Gene loci information

Transcript annotation

  • This transcript has been annotated as Zinc transporter ZIP13-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_3 g3045 g3045.t4 TTS g3045.t4 22327224 22327224
chr_3 g3045 g3045.t4 isoform g3045.t4 22327462 22328398
chr_3 g3045 g3045.t4 exon g3045.t4.exon1 22327462 22328207
chr_3 g3045 g3045.t4 cds g3045.t4.CDS1 22327462 22328207
chr_3 g3045 g3045.t4 exon g3045.t4.exon2 22328276 22328398
chr_3 g3045 g3045.t4 cds g3045.t4.CDS2 22328276 22328297
chr_3 g3045 g3045.t4 TSS g3045.t4 22329328 22329328

Sequences

>g3045.t4 Gene=g3045 Length=869
CTGCAGATTCAAAATTCTTAAAAACGCTGTTGAGTTTTGCTGTTGGTGGTCTATTGGGTG
ATGTTTTTTTACATTTGCTACCAGAAGCATGGGAATCAGATATGAAGGATAGAAGTCTCA
GCGGTGATGAGCATCCATCGATAAGAAGCGGCATGTGGGTGTTATCGGGAGTTTTAATTT
TTACAATTGTGGAGAAAATCTTCAGTGGCTATGCAAATGCAGATGAAAATAATCCTCAAC
CGAAATGTGTTGAAATTGCAAATTGTTTGCTTCGTCGGAATGGTGGAAAATTGCCTGAAG
GAGCAGTCAGCTGTGCCCCAAACGGATCTTGTGATATAGAAGATATTCCTAATGGTATTC
CTTGCTTCTTGGCTGAAAAAGATAAAAAAGGAAAAGAACCGCCATCAAAAAAAGTCGCAG
GATATTTAAATTTACTTGCAAACAGCATTGACAACTTTACACATGGTTTAGCAGTTGCTG
GTTCTTTTTTGGTATCTTTAAGACATGGAATTTTAGCAACGTTTGCAATTTTACTGCATG
AAATTCCACATGAAGTTGGCGATTTTGCAATTTTACTACGGTCTGGTTTCACACGATGGG
ATGCAGCCAAAGCTCAATTATTGACAGCTGGTGCTGGTTTATTAGGCGCACTCGTAGCAA
TTGGAGGTTCAGGCGTGACTTCAGCTATGGAAGCAAGAACATCTTGGATCATGCCTTTTA
CAGCAGGCGGCTTTTTACATATTGCTCTTGTAACAGTTCTTCCTGATTTACTTGAAGAAG
AGGATAAAATTGAATCATTAAAGCAATTAGGAGCATTAGTGCTCGGCATTGTTGTGATGG
CTGTGCTCACCGTTACATTAGAACATTGA

>g3045.t4 Gene=g3045 Length=255
MKDRSLSGDEHPSIRSGMWVLSGVLIFTIVEKIFSGYANADENNPQPKCVEIANCLLRRN
GGKLPEGAVSCAPNGSCDIEDIPNGIPCFLAEKDKKGKEPPSKKVAGYLNLLANSIDNFT
HGLAVAGSFLVSLRHGILATFAILLHEIPHEVGDFAILLRSGFTRWDAAKAQLLTAGAGL
LGALVAIGGSGVTSAMEARTSWIMPFTAGGFLHIALVTVLPDLLEEEDKIESLKQLGALV
LGIVVMAVLTVTLEH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3045.t4 PANTHER PTHR16950 ZINC TRANSPORTER SLC39A7 HISTIDINE-RICH MEMBRANE PROTEIN KE4 13 250 2.8E-75
1 g3045.t4 Pfam PF02535 ZIP Zinc transporter 9 249 7.2E-43
8 g3045.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
13 g3045.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 30 -
6 g3045.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 31 172 -
11 g3045.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 173 196 -
10 g3045.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 197 201 -
14 g3045.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 202 224 -
7 g3045.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 225 235 -
12 g3045.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 236 253 -
9 g3045.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 254 255 -
4 g3045.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 173 192 -
5 g3045.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 202 224 -
3 g3045.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 236 253 -

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

Pathway

  • This transcript belongs to the following pathways

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