Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative High affinity copper uptake protein 1.

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_2 g7767 g7767.t17 TSS g7767.t17 25871683 25871683
chr_2 g7767 g7767.t17 isoform g7767.t17 25871963 25873057
chr_2 g7767 g7767.t17 exon g7767.t17.exon1 25871963 25872157
chr_2 g7767 g7767.t17 cds g7767.t17.CDS1 25872003 25872157
chr_2 g7767 g7767.t17 exon g7767.t17.exon2 25872469 25873057
chr_2 g7767 g7767.t17 cds g7767.t17.CDS2 25872469 25872670
chr_2 g7767 g7767.t17 TTS g7767.t17 25873093 25873093

Sequences

>g7767.t17 Gene=g7767 Length=784
TCAATGGACGATTGACAGTTGCTTTGGTCTTGTGTGGTCAATGATTGTTATTTTCATTTT
TGGTATTCTATATGAAGGTTTAAAATATTATCGTGAACATTTATTCTGGAAGACTTATAA
TGCATTGCAATACAGAGCAGTAGGTGCTCCAGAGAAAAATGGAACATCTGAAAATGCCGA
TTCACGTGTTGTACAACCAACAATATTTTCACTGATGCATCTTTATCAATCGTTTCTACA
TTTAATTCAAGTAACATTATCACTAATGCTGATGCTCATATTTATGACATACAACACATG
GTTATGTCTTGCCGTTGTTTTTGGAGCTATGGTAGGATACTTTTTGTTCGGATGGAAGAA
ATCAATAGTAGTCGATGTTACAGAGCATTGTCATTGAATCGCTCTGAATCTATTCGACTC
GTTATGTAAAATCTTCAAACGAGTCCAGAGTCTCAATTTAAGAATATCATATGTGAACAT
AAACATAATAAAAATCGTAAGATATCATGTCTGGAATTGCCTCCGATCGGTCATAAGAAG
AACTTTAAACAGATTAAGAAGATACACATAAAACACAATGATCAGCCAGTAAAAAAACAT
TGTGAAATGTTGATCATATCTGCATTTTGTTTAAAGTGGTGATATAAAGACTCTGATAAT
ACATAATACCTAAATAGTTTAATGAAAAAGAATTTAGATGTATAGTTTATATTATTCTTT
CAATATGGAACAACAACATGCTGACAAAAATGTGTCTTATTACACATTATAAAACTTACA
TACA

>g7767.t17 Gene=g7767 Length=118
MIVIFIFGILYEGLKYYREHLFWKTYNALQYRAVGAPEKNGTSENADSRVVQPTIFSLMH
LYQSFLHLIQVTLSLMLMLIFMTYNTWLCLAVVFGAMVGYFLFGWKKSIVVDVTEHCH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g7767.t17 PANTHER PTHR12483:SF22 HIGH AFFINITY COPPER UPTAKE PROTEIN 1 2 118 1.7E-33
3 g7767.t17 PANTHER PTHR12483 SOLUTE CARRIER FAMILY 31 COPPER TRANSPORTERS 2 118 1.7E-33
1 g7767.t17 Pfam PF04145 Ctr copper transporter family 1 103 3.2E-20
7 g7767.t17 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 60 -
9 g7767.t17 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 61 80 -
5 g7767.t17 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 81 86 -
8 g7767.t17 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 87 105 -
6 g7767.t17 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 106 118 -
4 g7767.t17 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 83 105 -

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:0035434 copper ion transmembrane transport BP
GO:0016021 integral component of membrane CC
GO:0005375 copper ion transmembrane transporter activity MF

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. There were no conditions that were differentially expressed