General information for g2900.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative ETS-like protein pointed.
Parent gene
- The parent gene g2900 is located on chr_3: 20993662..20998701 (- 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 | g2900 | g2900.t3 | TTS | g2900.t3 | 20993055 | 20993055 |
| chr_3 | g2900 | g2900.t3 | isoform | g2900.t3 | 20993662 | 20998701 |
| chr_3 | g2900 | g2900.t3 | exon | g2900.t3.exon1 | 20993662 | 20993954 |
| chr_3 | g2900 | g2900.t3 | cds | g2900.t3.CDS1 | 20993662 | 20993954 |
| chr_3 | g2900 | g2900.t3 | exon | g2900.t3.exon2 | 20994646 | 20994849 |
| chr_3 | g2900 | g2900.t3 | cds | g2900.t3.CDS2 | 20994646 | 20994849 |
| chr_3 | g2900 | g2900.t3 | exon | g2900.t3.exon3 | 20995965 | 20996078 |
| chr_3 | g2900 | g2900.t3 | cds | g2900.t3.CDS3 | 20995965 | 20996078 |
| chr_3 | g2900 | g2900.t3 | exon | g2900.t3.exon4 | 20998449 | 20998701 |
| chr_3 | g2900 | g2900.t3 | cds | g2900.t3.CDS4 | 20998449 | 20998701 |
| chr_3 | g2900 | g2900.t3 | TSS | g2900.t3 | NA | NA |
Sequences
>g2900.t3 Gene=g2900 Length=864
ATGACAAACGAATGGATAGATTATGCCGAAAATGTGCACATAAGGACAACACCATTCAAA
TATCCATCGAATAATAATAGCTTGCTTACGAACAATAACAGTTTTCTCACAAACGGCAAT
ATGCATCACCAACCGCCACAACAGTTTTATAATAAAATGGGAATAAAACCATTTAATAAT
AATTTAAATAACAACAACAACAGTAGCACACTGAATCAATATAATTTAATGAATAAATTT
CAAAAGCCACGAGATCAACCGCAGATGCCACCCCTGACGCCTGGAACAGATAAGAAGCTG
GCTGAGGCGCTGCATGCATCGTTTGCGTCTTGGGAAAAAGAAGTACAATTATTTAAAATT
ACCAAAGATCCCCGTCTGTGGACTCCACAGCATGTTCAAATTTGGCTTAACTGGGTAAAG
AAGGAGTTTTCTTTAGAAATCAATTCAGCTGAGGCATTCTTTAAAATGCATGGACGTGAT
ATTGTGGGATTAGGTCGTGAAGGTTTTTTGGCTGTAGCACCTGTATATACTGGCGACATC
CTTTGGGAACACTTAGAAATTTTATTAAAAGATTGTGAAAAATCATCGTCTAGTGACCAG
CAAAATCTCTATGAGAACGTATGCGTAAGCAATTCAAGCACAAATACAACGACATCATCA
ACGGACTTAAGTGATTTCATTAGCAATAGTAGCACAACGACTAGTGGCAATACAACAGTA
ACAAATACGAATTCATCGTCAAATAACAATAGTAACAACAATAGCAATCAATTAAATGGA
CAAGATAGCTTTTCTACATCGACTGCTGGTGGTAAGTACAAGTATTCTTACATTTTAAAA
CTTATTTTGCTTTTTTTCTTCTGA
>g2900.t3 Gene=g2900 Length=287
MTNEWIDYAENVHIRTTPFKYPSNNNSLLTNNNSFLTNGNMHHQPPQQFYNKMGIKPFNN
NLNNNNNSSTLNQYNLMNKFQKPRDQPQMPPLTPGTDKKLAEALHASFASWEKEVQLFKI
TKDPRLWTPQHVQIWLNWVKKEFSLEINSAEAFFKMHGRDIVGLGREGFLAVAPVYTGDI
LWEHLEILLKDCEKSSSSDQQNLYENVCVSNSSTNTTTSSTDLSDFISNSSTTTSGNTTV
TNTNSSSNNNSNNNSNQLNGQDSFSTSTAGGKYKYSYILKLILLFFF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g2900.t3 | Gene3D | G3DSA:1.10.150.50 | Transcription Factor | 96 | 192 | 3.3E-29 |
| 6 | g2900.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 234 | 259 | - |
| 2 | g2900.t3 | PANTHER | PTHR11849 | ETS | 71 | 260 | 2.4E-30 |
| 3 | g2900.t3 | PANTHER | PTHR11849:SF289 | ETS-LIKE PROTEIN POINTED | 71 | 260 | 2.4E-30 |
| 1 | g2900.t3 | Pfam | PF02198 | Sterile alpha motif (SAM)/Pointed domain | 109 | 191 | 2.4E-22 |
| 8 | g2900.t3 | ProSiteProfiles | PS51433 | Pointed (PNT) domain profile. | 106 | 192 | 37.777 |
| 5 | g2900.t3 | SMART | SM00251 | SAM2_3 | 108 | 192 | 9.5E-28 |
| 4 | g2900.t3 | SUPERFAMILY | SSF47769 | SAM/Pointed domain | 87 | 192 | 1.3E-24 |
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:0043565 | sequence-specific DNA binding | MF |
KEGG
Orthology
- This transcript has been annotated with K02678 (C-ets-1)
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