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.t12 TTS g3045.t12 22327224 22327224
chr_3 g3045 g3045.t12 isoform g3045.t12 22327462 22330342
chr_3 g3045 g3045.t12 exon g3045.t12.exon1 22327462 22328207
chr_3 g3045 g3045.t12 cds g3045.t12.CDS1 22327462 22328207
chr_3 g3045 g3045.t12 exon g3045.t12.exon2 22328276 22328398
chr_3 g3045 g3045.t12 cds g3045.t12.CDS2 22328276 22328398
chr_3 g3045 g3045.t12 exon g3045.t12.exon3 22328843 22329194
chr_3 g3045 g3045.t12 cds g3045.t12.CDS3 22328843 22329029
chr_3 g3045 g3045.t12 exon g3045.t12.exon4 22330303 22330342
chr_3 g3045 g3045.t12 TSS g3045.t12 22330341 22330341

Sequences

>g3045.t12 Gene=g3045 Length=1261
TAATTTTGATATTGAAATTGAAAGTAGTGAAAATTATTTTCCAATTCTTTTATCGAGTGT
ATTTTAAGTGGAAGCAACTAAATCAATTGATTGAATTGCAAATTCGAAGCAATGAACAGT
TATTAATACGATTCTTTGAAACTACAAAAATTACTTTTAATTGAAATTTCTTCTGATAAT
AACCATCAACTTCTTATTTACTCAAATGAATTCATCAATGGATGCCATTTCAACAATTTT
GGATCTATATGTGCCCGAGTACATAAAAACTATAGAATATGTGCCATGGATATTTTCTTT
ATTTGGATCAGCACTAATAGGTTTAAGTGGTATATTACCACTATTAATTATACCAAACCA
TGAACCAGGCAAAGAAAGTGAAATGAAAAATCCTGCAGATTCAAAATTCTTAAAAACGCT
GTTGAGTTTTGCTGTTGGTGGTCTATTGGGTGATGTTTTTTTACATTTGCTACCAGAAGC
ATGGGAATCAGATATGAAGGATAGAAGTCTCAGCGGTGATGAGCATCCATCGATAAGAAG
CGGCATGTGGGTGTTATCGGGAGTTTTAATTTTTACAATTGTGGAGAAAATCTTCAGTGG
CTATGCAAATGCAGATGAAAATAATCCTCAACCGAAATGTGTTGAAATTGCAAATTGTTT
GCTTCGTCGGAATGGTGGAAAATTGCCTGAAGGAGCAGTCAGCTGTGCCCCAAACGGATC
TTGTGATATAGAAGATATTCCTAATGGTATTCCTTGCTTCTTGGCTGAAAAAGATAAAAA
AGGAAAAGAACCGCCATCAAAAAAAGTCGCAGGATATTTAAATTTACTTGCAAACAGCAT
TGACAACTTTACACATGGTTTAGCAGTTGCTGGTTCTTTTTTGGTATCTTTAAGACATGG
AATTTTAGCAACGTTTGCAATTTTACTGCATGAAATTCCACATGAAGTTGGCGATTTTGC
AATTTTACTACGGTCTGGTTTCACACGATGGGATGCAGCCAAAGCTCAATTATTGACAGC
TGGTGCTGGTTTATTAGGCGCACTCGTAGCAATTGGAGGTTCAGGCGTGACTTCAGCTAT
GGAAGCAAGAACATCTTGGATCATGCCTTTTACAGCAGGCGGCTTTTTACATATTGCTCT
TGTAACAGTTCTTCCTGATTTACTTGAAGAAGAGGATAAAATTGAATCATTAAAGCAATT
AGGAGCATTAGTGCTCGGCATTGTTGTGATGGCTGTGCTCACCGTTACATTAGAACATTG
A

>g3045.t12 Gene=g3045 Length=351
MNSSMDAISTILDLYVPEYIKTIEYVPWIFSLFGSALIGLSGILPLLIIPNHEPGKESEM
KNPADSKFLKTLLSFAVGGLLGDVFLHLLPEAWESDMKDRSLSGDEHPSIRSGMWVLSGV
LIFTIVEKIFSGYANADENNPQPKCVEIANCLLRRNGGKLPEGAVSCAPNGSCDIEDIPN
GIPCFLAEKDKKGKEPPSKKVAGYLNLLANSIDNFTHGLAVAGSFLVSLRHGILATFAIL
LHEIPHEVGDFAILLRSGFTRWDAAKAQLLTAGAGLLGALVAIGGSGVTSAMEARTSWIM
PFTAGGFLHIALVTVLPDLLEEEDKIESLKQLGALVLGIVVMAVLTVTLEH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3045.t12 PANTHER PTHR16950 ZINC TRANSPORTER SLC39A7 HISTIDINE-RICH MEMBRANE PROTEIN KE4 25 347 2.4E-99
3 g3045.t12 PANTHER PTHR16950:SF16 ZINC TRANSPORTER ZIP13 25 347 2.4E-99
1 g3045.t12 Pfam PF02535 ZIP Zinc transporter 27 345 3.3E-59
15 g3045.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 24 -
18 g3045.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 25 48 -
12 g3045.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 49 67 -
22 g3045.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 68 89 -
16 g3045.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 90 108 -
21 g3045.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 109 126 -
10 g3045.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 127 268 -
20 g3045.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 269 292 -
14 g3045.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 293 297 -
17 g3045.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 298 320 -
11 g3045.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 321 331 -
19 g3045.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 332 349 -
13 g3045.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 350 351 -
8 g3045.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 28 50 -
9 g3045.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 71 93 -
7 g3045.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 113 135 -
5 g3045.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 269 288 -
4 g3045.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 298 320 -
6 g3045.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 332 349 -

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