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.t6 TTS g3045.t6 22327224 22327224
chr_3 g3045 g3045.t6 isoform g3045.t6 22327462 22329029
chr_3 g3045 g3045.t6 exon g3045.t6.exon1 22327462 22328398
chr_3 g3045 g3045.t6 cds g3045.t6.CDS1 22327462 22328178
chr_3 g3045 g3045.t6 exon g3045.t6.exon2 22328843 22329029
chr_3 g3045 g3045.t6 TSS g3045.t6 22329328 22329328

Sequences

>g3045.t6 Gene=g3045 Length=1124
ATGAATTCATCAATGGATGCCATTTCAACAATTTTGGATCTATATGTGCCCGAGTACATA
AAAACTATAGAATATGTGCCATGGATATTTTCTTTATTTGGATCAGCACTAATAGGTTTA
AGTGGTATATTACCACTATTAATTATACCAAACCATGAACCAGGCAAAGAAAGTGAAATG
AAAAATCCTGCAGATTCAAAATTCTTAAAAACGCTGTTGAGTTTTGCTGTTGGTGGTCTA
TTGGGTGATGTTTTTTTACATTTGCTACCAGAAGCATGGGAATCAGATATGAAGGATAGA
AGTCTCAGCGGTTAGTAGCAGTTTCCTTATCTTTTTACTTCAAAATAAGCACGTTTTTAT
TGCTCATAATATTTGCAGGTGATGAGCATCCATCGATAAGAAGCGGCATGTGGGTGTTAT
CGGGAGTTTTAATTTTTACAATTGTGGAGAAAATCTTCAGTGGCTATGCAAATGCAGATG
AAAATAATCCTCAACCGAAATGTGTTGAAATTGCAAATTGTTTGCTTCGTCGGAATGGTG
GAAAATTGCCTGAAGGAGCAGTCAGCTGTGCCCCAAACGGATCTTGTGATATAGAAGATA
TTCCTAATGGTATTCCTTGCTTCTTGGCTGAAAAAGATAAAAAAGGAAAAGAACCGCCAT
CAAAAAAAGTCGCAGGATATTTAAATTTACTTGCAAACAGCATTGACAACTTTACACATG
GTTTAGCAGTTGCTGGTTCTTTTTTGGTATCTTTAAGACATGGAATTTTAGCAACGTTTG
CAATTTTACTGCATGAAATTCCACATGAAGTTGGCGATTTTGCAATTTTACTACGGTCTG
GTTTCACACGATGGGATGCAGCCAAAGCTCAATTATTGACAGCTGGTGCTGGTTTATTAG
GCGCACTCGTAGCAATTGGAGGTTCAGGCGTGACTTCAGCTATGGAAGCAAGAACATCTT
GGATCATGCCTTTTACAGCAGGCGGCTTTTTACATATTGCTCTTGTAACAGTTCTTCCTG
ATTTACTTGAAGAAGAGGATAAAATTGAATCATTAAAGCAATTAGGAGCATTAGTGCTCG
GCATTGTTGTGATGGCTGTGCTCACCGTTACATTAGAACATTGA

>g3045.t6 Gene=g3045 Length=238
MWVLSGVLIFTIVEKIFSGYANADENNPQPKCVEIANCLLRRNGGKLPEGAVSCAPNGSC
DIEDIPNGIPCFLAEKDKKGKEPPSKKVAGYLNLLANSIDNFTHGLAVAGSFLVSLRHGI
LATFAILLHEIPHEVGDFAILLRSGFTRWDAAKAQLLTAGAGLLGALVAIGGSGVTSAME
ARTSWIMPFTAGGFLHIALVTVLPDLLEEEDKIESLKQLGALVLGIVVMAVLTVTLEH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3045.t6 PANTHER PTHR16950 ZINC TRANSPORTER SLC39A7 HISTIDINE-RICH MEMBRANE PROTEIN KE4 1 233 1.5E-73
1 g3045.t6 Pfam PF02535 ZIP Zinc transporter 2 232 5.8E-41
9 g3045.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 155 -
14 g3045.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 156 179 -
11 g3045.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 180 184 -
13 g3045.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 185 207 -
8 g3045.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 208 218 -
12 g3045.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 219 236 -
10 g3045.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 237 238 -
7 g3045.t6 SignalP_EUK SignalP-noTM SignalP-noTM 1 23 -
6 g3045.t6 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 23 -
3 g3045.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 156 178 -
5 g3045.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 185 204 -
4 g3045.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 219 236 -

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