General information for g17572.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Peroxisomal targeting signal 1 receptor.
Parent gene
- The parent gene g17572 is located on chr_4: 13955728..13957514 (- 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_4 | g17572 | g17572.t1 | TTS | g17572.t1 | 13955667 | 13955667 |
| chr_4 | g17572 | g17572.t1 | isoform | g17572.t1 | 13955728 | 13957514 |
| chr_4 | g17572 | g17572.t1 | exon | g17572.t1.exon1 | 13955728 | 13957110 |
| chr_4 | g17572 | g17572.t1 | cds | g17572.t1.CDS1 | 13955728 | 13957110 |
| chr_4 | g17572 | g17572.t1 | exon | g17572.t1.exon2 | 13957171 | 13957314 |
| chr_4 | g17572 | g17572.t1 | cds | g17572.t1.CDS2 | 13957171 | 13957314 |
| chr_4 | g17572 | g17572.t1 | exon | g17572.t1.exon3 | 13957371 | 13957514 |
| chr_4 | g17572 | g17572.t1 | cds | g17572.t1.CDS3 | 13957371 | 13957514 |
| chr_4 | g17572 | g17572.t1 | TSS | g17572.t1 | 13957581 | 13957581 |
Sequences
>g17572.t1 Gene=g17572 Length=1671
ATGAACTTTAAAGATATGCTCGAAAATGAGTGTGGTCAAGCTAATCCACTCATGCAACTT
GGGCAACAGCTTACAAGCGATACAACACTTCGTGATGAAGGAATTTCAGCAAATTTCCGC
GACATGAATTTTCAACCAGAAAATACTTTCCGAATGGATATGTTGCTGAAGGAAATGCAA
GAGATGGATAAAATTGTTCAACAACCAGTTTTAGGACCAAAAATCAATGAAGTAATCAGT
GAAACAACAAATGCAAATGCAGTTGGAATGGACAGTAATTTTGCTGAATTTTGGCAAAAA
AGTCTTGCACAACCATCAACTTCTCAGCAATCAAATTTTCTTACTTGGAATAACAACAAT
ATACCTTCAACTTCAAATTATCGTCCATATCAGCGACCAAATTACACACAGTTTTTCCCT
TCAACTTCTAATGTTGGACATTCACGAGCATTCTTTCAACAAACAGCAAACGATTTCTTC
AAAGAAGTTGAAATTGAAGCAAAGAAAGATGCTGAAAAAGAAGATAAAACGACAGAAGAC
TGGGCAAAATCTTTTGAAGAATCAAAGAAAGCAGAAGATGAATTTAATGAACAATATAAT
AAAGAATTTTGGGATAGACTACAAGATGAGTGGAAAAAATTATCAGCTGAGGAAAATAGT
AAGGAACATCCATGGTTAAATGATTTTAGTGATTATTATGATCCTTATAAAGAATATAAA
TTTGATGACAACAATCCTATGATTGATGTTGAAAACGCACTTGAAAAGGGAAAAAGTTTT
TTAGCTAATGGCGATATTCCTTCAGCCGTTTTGTGTTTTGAAAGTGCTGTCAAACAGGAT
CCTGAGAGTGCTGAAGCTTGGAAACTACTTGGAACATCGCAAGCCGAAAATGAGAAAGAC
CCGAATGCAATAGCAGCACTTAAGAGATCATTGGAAATTGCACCTAACGATATGCAAGTT
TTGCTTGCCTTAGCAATATCATATACAAATGAAAGTTATCAAAATTTGGCCTTAAAAATG
CTTAATCAATGGATGCGAGTTAATCCTAAATATGCAAGTCTCACGCATCCTGAAGCAAGT
GAAGGAGCAGGTATTGAAGAAATCACAACTTCGAGAATTCGCGGAATGGAACTACAAAAT
ACACAAGAACTTTTCTTAAAAGCTGTTCAATTGAATGCTGAAAGCGGAAATTTTGATTCA
GATATTCAGGAAGCACTCGGTGTTCTTTTCAATTTAAGTAGTGAATATGATAAAACTGTA
GATTGTTTCCAAGCTGCTGTTGAAATTTCACCTAATAATGCCAAACTTTGGAACCGATTA
GGTGCAAGTTTTGCAAATGGAAATCGACCAATTGAAGCAGTTGGAGCATATCAACGAGCA
TTAGAAATTGAACCAGGTTTTATTAGAGCTCGCTATAATGTTGGAGTTGTTTGTATCAAT
CTAAAATCTTATAAAGAAGCTGCTGAACACTTATTGCTAGCTTTAAATCATCAAGCCACA
TCGAAACAAAGAGCTGGAATTAATATTGAAAATGTTCAAAATCAAATGAGTGATACACTT
TGGTCAACTTTAAGAATGACGATAAGTTTAATGGGAAAGCATAATTTGCAAGATTTTGTA
GATAAAAGAGATCTTGATTCGTTGAATAAGGAATTTACAATGGAAAGTTAA
>g17572.t1 Gene=g17572 Length=556
MNFKDMLENECGQANPLMQLGQQLTSDTTLRDEGISANFRDMNFQPENTFRMDMLLKEMQ
EMDKIVQQPVLGPKINEVISETTNANAVGMDSNFAEFWQKSLAQPSTSQQSNFLTWNNNN
IPSTSNYRPYQRPNYTQFFPSTSNVGHSRAFFQQTANDFFKEVEIEAKKDAEKEDKTTED
WAKSFEESKKAEDEFNEQYNKEFWDRLQDEWKKLSAEENSKEHPWLNDFSDYYDPYKEYK
FDDNNPMIDVENALEKGKSFLANGDIPSAVLCFESAVKQDPESAEAWKLLGTSQAENEKD
PNAIAALKRSLEIAPNDMQVLLALAISYTNESYQNLALKMLNQWMRVNPKYASLTHPEAS
EGAGIEEITTSRIRGMELQNTQELFLKAVQLNAESGNFDSDIQEALGVLFNLSSEYDKTV
DCFQAAVEISPNNAKLWNRLGASFANGNRPIEAVGAYQRALEIEPGFIRARYNVGVVCIN
LKSYKEAAEHLLLALNHQATSKQRAGINIENVQNQMSDTLWSTLRMTISLMGKHNLQDFV
DKRDLDSLNKEFTMES
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g17572.t1 | Gene3D | G3DSA:1.25.40.10 | - | 232 | 556 | 0.0000 |
| 3 | g17572.t1 | PANTHER | PTHR10130 | PEROXISOMAL TARGETING SIGNAL 1 RECEPTOR PEX5 | 1 | 552 | 0.0000 |
| 4 | g17572.t1 | PANTHER | PTHR10130:SF0 | GH08708P | 1 | 552 | 0.0000 |
| 2 | g17572.t1 | Pfam | PF13432 | Tetratricopeptide repeat | 254 | 317 | 0.0000 |
| 1 | g17572.t1 | Pfam | PF13432 | Tetratricopeptide repeat | 441 | 495 | 0.0012 |
| 16 | g17572.t1 | ProSiteProfiles | PS50005 | TPR repeat profile. | 250 | 283 | 8.2900 |
| 18 | g17572.t1 | ProSiteProfiles | PS50293 | TPR repeat region circular profile. | 250 | 501 | 34.0190 |
| 17 | g17572.t1 | ProSiteProfiles | PS50005 | TPR repeat profile. | 284 | 317 | 9.3810 |
| 14 | g17572.t1 | ProSiteProfiles | PS50005 | TPR repeat profile. | 318 | 351 | 6.4900 |
| 15 | g17572.t1 | ProSiteProfiles | PS50005 | TPR repeat profile. | 400 | 433 | 10.3550 |
| 13 | g17572.t1 | ProSiteProfiles | PS50005 | TPR repeat profile. | 434 | 467 | 9.5880 |
| 12 | g17572.t1 | ProSiteProfiles | PS50005 | TPR repeat profile. | 468 | 501 | 5.7530 |
| 9 | g17572.t1 | SMART | SM00028 | tpr_5 | 250 | 283 | 32.0000 |
| 10 | g17572.t1 | SMART | SM00028 | tpr_5 | 284 | 317 | 0.0058 |
| 8 | g17572.t1 | SMART | SM00028 | tpr_5 | 400 | 433 | 0.2100 |
| 7 | g17572.t1 | SMART | SM00028 | tpr_5 | 434 | 467 | 0.0026 |
| 6 | g17572.t1 | SMART | SM00028 | tpr_5 | 468 | 501 | 8.0000 |
| 5 | g17572.t1 | SUPERFAMILY | SSF48452 | TPR-like | 234 | 554 | 0.0000 |
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 transcript has been annotated with K13342 (peroxin-5)
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.
