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.t5 TTS g16309.t5 9038698 9038698
chr_4 g16309 g16309.t5 isoform g16309.t5 9038760 9041220
chr_4 g16309 g16309.t5 exon g16309.t5.exon1 9038760 9038962
chr_4 g16309 g16309.t5 exon g16309.t5.exon2 9039367 9039460
chr_4 g16309 g16309.t5 exon g16309.t5.exon3 9040019 9040882
chr_4 g16309 g16309.t5 cds g16309.t5.CDS1 9040321 9040882
chr_4 g16309 g16309.t5 exon g16309.t5.exon4 9041078 9041220
chr_4 g16309 g16309.t5 cds g16309.t5.CDS2 9041078 9041220
chr_4 g16309 g16309.t5 TSS g16309.t5 9041243 9041243

Sequences

>g16309.t5 Gene=g16309 Length=1304
ATGAAAAATTATTTTGTGACAATTTTGGTGCTATTTTGTTGCTTCTATGAGTTTCATGGA
GCAGATTTACCAAGTTTTGAGCTCTCTACTGATGGATTTACATTAATTGTTGGGGAAAGT
GAAGAAATTCGATTGTCATTGAATTCTCCTGTAACTCGAGCAGTCACATTTAATTTCGAG
ACAGATCGCGATGAAATCATCACACTTAATCCAAAATCTTTCACAGTTCTACCTTCTGTG
CCTGTTACAAATCAAACAATAAAAGTTGAAACACATAAAGCTGGAAAAGTTGAAGTTGAT
GGACATGCAACACCTGTAGAAATTATCGATGACTTCAATCTTTTCTTCAGGATTGTTGTA
GCAAATTCTCGACCTTTAATAATAATTTCATCAGTTGTTGGTTGGATTTATTTTGTAGCA
TGGAGTGTTTCTTTTTATCCGCAAGTTTGGTTAAATTTCAAAAGAAAATCTGTGGTTGGA
TTGAGTTTTGACTTTTTGGCATTAAATATTGTTGGTCATACTCTTTATGCTGTATTTAAT
TCATCATTGTATTTTATCAAATATTTCCAAGATGAATATTTTGTTCGATTTCCTCATGGA
TTGAATCCTGTTGAACTTAATGATGTTTTCTTCAGTATTCATGCTTCAGTTTTGACATTT
TTGACTATTTGTCAATGTTTTTATTATGAAGTGAGTAAATTATAACAAAGAAATATTTTT
ACACTCATGACTAAATGAAATTTTATTTATTTCAAAAAGTTTCTTAATCAAAAGCTATTT
TAATTCTAATCTTATTTTTATTGTATTTTTAGAGTGGAACACAAAGGGTTTCAAAAATAT
CATGGTCTATTATTGGAATTTTCACAATTACTGCTCTTGTTATAATTATTCTATGCTCAA
TTGGAAATCTTCATTGGTTGGACTTTTTGTATACATGCAGTTATATCAAATTGGCTGTGA
CTTTAACTAAATATGTTCCACAAGCTTTCTTGAATTATAAGAGAAAAAGCACTGTAGGCT
GGAGTATTGAGAATATTCTTCTTGATTTTACTGGAGGAATTTTGTCAATGTTGCAAATGA
TCTTCAACTCTTATAATTACAATGACTGGGCTTCAATCTTTGGTGATCCAACAAAATTCG
GTCTTGGACTCTTTTCAGTTCTTTTCGATATTGTTTTTATTGTACAACATTATGTGCTTT
ACAAAGATGCAAGACATCAAAAGAATAATGACAATAACACAACAGAAGTTGAAAATACGG
AAGTCACAATTGAACCAGAAGATAAAGAAAAAGAAAATATTTAA

>g16309.t5 Gene=g16309 Length=234
MKNYFVTILVLFCCFYEFHGADLPSFELSTDGFTLIVGESEEIRLSLNSPVTRAVTFNFE
TDRDEIITLNPKSFTVLPSVPVTNQTIKVETHKAGKVEVDGHATPVEIIDDFNLFFRIVV
ANSRPLIIISSVVGWIYFVAWSVSFYPQVWLNFKRKSVVGLSFDFLALNIVGHTLYAVFN
SSLYFIKYFQDEYFVRFPHGLNPVELNDVFFSIHASVLTFLTICQCFYYEVSKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g16309.t5 PANTHER PTHR13131 CYSTINOSIN 120 231 1.1E-46
3 g16309.t5 PANTHER PTHR13131:SF5 CYSTINOSIN 120 231 1.1E-46
1 g16309.t5 Pfam PF04193 PQ loop repeat 129 183 9.9E-20
13 g16309.t5 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
14 g16309.t5 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 4 -
15 g16309.t5 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 5 15 -
19 g16309.t5 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 20 -
11 g16309.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 125 -
18 g16309.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 126 146 -
9 g16309.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 147 157 -
17 g16309.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 158 179 -
12 g16309.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 180 208 -
16 g16309.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 209 229 -
10 g16309.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 230 234 -
7 g16309.t5 SMART SM00679 ctns 143 174 1.4E-10
8 g16309.t5 SignalP_EUK SignalP-noTM SignalP-noTM 1 20 -
6 g16309.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 126 145 -
4 g16309.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 157 179 -
5 g16309.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 209 231 -

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