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.t5 TTS g3045.t5 22327224 22327224
chr_3 g3045 g3045.t5 isoform g3045.t5 22327462 22329029
chr_3 g3045 g3045.t5 exon g3045.t5.exon1 22327462 22328207
chr_3 g3045 g3045.t5 cds g3045.t5.CDS1 22327462 22328207
chr_3 g3045 g3045.t5 exon g3045.t5.exon2 22328276 22328392
chr_3 g3045 g3045.t5 cds g3045.t5.CDS2 22328276 22328392
chr_3 g3045 g3045.t5 exon g3045.t5.exon3 22328843 22329029
chr_3 g3045 g3045.t5 cds g3045.t5.CDS3 22328843 22329029
chr_3 g3045 g3045.t5 TSS g3045.t5 22329328 22329328

Sequences

>g3045.t5 Gene=g3045 Length=1050
ATGAATTCATCAATGGATGCCATTTCAACAATTTTGGATCTATATGTGCCCGAGTACATA
AAAACTATAGAATATGTGCCATGGATATTTTCTTTATTTGGATCAGCACTAATAGGTTTA
AGTGGTATATTACCACTATTAATTATACCAAACCATGAACCAGGCAAAGAAAGTGAAATG
AAAAATCATTCAAAATTCTTAAAAACGCTGTTGAGTTTTGCTGTTGGTGGTCTATTGGGT
GATGTTTTTTTACATTTGCTACCAGAAGCATGGGAATCAGATATGAAGGATAGAAGTCTC
AGCGGTGATGAGCATCCATCGATAAGAAGCGGCATGTGGGTGTTATCGGGAGTTTTAATT
TTTACAATTGTGGAGAAAATCTTCAGTGGCTATGCAAATGCAGATGAAAATAATCCTCAA
CCGAAATGTGTTGAAATTGCAAATTGTTTGCTTCGTCGGAATGGTGGAAAATTGCCTGAA
GGAGCAGTCAGCTGTGCCCCAAACGGATCTTGTGATATAGAAGATATTCCTAATGGTATT
CCTTGCTTCTTGGCTGAAAAAGATAAAAAAGGAAAAGAACCGCCATCAAAAAAAGTCGCA
GGATATTTAAATTTACTTGCAAACAGCATTGACAACTTTACACATGGTTTAGCAGTTGCT
GGTTCTTTTTTGGTATCTTTAAGACATGGAATTTTAGCAACGTTTGCAATTTTACTGCAT
GAAATTCCACATGAAGTTGGCGATTTTGCAATTTTACTACGGTCTGGTTTCACACGATGG
GATGCAGCCAAAGCTCAATTATTGACAGCTGGTGCTGGTTTATTAGGCGCACTCGTAGCA
ATTGGAGGTTCAGGCGTGACTTCAGCTATGGAAGCAAGAACATCTTGGATCATGCCTTTT
ACAGCAGGCGGCTTTTTACATATTGCTCTTGTAACAGTTCTTCCTGATTTACTTGAAGAA
GAGGATAAAATTGAATCATTAAAGCAATTAGGAGCATTAGTGCTCGGCATTGTTGTGATG
GCTGTGCTCACCGTTACATTAGAACATTGA

>g3045.t5 Gene=g3045 Length=349
MNSSMDAISTILDLYVPEYIKTIEYVPWIFSLFGSALIGLSGILPLLIIPNHEPGKESEM
KNHSKFLKTLLSFAVGGLLGDVFLHLLPEAWESDMKDRSLSGDEHPSIRSGMWVLSGVLI
FTIVEKIFSGYANADENNPQPKCVEIANCLLRRNGGKLPEGAVSCAPNGSCDIEDIPNGI
PCFLAEKDKKGKEPPSKKVAGYLNLLANSIDNFTHGLAVAGSFLVSLRHGILATFAILLH
EIPHEVGDFAILLRSGFTRWDAAKAQLLTAGAGLLGALVAIGGSGVTSAMEARTSWIMPF
TAGGFLHIALVTVLPDLLEEEDKIESLKQLGALVLGIVVMAVLTVTLEH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3045.t5 PANTHER PTHR16950 ZINC TRANSPORTER SLC39A7 HISTIDINE-RICH MEMBRANE PROTEIN KE4 25 345 1.4E-99
3 g3045.t5 PANTHER PTHR16950:SF16 ZINC TRANSPORTER ZIP13 25 345 1.4E-99
1 g3045.t5 Pfam PF02535 ZIP Zinc transporter 27 343 7.1E-59
16 g3045.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 24 -
22 g3045.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 25 49 -
11 g3045.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 50 69 -
18 g3045.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 70 87 -
15 g3045.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 88 106 -
20 g3045.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 107 124 -
10 g3045.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 125 266 -
17 g3045.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 267 290 -
14 g3045.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 291 295 -
19 g3045.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 296 318 -
12 g3045.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 319 329 -
21 g3045.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 330 347 -
13 g3045.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 348 349 -
8 g3045.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 26 48 -
7 g3045.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 69 91 -
4 g3045.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 111 133 -
6 g3045.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 267 286 -
5 g3045.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 296 318 -
9 g3045.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 330 347 -

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