Gene loci information

Transcript annotation

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

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 g16309 g16309.t2 TTS g16309.t2 9038698 9038698
chr_4 g16309 g16309.t2 isoform g16309.t2 9038760 9040882
chr_4 g16309 g16309.t2 exon g16309.t2.exon1 9038760 9038962
chr_4 g16309 g16309.t2 cds g16309.t2.CDS1 9038760 9038962
chr_4 g16309 g16309.t2 exon g16309.t2.exon2 9039367 9039460
chr_4 g16309 g16309.t2 cds g16309.t2.CDS2 9039367 9039400
chr_4 g16309 g16309.t2 exon g16309.t2.exon3 9040019 9040213
chr_4 g16309 g16309.t2 exon g16309.t2.exon4 9040336 9040882
chr_4 g16309 g16309.t2 TSS g16309.t2 9041243 9041243

Sequences

>g16309.t2 Gene=g16309 Length=1039
TTCTCCTGTAACTCGAGCAGTCACATTTAATTTCGAGACAGATCGCGATGAAATCATCAC
ACTTAATCCAAAATCTTTCACAGTTCTACCTTCTGTGCCTGTTACAAATCAAACAATAAA
AGTTGAAACACATAAAGCTGGAAAAGTTGAAGTTGATGGACATGCAACACCTGTAGAAAT
TATCGATGACTTCAATCTTTTCTTCAGGATTGTTGTAGCAAATTCTCGACCTTTAATAAT
AATTTCATCAGTTGTTGGTTGGATTTATTTTGTAGCATGGAGTGTTTCTTTTTATCCGCA
AGTTTGGTTAAATTTCAAAAGAAAATCTGTGGTTGGATTGAGTTTTGACTTTTTGGCATT
AAATATTGTTGGTCATACTCTTTATGCTGTATTTAATTCATCATTGTATTTTATCAAATA
TTTCCAAGATGAATATTTTGTTCGATTTCCTCATGGATTGAATCCTGTTGAACTTAATGA
TGTTTTCTTCAGTATTCATGCTTCAGTTTTGACATTTTTGACTATTTGTCAATGTTTTTA
TTATGAAAGTGGAACACAAAGGGTTTCAAAAATATCATGGTCTATTATTGGAATTTTCAC
AATTACTGCTCTTGTTATAATTATTCTATGCTCAATTGGAAATCTTCATTGGTTGGACTT
TTTGTATACATGCAGTTATATCAAATTGGCTGTGACTTTAACTAAATATGTTCCACAAGC
TTTCTTGAATTATAAGAGAAAAAGCACTGTAGGCTGGAGTATTGAGAATATTCTTCTTGA
TTTTACTGGAGGAATTTTGTCAATGTTGCAAATGATCTTCAACTCTTATAATTACAATGA
CTGGGCTTCAATCTTTGGTGATCCAACAAAATTCGGTCTTGGACTCTTTTCAGTTCTTTT
CGATATTGTTTTTATTGTACAACATTATGTGCTTTACAAAGATGCAAGACATCAAAAGAA
TAATGACAATAACACAACAGAAGTTGAAAATACGGAAGTCACAATTGAACCAGAAGATAA
AGAAAAAGAAAATATTTAA

>g16309.t2 Gene=g16309 Length=78
MLQMIFNSYNYNDWASIFGDPTKFGLGLFSVLFDIVFIVQHYVLYKDARHQKNNDNNTTE
VENTEVTIEPEDKEKENI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g16309.t2 MobiDBLite mobidb-lite consensus disorder prediction 53 78 -
1 g16309.t2 PANTHER PTHR13131 CYSTINOSIN 1 58 1.7E-18
2 g16309.t2 PANTHER PTHR13131:SF5 CYSTINOSIN 1 58 1.7E-18
6 g16309.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 23 -
7 g16309.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 24 45 -
5 g16309.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 46 78 -
3 g16309.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 26 45 -

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 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