General information for g4567.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Intraflagellar transport protein 57-like protein.
Parent gene
- The parent gene g4567 is located on chr_2: 3258030..3259403 (- 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 | g4567 | g4567.t1 | isoform | g4567.t1 | 3258030 | 3259403 |
| chr_2 | g4567 | g4567.t1 | exon | g4567.t1.exon1 | 3258030 | 3258467 |
| chr_2 | g4567 | g4567.t1 | cds | g4567.t1.CDS1 | 3258030 | 3258467 |
| chr_2 | g4567 | g4567.t1 | exon | g4567.t1.exon2 | 3258526 | 3258637 |
| chr_2 | g4567 | g4567.t1 | cds | g4567.t1.CDS2 | 3258526 | 3258637 |
| chr_2 | g4567 | g4567.t1 | exon | g4567.t1.exon3 | 3258694 | 3258988 |
| chr_2 | g4567 | g4567.t1 | cds | g4567.t1.CDS3 | 3258694 | 3258988 |
| chr_2 | g4567 | g4567.t1 | exon | g4567.t1.exon4 | 3259040 | 3259403 |
| chr_2 | g4567 | g4567.t1 | cds | g4567.t1.CDS4 | 3259040 | 3259403 |
| chr_2 | g4567 | g4567.t1 | TSS | g4567.t1 | NA | NA |
| chr_2 | g4567 | g4567.t1 | TTS | g4567.t1 | NA | NA |
Sequences
>g4567.t1 Gene=g4567 Length=1209
ATGTTTCGGCAAGAGTTACTTGTAGCAATTGAGAGAGATTCAAATAATATGTCATTGATA
TCATCATATCAATGTGATGATCTTGTGGAAAAATTAAAATTACTCAATTATGAAAATTTG
CTCCTAAAACAGATGAAAATGAAACCGATTAATAAATTTTATTTTAATAAAGTAAAAAAT
ACTGGTGAACAATTTTATCTTTTTGTGTCCATTTGTGCATGGTTGATTCGTGAAACTGGA
AAAACTTTTGAACAACCACAAGAATTTGATGATCCAAATGTGGTAATTTCAAAAATTATC
AAAGCATTAAATGAACTGGATATTGCTACAGATTTTCAATCGAATAAGCTCATTTCTGGT
GCAGGTCCAATTTGTGTCTATGTTCTCGATTCACTTGCATCAAAAGTTCTCAAACTCTCA
ACAGTACAAGTACAAAAACCTCAAATTAAAACTGAAGAAAATACATCACTTGACATTGTT
GAGAACGATTCTGAAATAATATTAGAGAAACTTGATGATCAAAATATTATTGAAAGTGAA
AGTGATGACGAAAGAGAGAGAAATTCAATTTATGATCTGAATTTACATGACAGAAAAAAG
AGCAAATACAATAACAAAGAATATAAAGTACATAGCTTAATTGATAATGAAAATTTTAGA
TTAGAAATGGAGAGAGTGTTGCCACAATTAAAAATTGTCGTTAAAAGTGACAATCGTGAC
TGGCGTGCACATCTTGAGCAAATTAGAACATTGCGAGTTAATATTGAAAATGCATCAGAA
GAAGCACAAACACAATTAAAGAAAATGCAAAGTGAAATTGTTTTCACCATGGACAAAATC
GATAGTCGAGAAAAACATTTAAATAAAGATTTGAAGGTCTTAATAAATGAATATAAAGAG
CTCTCAATTGAGATGTCAAAAATAGCAAATGAAATCAAGGAAAATGAACAAACAAAAGCT
GAAATGGATGAAACAATTTCAAAACTTACAAATGAACTTGAAAATGTAAAAATTCAAATG
GAACAACGTGGAAATTCAATGACTGATGGAAGTCCATTGATAAATATTAAGAAAGCTGTC
ATAAGATTAAAAGAAGAAATTTCTGAATTGGATATTAAAATTGGCGTAATGCAACATACA
TTGACAAATGATATAATAAGAAGGAAAAATCATTATGCTGAATTTGATTTAGGAACACAA
GCTGCATAA
>g4567.t1 Gene=g4567 Length=402
MFRQELLVAIERDSNNMSLISSYQCDDLVEKLKLLNYENLLLKQMKMKPINKFYFNKVKN
TGEQFYLFVSICAWLIRETGKTFEQPQEFDDPNVVISKIIKALNELDIATDFQSNKLISG
AGPICVYVLDSLASKVLKLSTVQVQKPQIKTEENTSLDIVENDSEIILEKLDDQNIIESE
SDDERERNSIYDLNLHDRKKSKYNNKEYKVHSLIDNENFRLEMERVLPQLKIVVKSDNRD
WRAHLEQIRTLRVNIENASEEAQTQLKKMQSEIVFTMDKIDSREKHLNKDLKVLINEYKE
LSIEMSKIANEIKENEQTKAEMDETISKLTNELENVKIQMEQRGNSMTDGSPLINIKKAV
IRLKEEISELDIKIGVMQHTLTNDIIRRKNHYAEFDLGTQAA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g4567.t1 | Coils | Coil | Coil | 245 | 272 | - |
| 4 | g4567.t1 | Coils | Coil | Coil | 284 | 339 | - |
| 3 | g4567.t1 | Coils | Coil | Coil | 353 | 373 | - |
| 2 | g4567.t1 | PANTHER | PTHR16011 | IFT57/HIPPI | 21 | 392 | 9.1E-119 |
| 1 | g4567.t1 | Pfam | PF10498 | Intra-flagellar transport protein 57 | 26 | 381 | 1.1E-112 |
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 K04638 (intraflagellar transport protein 57)
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.
