Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Attractin-like protein 1.

Parent gene

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 g16669 g16669.t4 isoform g16669.t4 10450703 10452063
chr_4 g16669 g16669.t4 exon g16669.t4.exon1 10450703 10452063
chr_4 g16669 g16669.t4 cds g16669.t4.CDS1 10450951 10452063
chr_4 g16669 g16669.t4 TTS g16669.t4 10452065 10452065
chr_4 g16669 g16669.t4 TSS g16669.t4 NA NA

Sequences

>g16669.t4 Gene=g16669 Length=1361
ACTACACAGAAGGCCAGTACTGTGAAAAATGCAAATCAGGCAGTTTTGGCAATGCAACAC
AAACTGGCTGTCAACCATGTGAATGCAATGGTCATGCTGATAAATCTGCTGGAGTTTGTG
ACCAAAAAACTGGAAAATGTTTTTGCATTGACAACACAGAAGGTGAAAATTGTGAATTTT
GTTCAAATGATTTCTATGGTGATCCAAAGTCAAATGGTCGATGTTATCTGCAATGCCAAC
CACGTGGAATGCTAAAGGAAGTAAAAGTTCAAGGAATTGGATCATTTAAAGGACAAAAGG
AAATTTCTGAATGTCTTTGGTTATTAAAATTAAATTCATCAATTGCAAATGGAAGTTTGA
TCCAATTTGAAATTGAAGAAATGAAAATCGACTGTCATAGCAATGCAATTTTTATTTACA
ACAGCATTTCTGAATTCTCTGAGAACTTTGGGCATAAAAAACTTGTAAATGCTGTTTGTG
GCAGTTCAAGTATTATCAGTGAGTCAAAAACTGGTGAAATGGCAATTTACTTCCAAAAAA
CAGCTCGTAGTGAAAATTTCAATGCTTTGGTTCACATTCGAAGTTGTCAGCTTGGAACTT
GTGATTTTCCTTTCATATGCAATGGAACTCGCTGTACATGCCCAATTAATCGACGTGGTG
CAAAATGTGAAATTGAAATTTGCAAGGGAAACTGTACAAATGGGTATTGTGACAAATCAA
CAAATCATTGTGTCTGTAATGAAGGTTTCACAGGTGATGACTGCTCATTGCAAGTTAAAT
CAAATTCAATTTACATGCGAGAACTTTTCAGTACACAAACAGTTGATAGAAACATGCATC
ATTTAAGGAAAACATTGCCAAGATTTGGAAATTCTGTCAATGCAGATCGTAGAGGATTTT
TATGGATTTTTGGTGGTTTTTCTTTGACTAATGGAGCATTAAATGACATAAGACAATTTG
ATACAAAAAATCACACTTGGGTTCAAGTTACAGTCGATGGAACTGCCTCAAAAATGCCGT
TAGGTCGATTTTTTCATGCATCAGAAATTAAAGCTCAATCAATTTACATTCATGGTGGAT
TAAGTAATGACTTTGAGGTATTGAGCGATTTTTGGGAATTCAATATTCATGAACAGCGAT
GGATTGAAGTTGAAAATGATAAAAATCCAGGTCATCTTGCTGGTCATACAATGAATTTAG
TTAAAGATGGTGACAATGAAATATTGATAATTATTGGCGGATATCGAAAGGAAAATTATG
GAAATCTAGACAAACAACATGGAAATGACATTGAAATTTTACATAGTGATGAAAGTAACG
AAAATGATGAAAGTGAAGAAAATTTTGATGAAAAATTAAAA

>g16669.t4 Gene=g16669 Length=371
MLKEVKVQGIGSFKGQKEISECLWLLKLNSSIANGSLIQFEIEEMKIDCHSNAIFIYNSI
SEFSENFGHKKLVNAVCGSSSIISESKTGEMAIYFQKTARSENFNALVHIRSCQLGTCDF
PFICNGTRCTCPINRRGAKCEIEICKGNCTNGYCDKSTNHCVCNEGFTGDDCSLQVKSNS
IYMRELFSTQTVDRNMHHLRKTLPRFGNSVNADRRGFLWIFGGFSLTNGALNDIRQFDTK
NHTWVQVTVDGTASKMPLGRFFHASEIKAQSIYIHGGLSNDFEVLSDFWEFNIHEQRWIE
VENDKNPGHLAGHTMNLVKDGDNEILIIIGGYRKENYGNLDKQHGNDIEILHSDESNEND
ESEENFDEKLK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g16669.t4 CDD cd00055 EGF_Lam 151 172 0.00744663
7 g16669.t4 Coils Coil Coil 359 371 -
5 g16669.t4 Gene3D G3DSA:2.10.25.10 Laminin 88 177 4.4E-8
6 g16669.t4 Gene3D G3DSA:2.120.10.80 - 189 358 2.3E-13
11 g16669.t4 MobiDBLite mobidb-lite consensus disorder prediction 352 371 -
2 g16669.t4 PANTHER PTHR10574 NETRIN/LAMININ-RELATED 29 334 4.0E-33
3 g16669.t4 PANTHER PTHR10574:SF407 - 29 334 4.0E-33
1 g16669.t4 Pfam PF13418 Galactose oxidase, central domain 204 251 1.7E-5
9 g16669.t4 ProSitePatterns PS01186 EGF-like domain signature 2. 161 172 -
10 g16669.t4 ProSitePatterns PS00022 EGF-like domain signature 1. 161 172 -
4 g16669.t4 SUPERFAMILY SSF117281 Kelch motif 203 338 5.1E-22

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 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.

Raw TPM values