8254.t2 | ProSiteProfiles | PS50821 | PAZ domain profile. | 293 | 412 | 23.209 |
| 8 | g8254.t2 | SMART | SM00949 | PAZ_2_a_3 | 299 | 436 | 1.9E-53 |
| 5 | g8254.t2 | SUPERFAMILY | SSF101690 | PAZ domain | 131 | 448 | 9.1E-61 |
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.
