Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Zinc/cadmium resistance 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_1 g9716 g9716.t3 isoform g9716.t3 4778261 4782353
chr_1 g9716 g9716.t3 exon g9716.t3.exon1 4778261 4778983
chr_1 g9716 g9716.t3 exon g9716.t3.exon2 4781746 4781943
chr_1 g9716 g9716.t3 cds g9716.t3.CDS1 4781767 4781943
chr_1 g9716 g9716.t3 exon g9716.t3.exon3 4782024 4782353
chr_1 g9716 g9716.t3 cds g9716.t3.CDS2 4782024 4782353
chr_1 g9716 g9716.t3 TSS g9716.t3 NA NA
chr_1 g9716 g9716.t3 TTS g9716.t3 NA NA

Sequences

>g9716.t3 Gene=g9716 Length=1251
TTTTATTTAATTGCAACATATTTGTTGATTTCAAACAGTAAAATACATCCATGTAAAAAT
TTCAAAATTTACAACAGTGACATGAATTCAGCCATTTTATTTCCAATCTACTCATTCGAT
TTTTAAGTTTTTGCGAGCAAGTCATTTGATTTTTAAAAGAACGTGAAAATGGTGGTAAAT
AAATAAGAACAATGAATCTTATAAAAATGAGAACAAAGAAGTAGGTCTGTGAATTCGCGT
AAAATTTGAGTGAAAATTTCTCTCTCTCTTTCATACAATTTAATGAAAAGATACATTGAA
AATCTATAGTAAAGTGATAATAGCTTTTAAGTGAACGAGAGAGGAAGAGAGAGACAAGAC
GAAAGGAAGAAGTATAAAAAATATTCGCACGGCACCAAACAGTGAGAGAGTAAAAAAGAA
TAAAATATTGTCATTAATATAAGTTTTTATATCGAAAAACGATTGAAATTGAAACAAAGA
CAGAAAAACAGTAGTGTGAAAAGAGTGAACACAAAAAGATTAATTTATCATAGCAGTCGG
GAAATGCAAAATAAATAAATCCAGTGTTACAAAAAATCTAGTCATACTCGTTCGCTATCA
AAAAACAGAGTTTTAATATACAAATTTATTATTTTCGTTCAAATTTATATAAATTTTGAC
AATCAATTAACTCGAGAGTGCTACTATAATAAGATAATAGCAAATTCCAGAAAAAGTCCA
AAGAATAATAAATAAACAACAAAAATGGGGAAATTTAGTGGTAAAAAATGTCGATTACTC
TCGGTCATGCTTCTCACAATCAGCTTCTTTTTTGTGGAAATTATAACTGGTTATGTGACG
AATTCAATGTCATTAGTAGCCGATTCATTTCATATGTTGGGAGATATTGCAGCTCTAGTC
ATTTCATTTCTCTCAGTGAAGATGTCACCGAAAAAGTGGAGTAAAAATACATTTGGATGG
GCACGTGCTGAAGTCTTGGGAGCATTAGTGAATGCTGTTTTTCTTGTCGCACTGTGTTTC
AGTATAACAGTTGAATCGATCAAGCGATTCATTGATCTGGAAGAAATACATCATCCTGAA
AATGTGCTCATTGTTGGATTCATTGGACTTTTAGTGAATCTTGTAGGTCTTGTTTTACTT
TATGATGGCGGTCATCATGGTCATTCACATGGTGGCCATACAAAACTTACGCAATTGTCT
TCTATCGATGATAATGAAAATGAAGATTACATTTTTGGTGACCCACCTAAA

>g9716.t3 Gene=g9716 Length=169
MGKFSGKKCRLLSVMLLTISFFFVEIITGYVTNSMSLVADSFHMLGDIAALVISFLSVKM
SPKKWSKNTFGWARAEVLGALVNAVFLVALCFSITVESIKRFIDLEEIHHPENVLIVGFI
GLLVNLVGLVLLYDGGHHGHSHGGHTKLTQLSSIDDNENEDYIFGDPPK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g9716.t3 Gene3D G3DSA:1.20.1510.10 - 8 151 2.5E-25
2 g9716.t3 PANTHER PTHR45820:SF2 ZINC TRANSPORTER 63C, ISOFORM F 1 160 4.8E-83
3 g9716.t3 PANTHER PTHR45820 FI23527P1 1 160 4.8E-83
1 g9716.t3 Pfam PF01545 Cation efflux family 14 142 1.6E-32
12 g9716.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
18 g9716.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
14 g9716.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 32 36 -
19 g9716.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 37 56 -
13 g9716.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 57 76 -
17 g9716.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 77 95 -
15 g9716.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 96 114 -
16 g9716.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 115 133 -
11 g9716.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 134 169 -
8 g9716.t3 SUPERFAMILY SSF161111 Cation efflux protein transmembrane domain-like 7 142 9.94E-34
10 g9716.t3 TIGRFAM TIGR01297 CDF: cation diffusion facilitator family transporter 10 141 9.3E-36
7 g9716.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
6 g9716.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 41 58 -
5 g9716.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 77 99 -
4 g9716.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 114 133 -

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:0055085 transmembrane transport BP
GO:0016021 integral component of membrane CC
GO:0006812 cation transport BP
GO:0008324 cation transmembrane transporter activity MF

KEGG

Orthology

Pathway

This gene does not belong to any 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