General information for g8269.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g8269 is located on chr_2: 29416581..29417489 (- 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 | g8269 | g8269.t1 | TTS | g8269.t1 | 29416557 | 29416557 |
| chr_2 | g8269 | g8269.t1 | isoform | g8269.t1 | 29416581 | 29417489 |
| chr_2 | g8269 | g8269.t1 | exon | g8269.t1.exon1 | 29416581 | 29417489 |
| chr_2 | g8269 | g8269.t1 | cds | g8269.t1.CDS1 | 29416581 | 29417489 |
| chr_2 | g8269 | g8269.t1 | TSS | g8269.t1 | 29418301 | 29418301 |
Sequences
>g8269.t1 Gene=g8269 Length=909
ATGGAAGAAGACAAATTTTTAAACATTTCTGATTCTCATCAAATTGATATAAAAGTATTA
ATAAAAACCTTGCAAGATATAAAATTACTACGTGAGAATTTTCCGGACATTTTAATTGAA
GTAAAATTCAATTATAGTAATATCAAATTTACAAAAGATATTAACTTTTTGAAAGAAGTC
GTTTTAGAAGTTCAAAATAAGGACAATCGATGGAAAATAATAAGACATAATTTACCCGAA
AGCGCTACAATTAATAACTTGAAAGTTGAATCATTGAAAAGCATTGTGGACAATTTCTTA
ATTATTAGTAATAACTTATATCCATATTTCAAAGTCATTGATTGTCTACAAAATTCATGC
AAGATTATTGCACCAGAACATGATAAAAGAGATGTGAAATTATGGAGATTACTCAAATAC
GATAAATTTACATCGATTAAAGTCGTTTTCAAAAATCCATTTGACATCAATGATACAGGC
ATAACATTTTATGGTAAAGAGCATTCAGTACAATCATTACTTAATACATATAATAGCAGC
AATGAACAAGAAACAAAAGATATGGATGTAGATTCATTGACAGCGGATGATGAATTTCAA
GATATTTATCGCGACATTTGTAATAGACTTGATATAATTGACTTTCCATCAGTCGAAAAT
AATGAGATCAATGAAGAAAATGAATGTGCTATTTGCCTTAGCTATGAAGATGAATTCAAC
CAATTGCCTTTCGTGTGCTGTGATAATTCAAAATGCGAATGCCTTTTTCATGTGTTGTGC
TTAAACAAACATCTGAGTATCAAAAACACCACTGTTCTTACTACTCGTTTAGCTATATGT
CCATTTTGCAAGCAAAAAATTTCATCAAATTTTCTCAATCTTTTACAAAATGTTAATTTA
TTTGATTAA
>g8269.t1 Gene=g8269 Length=302
MEEDKFLNISDSHQIDIKVLIKTLQDIKLLRENFPDILIEVKFNYSNIKFTKDINFLKEV
VLEVQNKDNRWKIIRHNLPESATINNLKVESLKSIVDNFLIISNNLYPYFKVIDCLQNSC
KIIAPEHDKRDVKLWRLLKYDKFTSIKVVFKNPFDINDTGITFYGKEHSVQSLLNTYNSS
NEQETKDMDVDSLTADDEFQDIYRDICNRLDIIDFPSVENNEINEENECAICLSYEDEFN
QLPFVCCDNSKCECLFHVLCLNKHLSIKNTTVLTTRLAICPFCKQKISSNFLNLLQNVNL
FD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8269.t1 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 212 | 293 | 0.00e+00 |
| 2 | g8269.t1 | Pfam | PF18891 | FANCL UBC-like domain 3 | 109 | 190 | 8.00e-07 |
| 1 | g8269.t1 | Pfam | PF11793 | FANCL C-terminal domain | 226 | 291 | 0.00e+00 |
| 5 | g8269.t1 | SMART | SM01197 | FANCL_C_2 | 225 | 292 | 4.00e-07 |
| 4 | g8269.t1 | SMART | SM00249 | PHD_3 | 228 | 284 | 2.50e-03 |
| 3 | g8269.t1 | SUPERFAMILY | SSF57850 | RING/U-box | 218 | 290 | 2.22e-05 |
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 K10606 (E3 ubiquitin-protein ligase FANCL)
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.
