Gene loci information

Transcript annotation

  • This transcript has been annotated as Copper-transporting ATPase 2.

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 g8628 g8628.t10 isoform g8628.t10 31921016 31923041
chr_2 g8628 g8628.t10 exon g8628.t10.exon1 31921016 31922557
chr_2 g8628 g8628.t10 cds g8628.t10.CDS1 31921018 31922557
chr_2 g8628 g8628.t10 TTS g8628.t10 31922220 31922220
chr_2 g8628 g8628.t10 exon g8628.t10.exon2 31923001 31923041
chr_2 g8628 g8628.t10 cds g8628.t10.CDS2 31923001 31923041
chr_2 g8628 g8628.t10 TSS g8628.t10 31923330 31923330

Sequences

>g8628.t10 Gene=g8628 Length=1583
ATGAATTCAAGGCAAGAAGAAAGGGAATTTTTACTACAACGTGATGCAATGGAAGAAGAT
CAAAGTCTTTTAGATTTTCATGATACTGGTTCAACCAGTATCAATATTTATGGAATGAAG
TGCCAAAATTGTGTTCGAAAAATTGAAGAAAATATGCAAAAAGAAATTGGAGTTTTGCAA
ATTAAAGTTTATTTAGAAGAGAAACGAGCACAAATAGAATATGATAAACATGTGACAAAT
CCATTAGCATTGACAGCAGCAATTAAAAAATTGGGATTTCATACAAATCCAGATGATTTG
AAGAAAATTAAAGAATCAACTGTTTTCATAAATGGAATGAAGTGTAATAATTGTGTGAAT
AAAATTGAATCTTCAATAAAAGAAAAGAAAGGAATTGAGAAAATAAGTGTCGATTTGGCT
AATAAAAGTGCAATAGTGAAATATGATGAGTCAGCGACTAATTTAAGTGAAATTTTATCT
CAAATAATTCAGTTGGGTTTTAAAGCCAGTGATTCGCCATTTGATGAGAACATTGAAACT
CAAAATGACTTAATTATAAATTTACCAGTGACTACAAACGGCAGTATCGAAAAAAATGAT
AAATTAATAAGAAAAGGACACTTTCATGTACAAGGAATGACTTGTGCGAGTTGTGTATCA
GCAATTGAAAAACATTGCATGAAACTCAAAGGAGTTGAGACTGTTTTAATTTCTCTACTC
GGTGCAAAAGCTGAAATTTCATATGATGAGAATTTAATTGATGAAAATGAAATTGCAGCA
TCTTTAAGTAGTTTAGGATTTCCAACAGAAGTCATTTATGAGCCAGAAGCAGGAATAAGT
AGTATAGAAATTGAAATTCATGGAATGAGTTGTTCTTCATGTGTTAATAAAATTGAACAA
GCTGTACTAAAAATTAATGGCGTGATAAAAGCTTCTGTAGCGTTAACAACTCAACGTGGT
AGATTTGAATATCATAATGAGCAAACAGGACCGCGTGAAATTTGTGAGAAAATTATCTCG
CTTGGATTTGAGGCGTCTGTGATAAGCAATCGAGATAAACTCTCGTATGGTTACTTGGAA
AATAAACGCGAGATTAAAAAATGGCGCGATACATTCCTCTTTTCACTTGCTTTTGGTGGT
CCATGTATGATCGCTATGGCTTATTTTATGTTAATGATGGAAATTGAAGGACATGAAAGT
ATGTGCTGTGTTGTCAGTGGCCTATCATTAGAGAATCTAGTCATGTTTGTTCTTTCAACT
CCTGTTCAATTTATTGGCGGATACCATTTTTATGTTCAAGCTTATCGTGCAATTAAGCAT
GGATCAAGTAATATGGATGTACTAATTAGTATGGCAACAATCATTAGCTATCTTTATTCA
GTAATTGTTTTAGCCATTGCAATGATTCAAAAGCATCATACTTCGCCATTAACATTTTTT
GATACACCAGCAATGCTTTTTATTTTTGTATCACTTGGTAGATGGCTTGAAAATATTGCA
AGAGGCAAAACAAGTGAAGCACTTTCAAAACTCATGTCATTAAAACCAATCGATGCAATT
ATCGTGCAATTGGGAAAAGATAA

>g8628.t10 Gene=g8628 Length=527
MNSRQEEREFLLQRDAMEEDQSLLDFHDTGSTSINIYGMKCQNCVRKIEENMQKEIGVLQ
IKVYLEEKRAQIEYDKHVTNPLALTAAIKKLGFHTNPDDLKKIKESTVFINGMKCNNCVN
KIESSIKEKKGIEKISVDLANKSAIVKYDESATNLSEILSQIIQLGFKASDSPFDENIET
QNDLIINLPVTTNGSIEKNDKLIRKGHFHVQGMTCASCVSAIEKHCMKLKGVETVLISLL
GAKAEISYDENLIDENEIAASLSSLGFPTEVIYEPEAGISSIEIEIHGMSCSSCVNKIEQ
AVLKINGVIKASVALTTQRGRFEYHNEQTGPREICEKIISLGFEASVISNRDKLSYGYLE
NKREIKKWRDTFLFSLAFGGPCMIAMAYFMLMMEIEGHESMCCVVSGLSLENLVMFVLST
PVQFIGGYHFYVQAYRAIKHGSSNMDVLISMATIISYLYSVIVLAIAMIQKHHTSPLTFF
DTPAMLFIFVSLGRWLENIARGKTSEALSKLMSLKPIDAIIVQLGKD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
34 g8628.t10 CDD cd00371 HMA 34 94 1.39399E-14
31 g8628.t10 CDD cd00371 HMA 110 170 7.31933E-15
33 g8628.t10 CDD cd00371 HMA 210 270 4.47708E-12
32 g8628.t10 CDD cd00371 HMA 283 346 9.16159E-15
18 g8628.t10 Gene3D G3DSA:3.30.70.100 - 30 99 3.1E-16
21 g8628.t10 Gene3D G3DSA:3.30.70.100 - 101 170 1.4E-17
19 g8628.t10 Gene3D G3DSA:3.30.70.100 - 203 274 1.2E-19
20 g8628.t10 Gene3D G3DSA:3.30.70.100 - 280 352 9.3E-20
6 g8628.t10 PANTHER PTHR43520:SF9 COPPER-TRANSPORTING ATPASE 2 34 171 1.7E-143
8 g8628.t10 PANTHER PTHR43520 ATP7, ISOFORM B 34 171 1.7E-143
5 g8628.t10 PANTHER PTHR43520:SF9 COPPER-TRANSPORTING ATPASE 2 191 527 1.7E-143
7 g8628.t10 PANTHER PTHR43520 ATP7, ISOFORM B 191 527 1.7E-143
13 g8628.t10 PRINTS PR00942 Copper-transporting ATPase 1 signature 42 60 9.1E-29
11 g8628.t10 PRINTS PR00942 Copper-transporting ATPase 1 signature 60 77 9.1E-29
10 g8628.t10 PRINTS PR00942 Copper-transporting ATPase 1 signature 372 393 9.1E-29
12 g8628.t10 PRINTS PR00942 Copper-transporting ATPase 1 signature 408 428 9.1E-29
9 g8628.t10 PRINTS PR00942 Copper-transporting ATPase 1 signature 428 453 9.1E-29
2 g8628.t10 Pfam PF00403 Heavy-metal-associated domain 35 94 3.3E-9
4 g8628.t10 Pfam PF00403 Heavy-metal-associated domain 107 168 1.0E-15
1 g8628.t10 Pfam PF00403 Heavy-metal-associated domain 208 267 1.7E-10
3 g8628.t10 Pfam PF00403 Heavy-metal-associated domain 284 344 1.0E-11
24 g8628.t10 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 371 -
30 g8628.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 372 393 -
25 g8628.t10 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 394 412 -
27 g8628.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 413 435 -
22 g8628.t10 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 436 446 -
29 g8628.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 447 469 -
26 g8628.t10 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 470 474 -
28 g8628.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 475 496 -
23 g8628.t10 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 497 527 -
40 g8628.t10 ProSitePatterns PS01047 Heavy-metal-associated domain. 110 139 -
39 g8628.t10 ProSitePatterns PS01047 Heavy-metal-associated domain. 286 315 -
47 g8628.t10 ProSiteProfiles PS50846 Heavy-metal-associated domain profile. 31 97 18.656
46 g8628.t10 ProSiteProfiles PS50846 Heavy-metal-associated domain profile. 105 171 19.318
48 g8628.t10 ProSiteProfiles PS50846 Heavy-metal-associated domain profile. 205 271 18.968
45 g8628.t10 ProSiteProfiles PS50846 Heavy-metal-associated domain profile. 281 347 19.685
16 g8628.t10 SUPERFAMILY SSF55008 HMA, heavy metal-associated domain 30 97 5.11E-14
15 g8628.t10 SUPERFAMILY SSF55008 HMA, heavy metal-associated domain 103 170 4.19E-17
17 g8628.t10 SUPERFAMILY SSF55008 HMA, heavy metal-associated domain 206 272 4.19E-16
14 g8628.t10 SUPERFAMILY SSF55008 HMA, heavy metal-associated domain 277 350 1.57E-17
44 g8628.t10 TIGRFAM TIGR00003 TIGR00003: copper ion binding protein 34 94 1.5E-9
41 g8628.t10 TIGRFAM TIGR00003 TIGR00003: copper ion binding protein 107 168 8.2E-12
43 g8628.t10 TIGRFAM TIGR00003 TIGR00003: copper ion binding protein 206 267 7.8E-11
42 g8628.t10 TIGRFAM TIGR00003 TIGR00003: copper ion binding protein 282 345 4.2E-11
38 g8628.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 371 393 -
35 g8628.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 413 435 -
36 g8628.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 447 469 -
37 g8628.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 479 496 -

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:0046872 metal ion binding MF
GO:0005507 copper ion binding 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. There were no conditions that were differentially expressed