General information for g271.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Transducin-like enhancer protein 4.
Parent gene
- The parent gene g271 is located on chr_3: 2280964..2283255 (- 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 | g271 | g271.t1 | isoform | g271.t1 | 2280964 | 2283255 |
| chr_3 | g271 | g271.t1 | exon | g271.t1.exon1 | 2280964 | 2281071 |
| chr_3 | g271 | g271.t1 | cds | g271.t1.CDS1 | 2280964 | 2281071 |
| chr_3 | g271 | g271.t1 | exon | g271.t1.exon2 | 2281132 | 2281331 |
| chr_3 | g271 | g271.t1 | cds | g271.t1.CDS2 | 2281132 | 2281331 |
| chr_3 | g271 | g271.t1 | exon | g271.t1.exon3 | 2281390 | 2281562 |
| chr_3 | g271 | g271.t1 | cds | g271.t1.CDS3 | 2281390 | 2281562 |
| chr_3 | g271 | g271.t1 | exon | g271.t1.exon4 | 2281624 | 2281874 |
| chr_3 | g271 | g271.t1 | cds | g271.t1.CDS4 | 2281624 | 2281874 |
| chr_3 | g271 | g271.t1 | exon | g271.t1.exon5 | 2282087 | 2282327 |
| chr_3 | g271 | g271.t1 | cds | g271.t1.CDS5 | 2282087 | 2282327 |
| chr_3 | g271 | g271.t1 | exon | g271.t1.exon6 | 2282415 | 2282773 |
| chr_3 | g271 | g271.t1 | cds | g271.t1.CDS6 | 2282415 | 2282773 |
| chr_3 | g271 | g271.t1 | exon | g271.t1.exon7 | 2282838 | 2282906 |
| chr_3 | g271 | g271.t1 | cds | g271.t1.CDS7 | 2282838 | 2282906 |
| chr_3 | g271 | g271.t1 | exon | g271.t1.exon8 | 2283211 | 2283255 |
| chr_3 | g271 | g271.t1 | cds | g271.t1.CDS8 | 2283211 | 2283255 |
| chr_3 | g271 | g271.t1 | TSS | g271.t1 | NA | NA |
| chr_3 | g271 | g271.t1 | TTS | g271.t1 | NA | NA |
Sequences
>g271.t1 Gene=g271 Length=1446
ATGAATTCAAATCTGGAACGGCAAAATGAAAATTGGAATATGATGTTTAAAACTTTTAAA
AACCTGATTGATGCTTCAAATGAATTAGACCATTCAGTTGGACAAAAATATAAACAAACA
AACAAATCACCAACAGATGCTACTTCATCAACTCATAGAAACAATAATAGGGAAAATATT
GTCCCTTCAACTTCTACAGCTCCAAAACGAGATATTCGACTTGATGATACTATTCCAATA
CCAACAAAATCATCTCGTCAATCTGACGATTTAAATTCACTAAAAGCTAAATTTGACGAA
CTTCAAGATGAATTCAGTCGTTTATTATTGAAAAAACCAGATCGTAAACCTTTGTATTCT
CGTGGAAATTTTGAAAATCAATTTGTTCCAACTCAAAAAACTACAAAAACTGACAATGAA
TTATTGACTTCAAAGAGCGTTCCTTTATTTGTCTCGAATCAAATCATAAATGGAAGTAAT
ATCCATCACATTCAATCTTTTGATCAAAATGAGCCAATTTTTATTCCACAAAGTTCATCA
TCAAAAATACCTTTAGGTATTCAACCAATTTGGACATTGAACCATGGTAGTATTGTGAGT
GCAGTAGCATTTTCAAATCCAATGAAATATGTTTTTACTGGTGGCAAAGGATGTGTGAAA
ATTTGGGATATTTCTAAACCATTAAGAAAGCCAGTTGGTCAACTTTCTTGTTTTAAACCA
AACAGTGACATTCGAACAATAAAATTACTTAAAGACAGCAACACACTCATTGTTGGTGGT
GATTCTGAAAATTTGACTATTTGGGATGCAACTGGGCCTAAACCTCGCATAAAAGGACTA
TTGCCTTCATTTACTAGTGCTTGTTATGATTTTGCTGTTTCTGATGAATCTAGAATTGGT
TATTCATGTCTAAGTGATGGAACAATTGCAGTTTATGATTTGAAAAGCAACATTTTAGCT
CGAAGATTTGAAGGGCATAATGATGGAGTCACAAGCATTGGAGTTAATTCAGATGGCACA
AAATTCTGGACTGGCAGTTTGGATTGCACTGCAAGAAGCTGGGATCTTCGAATGACTAAA
CAAATTAATCAATTTGATTTTCAATCTCACATTTATTCATTAGATTTTAATTCAAAAAAT
GATTGGCTTGCAATTGGTTTTAAAAATTCAAATATTCAAGCAGTGGATGTTAAAAATAAT
GAAAAATATTTGCTTAATTTGCATCAAAATTCTGTTTTGGGCTTGAAGTTTGCCAAAAAT
GAAAAATGGTTCATTTCGAATGGCAGTGATGGACTTTTGACTATGTCGAAATTTCCATGT
GGTCCAAACATTCATCAGACAAAACAGAATTCAGCAATGTTGAGTTGTGATATTTCAGCT
GATGATAAATTTATTGTTACTGGATCTGCTGACAAAAATGCTACGGTTTATCAAGTTCTA
TATTAA
>g271.t1 Gene=g271 Length=481
MNSNLERQNENWNMMFKTFKNLIDASNELDHSVGQKYKQTNKSPTDATSSTHRNNNRENI
VPSTSTAPKRDIRLDDTIPIPTKSSRQSDDLNSLKAKFDELQDEFSRLLLKKPDRKPLYS
RGNFENQFVPTQKTTKTDNELLTSKSVPLFVSNQIINGSNIHHIQSFDQNEPIFIPQSSS
SKIPLGIQPIWTLNHGSIVSAVAFSNPMKYVFTGGKGCVKIWDISKPLRKPVGQLSCFKP
NSDIRTIKLLKDSNTLIVGGDSENLTIWDATGPKPRIKGLLPSFTSACYDFAVSDESRIG
YSCLSDGTIAVYDLKSNILARRFEGHNDGVTSIGVNSDGTKFWTGSLDCTARSWDLRMTK
QINQFDFQSHIYSLDFNSKNDWLAIGFKNSNIQAVDVKNNEKYLLNLHQNSVLGLKFAKN
EKWFISNGSDGLLTMSKFPCGPNIHQTKQNSAMLSCDISADDKFIVTGSADKNATVYQVL
Y
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g271.t1 | Coils | Coil | Coil | 84 | 111 | - |
| 11 | g271.t1 | Gene3D | G3DSA:2.130.10.10 | - | 159 | 481 | 6.4E-90 |
| 20 | g271.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 36 | 91 | - |
| 21 | g271.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 36 | 66 | - |
| 3 | g271.t1 | PANTHER | PTHR10814:SF21 | PROTEIN GROUCHO | 43 | 481 | 6.9E-116 |
| 4 | g271.t1 | PANTHER | PTHR10814 | TRANSDUCIN-LIKE ENHANCER PROTEIN | 43 | 481 | 6.9E-116 |
| 8 | g271.t1 | PRINTS | PR01850 | Groucho/transducin-like enhancer protein signature | 380 | 402 | 5.9E-29 |
| 7 | g271.t1 | PRINTS | PR01850 | Groucho/transducin-like enhancer protein signature | 403 | 421 | 5.9E-29 |
| 6 | g271.t1 | PRINTS | PR01850 | Groucho/transducin-like enhancer protein signature | 422 | 441 | 5.9E-29 |
| 9 | g271.t1 | PRINTS | PR01850 | Groucho/transducin-like enhancer protein signature | 442 | 461 | 5.9E-29 |
| 5 | g271.t1 | PRINTS | PR01850 | Groucho/transducin-like enhancer protein signature | 462 | 481 | 5.9E-29 |
| 1 | g271.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 188 | 223 | 0.0014 |
| 2 | g271.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 321 | 355 | 0.11 |
| 22 | g271.t1 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 192 | 364 | 19.828 |
| 23 | g271.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 323 | 364 | 12.881 |
| 19 | g271.t1 | SMART | SM00320 | WD40_4 | 186 | 223 | 8.2E-4 |
| 16 | g271.t1 | SMART | SM00320 | WD40_4 | 231 | 269 | 0.89 |
| 15 | g271.t1 | SMART | SM00320 | WD40_4 | 274 | 313 | 2.0 |
| 18 | g271.t1 | SMART | SM00320 | WD40_4 | 316 | 355 | 4.0E-6 |
| 17 | g271.t1 | SMART | SM00320 | WD40_4 | 358 | 396 | 9.2 |
| 13 | g271.t1 | SMART | SM00320 | WD40_4 | 398 | 437 | 3.0 |
| 14 | g271.t1 | SMART | SM00320 | WD40_4 | 441 | 478 | 3.4 |
| 10 | g271.t1 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 184 | 478 | 2.65E-52 |
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:0005634 | nucleus | CC |
| GO:0005515 | protein binding | MF |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
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