Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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.t9 TSS g7767.t9 25870003 25870003
chr_2 g7767 g7767.t9 isoform g7767.t9 25870364 25873037
chr_2 g7767 g7767.t9 exon g7767.t9.exon1 25870364 25870470
chr_2 g7767 g7767.t9 exon g7767.t9.exon2 25871684 25871867
chr_2 g7767 g7767.t9 cds g7767.t9.CDS1 25871697 25871867
chr_2 g7767 g7767.t9 exon g7767.t9.exon3 25871928 25872188
chr_2 g7767 g7767.t9 cds g7767.t9.CDS2 25871928 25872161
chr_2 g7767 g7767.t9 exon g7767.t9.exon4 25872469 25873037
chr_2 g7767 g7767.t9 TTS g7767.t9 25873093 25873093

Sequences

>g7767.t9 Gene=g7767 Length=1121
GCATCCATCTGCTTATCCTTTAAAAATCGCCCACATAGAAAAGTTCTTATCATTGACTGC
ACTTCATATTACGCGATAAGAAAGTGAAACTGTAAATAAAACATAAGAATATTATAAAAT
ATGGGAGATCACGCACATCATCATCATCATCATATGCCAGACCTTGATGCAACAAGTGCT
ATGCCAGTGCTTTCAACTGGAATGGATCATCATCACATGCATTCCGATATGGGACATTCA
ATGAATGACTCAGCTGCATCTCATGCTTTTCATCACATGATGTCCATGGCTTTTCATGGC
GGTTGCAACGAAACAATTTTATTCACTCAATGGACGATTGACAGTTGCTTTGGTCTTGTG
TGGTCAATGATTGTTATTTTCATTTTTGGTATTCTATATGAAGGTTTAAAATATTATCGT
GAACATTTATTCTGGAAGACTTATAATGCATTGCAATACAGAGCAGTAGGTGCTCCAGAG
AAAAATGGAACATCTGAAAATGCCGATTCACGTGTTGTACAGTAAGTAGAAAATCATTGA
ATTTATTCTAAAACCAACAATATTTTCACTGATGCATCTTTATCAATCGTTTCTACATTT
AATTCAAGTAACATTATCACTAATGCTGATGCTCATATTTATGACATACAACACATGGTT
ATGTCTTGCCGTTGTTTTTGGAGCTATGGTAGGATACTTTTTGTTCGGATGGAAGAAATC
AATAGTAGTCGATGTTACAGAGCATTGTCATTGAATCGCTCTGAATCTATTCGACTCGTT
ATGTAAAATCTTCAAACGAGTCCAGAGTCTCAATTTAAGAATATCATATGTGAACATAAA
CATAATAAAAATCGTAAGATATCATGTCTGGAATTGCCTCCGATCGGTCATAAGAAGAAC
TTTAAACAGATTAAGAAGATACACATAAAACACAATGATCAGCCAGTAAAAAAACATTGT
GAAATGTTGATCATATCTGCATTTTGTTTAAAGTGGTGATATAAAGACTCTGATAATACA
TAATACCTAAATAGTTTAATGAAAAAGAATTTAGATGTATAGTTTATATTATTCTTTCAA
TATGGAACAACAACATGCTGACAAAAATGTGTCTTATTACA

>g7767.t9 Gene=g7767 Length=134
MGDHAHHHHHHMPDLDATSAMPVLSTGMDHHHMHSDMGHSMNDSAASHAFHHMMSMAFHG
GCNETILFTQWTIDSCFGLVWSMIVIFIFGILYEGLKYYREHLFWKTYNALQYRAVGAPE
KNGTSENADSRVVQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g7767.t9 PANTHER PTHR12483:SF27 COPPER TRANSPORTER 1A, ISOFORM C-RELATED 28 110 1.6E-13
3 g7767.t9 PANTHER PTHR12483 SOLUTE CARRIER FAMILY 31 COPPER TRANSPORTERS 28 110 1.6E-13
1 g7767.t9 Pfam PF04145 Ctr copper transporter family 56 115 4.3E-12
6 g7767.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 76 -
7 g7767.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 77 96 -
5 g7767.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 97 134 -
4 g7767.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 77 96 -

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

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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