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.t7 isoform g16309.t7 9040136 9040731
chr_4 g16309 g16309.t7 exon g16309.t7.exon1 9040136 9040213
chr_4 g16309 g16309.t7 cds g16309.t7.CDS1 9040136 9040213
chr_4 g16309 g16309.t7 exon g16309.t7.exon2 9040336 9040731
chr_4 g16309 g16309.t7 cds g16309.t7.CDS2 9040336 9040731
chr_4 g16309 g16309.t7 TSS g16309.t7 9041243 9041243
chr_4 g16309 g16309.t7 TTS g16309.t7 NA NA

Sequences

>g16309.t7 Gene=g16309 Length=474
GTTGATGGACATGCAACACCTGTAGAAATTATCGATGACTTCAATCTTTTCTTCAGGATT
GTTGTAGCAAATTCTCGACCTTTAATAATAATTTCATCAGTTGTTGGTTGGATTTATTTT
GTAGCATGGAGTGTTTCTTTTTATCCGCAAGTTTGGTTAAATTTCAAAAGAAAATCTGTG
GTTGGATTGAGTTTTGACTTTTTGGCATTAAATATTGTTGGTCATACTCTTTATGCTGTA
TTTAATTCATCATTGTATTTTATCAAATATTTCCAAGATGAATATTTTGTTCGATTTCCT
CATGGATTGAATCCTGTTGAACTTAATGATGTTTTCTTCAGTATTCATGCTTCAGTTTTG
ACATTTTTGACTATTTGTCAATGTTTTTATTATGAAAGTGGAACACAAAGGGTTTCAAAA
ATATCATGGTCTATTATTGGAATTTTCACAATTACTGCTCTTGTTATAATTATT

>g16309.t7 Gene=g16309 Length=158
VDGHATPVEIIDDFNLFFRIVVANSRPLIIISSVVGWIYFVAWSVSFYPQVWLNFKRKSV
VGLSFDFLALNIVGHTLYAVFNSSLYFIKYFQDEYFVRFPHGLNPVELNDVFFSIHASVL
TFLTICQCFYYESGTQRVSKISWSIIGIFTITALVIII

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g16309.t7 Gene3D G3DSA:1.20.1280.290 - 27 91 2.4E-5
2 g16309.t7 PANTHER PTHR13131 CYSTINOSIN 22 157 1.3E-52
3 g16309.t7 PANTHER PTHR13131:SF5 CYSTINOSIN 22 157 1.3E-52
1 g16309.t7 Pfam PF04193 PQ loop repeat 31 85 4.6E-20
12 g16309.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 27 -
15 g16309.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 28 48 -
11 g16309.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 49 59 -
18 g16309.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 60 81 -
14 g16309.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 82 110 -
17 g16309.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 111 131 -
10 g16309.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 132 137 -
16 g16309.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 138 157 -
13 g16309.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 158 158 -
8 g16309.t7 SMART SM00679 ctns 45 76 1.4E-10
7 g16309.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 28 47 -
6 g16309.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 59 81 -
5 g16309.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 112 131 -
4 g16309.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 138 157 -

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