Gene loci information

Transcript annotation

  • This transcript has been annotated as Protein catecholamines up.

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 g10833 g10833.t7 TTS g10833.t7 12171298 12171298
chr_1 g10833 g10833.t7 isoform g10833.t7 12171299 12172364
chr_1 g10833 g10833.t7 exon g10833.t7.exon1 12171299 12172364
chr_1 g10833 g10833.t7 cds g10833.t7.CDS1 12171412 12172263
chr_1 g10833 g10833.t7 TSS g10833.t7 12172907 12172907

Sequences

>g10833.t7 Gene=g10833 Length=1066
ATGGTTTCAATATTTGGCTTCACTCAATAGGTTCAACACTTCTTATCAGTGCAGCTCCTT
TCTTTATTCTTTATTTAGTTCCGCTGGATAATACTGAAAAAATGCAACCTCGATTGAAAA
CGCTTCTTGCTTTCGCATCTGGTGGATTATTAGGTGATGCATTTTTACATCTCATTCCTC
ACTCTGTTGTACCACACGACCATCACTCGCATTCTCATTCACATGCTCACACTCATGGAG
GAGGACATCATGACCATGAACATGAAGGACATGATCATTCTCACGATATGTGGATTGGAT
TATGGGTCCTCGCTGGAATTATTACATTTTTAACTGTTGAAAAAGCAGTTAGAATCTTAA
AAATCAGTCATGATCATGGACATAGTCATGGAGGAGGCAAAAACGAAGATGAAAAAAAGG
AACTTGTTAAGAAAAAAGAAGAGAAAGATTTAGACAAGAAAAAGAAGAAAAAAGAAAAGG
AAGATGAAGAAACAGAGGCTAAACCAAGTATGGAAGTTGCTGGATATCTCAATTTAGCTG
CAGATTTTACGCATAATTTTACTGATGGTCTTGCTATTGGAGCATCTTATTTAGTTGGAA
ATAGTATTGGAATAGTGACAACAATTACAATTCTTCTTCATGAAGTACCTCATGAAATTG
GTGATTTTGCAATTTTAATCAAATCAGGATGTTCAAAGAAGAAAGCAATGTTTCTTCAAT
TAACGACAGCAGTTGGTGCATTAGCTGGCAATGTGCTTGCATTATTGGGTACTTCAGAAG
ATTCATCGCCATGGATTTTACCTTTCACTGCAGGTGGATTTATCTATATTGCCACAGTCA
GTGTCATTCCAGAGCTACTCGAACAAAATACGAAACTCGGCCAATCATTAAAAGAAATTT
TTGCTCTTTTGTTGGGCGTAGGAATGATGGTCCTTATAACTCTCATTGAATAGAAAAGAA
ACTACATTTTTAAAATAATTTTTGTATGATTAGTACTTGTCTATTTTAACAGAATAGTAT
CTTCTTTTGCAAAATAATATACAACTTTTGATCTACATCACACAGT

>g10833.t7 Gene=g10833 Length=283
MQPRLKTLLAFASGGLLGDAFLHLIPHSVVPHDHHSHSHSHAHTHGGGHHDHEHEGHDHS
HDMWIGLWVLAGIITFLTVEKAVRILKISHDHGHSHGGGKNEDEKKELVKKKEEKDLDKK
KKKKEKEDEETEAKPSMEVAGYLNLAADFTHNFTDGLAIGASYLVGNSIGIVTTITILLH
EVPHEIGDFAILIKSGCSKKKAMFLQLTTAVGALAGNVLALLGTSEDSSPWILPFTAGGF
IYIATVSVIPELLEQNTKLGQSLKEIFALLLGVGMMVLITLIE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g10833.t7 Coils Coil Coil 101 134 -
11 g10833.t7 MobiDBLite mobidb-lite consensus disorder prediction 32 57 -
10 g10833.t7 MobiDBLite mobidb-lite consensus disorder prediction 91 135 -
2 g10833.t7 PANTHER PTHR16950 ZINC TRANSPORTER SLC39A7 HISTIDINE-RICH MEMBRANE PROTEIN KE4 2 283 2.0E-128
3 g10833.t7 PANTHER PTHR16950:SF25 ZINC TRANSPORTER SLC39A7 2 283 2.0E-128
1 g10833.t7 Pfam PF02535 ZIP Zinc transporter 3 279 1.1E-68
19 g10833.t7 Phobius SIGNAL_PEPTIDE Signal peptide region 1 22 -
20 g10833.t7 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 6 -
21 g10833.t7 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 7 17 -
26 g10833.t7 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 18 22 -
18 g10833.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 23 62 -
25 g10833.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 63 79 -
15 g10833.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 80 203 -
22 g10833.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 204 225 -
16 g10833.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 226 230 -
23 g10833.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 231 253 -
14 g10833.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 254 264 -
24 g10833.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 265 282 -
17 g10833.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 283 283 -
12 g10833.t7 SignalP_EUK SignalP-noTM SignalP-noTM 1 18 -
4 g10833.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 29 -
6 g10833.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 64 86 -
5 g10833.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 157 179 -
9 g10833.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 202 224 -
8 g10833.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 231 250 -
7 g10833.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 265 282 -

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