Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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_1 g9948 g9948.t4 TSS g9948.t4 6137508 6137508
chr_1 g9948 g9948.t4 isoform g9948.t4 6137533 6138529
chr_1 g9948 g9948.t4 exon g9948.t4.exon1 6137533 6138529
chr_1 g9948 g9948.t4 cds g9948.t4.CDS1 6137650 6138528
chr_1 g9948 g9948.t4 TTS g9948.t4 NA NA

Sequences

>g9948.t4 Gene=g9948 Length=997
AGTAATCGTGCTCATATAGAAAAAGTAATAAAATAAGTCGAATTAAGTGAAAGCACGAGA
ACATATTCAATTTTATTGCAGGAAGGAGATAGTTTGAAAATTAAAAAAAATTTAGAGATG
CCGACCTTATTGCAAGAAGATTACACTCACGAAAAAGATGTGATCATTGCAAAAGTTGCA
ACAGGTTTAGGACTTTTTTTAATTTCAACACTATGTGGTGTAATTCCATTTAAATTAGCA
AAAATATTCAAATGGTCAGAGCCAATAGATCCAAATTCTAAAAGTGATAAAAAATCAGCA
AAAGTAGTTTCAGTTCTATTATGTTTCGGAGGAGGTGTGCTATTGGCAACGACATTTTTA
CATTTATTACCAGACGTGAATGGTGAGATTGCAATTTTAAAAGCTGAAGGTCGCATTCCA
GAATGGCATATAGAATTAGGAGAATTACTTATGATGCTTGGATTCTTTTTAATATATTTG
ATTGAAGAAATTGTGCATCATTATCTACATCGTTATCAAGCAAATTTAAAGAAAAAATCA
CAAACTAGCATTGCAACGATGAAACCTGAGGAAGAAAGTTATGCAGAAGCATTAATGCGT
GGAATAACAGCTAGAAATAGTATACATCGACGTTTTTCAGATGTAAGTTGTATGAATCCC
GTAAGCTGCATCAATCCAGCACATTCCCATTCACGTCGAGGTTCTACACATGATCTTTCA
AATAATACAAAAACCTTATCAGCAACTGAGAAAGGTCAAATGGAAATGTCAGTTCACGAG
AAAAATCATACGCATAATCATGGTCATTCTCACGAAAACGGACATGGCCATGGTCACTCA
CATGCACTTCCTATACCACATACCGAAGATGAAGATATGCTCGTTTCATCACTACGTGGA
TTACTAATTGTCCTTGCACTTTCAATTCACGAATTATTTGAGGGCTTTGCTGTTGGATTA
CAAAAGGACAGCACAGGAGTGTATTATATGTTTGCAG

>g9948.t4 Gene=g9948 Length=293
MPTLLQEDYTHEKDVIIAKVATGLGLFLISTLCGVIPFKLAKIFKWSEPIDPNSKSDKKS
AKVVSVLLCFGGGVLLATTFLHLLPDVNGEIAILKAEGRIPEWHIELGELLMMLGFFLIY
LIEEIVHHYLHRYQANLKKKSQTSIATMKPEEESYAEALMRGITARNSIHRRFSDVSCMN
PVSCINPAHSHSRRGSTHDLSNNTKTLSATEKGQMEMSVHEKNHTHNHGHSHENGHGHGH
SHALPIPHTEDEDMLVSSLRGLLIVLALSIHELFEGFAVGLQKDSTGVYYMFA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g9948.t4 MobiDBLite mobidb-lite consensus disorder prediction 219 241 -
2 g9948.t4 PANTHER PTHR11040:SF137 ZINC TRANSPORTER ZIP1 12 293 8.3E-35
3 g9948.t4 PANTHER PTHR11040 ZINC/IRON TRANSPORTER 12 293 8.3E-35
1 g9948.t4 Pfam PF02535 ZIP Zinc transporter 19 290 4.0E-34
10 g9948.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
13 g9948.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 40 -
8 g9948.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 41 60 -
14 g9948.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 61 83 -
11 g9948.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 84 102 -
12 g9948.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 103 122 -
9 g9948.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 123 293 -
5 g9948.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 37 -
6 g9948.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 63 85 -
4 g9948.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 100 122 -

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:0016020 membrane CC
GO:0055085 transmembrane transport BP
GO:0046873 metal ion transmembrane transporter activity MF
GO:0030001 metal ion transport BP

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