Gene loci information

Transcript annotation

  • This transcript has been annotated as AMP deaminase 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_1 g13432 g13432.t2 isoform g13432.t2 30018738 30021506
chr_1 g13432 g13432.t2 exon g13432.t2.exon1 30018738 30019275
chr_1 g13432 g13432.t2 cds g13432.t2.CDS1 30018910 30019275
chr_1 g13432 g13432.t2 exon g13432.t2.exon2 30019417 30020832
chr_1 g13432 g13432.t2 cds g13432.t2.CDS2 30019417 30020568
chr_1 g13432 g13432.t2 exon g13432.t2.exon3 30020882 30021506
chr_1 g13432 g13432.t2 TTS g13432.t2 30021499 30021499
chr_1 g13432 g13432.t2 TSS g13432.t2 NA NA

Sequences

>g13432.t2 Gene=g13432 Length=2579
AGAACATCCAGTCAATGCACCGCCACACGACTCACCTTGGGATGTGGAATTCCTCGAAGA
TCTCGATTGTACACTCAAGGCTGAAAATGGAATTTATCAAGTTTATCGTGATGCTGAATG
CAAGGATATTTATGACTATCCATGTCCGAAATTGTCAGAATTTATTCAAGATATGCAAAC
AATGTGCACAATGATTGCTGATGGACCATTAAAGTCTTTCTGTTATCGACGTCTGAGTTA
TTTGTATTCGAAATTTCAACTGCATGTGCTGCTCAATGAACTTCGTGAATTGGCCTCACA
AAAAGCTGTTCCTCATCGTGATTTTTACAATATTAGAAAAGTTGACACTCACATTCATGC
AGCATCATGTATGAACCAAAAACATCTTTTGCGTTTTATCAAGAAAACATTGAAAAATAA
TGCTGATGAAGTTGTGACTGTTACAAAATCTGGTCAAAAAATGACTCTCTCAGAAGTGTT
CAAGTCTATGAATCTCACAACTTATGATCTTACTGTGGATATGCTTGATGTTCATGCTGA
TCGAAACACATTTCATCGTTTTGACAAGTTCAATGCTAAATATAATCCAATCGGCGAGTC
GCGACTTCGTGAAGTTTTTCTTAAAACTGACAATTATTTAAATGGCAAATATTTTGCACA
CATAATTAAAGAAGTTGCATCTGATTTTGAAGAATCAAAATATCAAAATGCTGAGCTTCG
TTTGTCAATTTATGGAAAATCAAGAGATGAATGGGAAAAATTAGCCAAATGGGGACTTGA
TCATAATGTCTATTCTGATAATATTCGTTGGCTAATTCAAGTGCCACGATTGTATGATAT
TTTCAAGACTAACAAAATTGTCAAATCGTTCCAAGAAATTATTGACAATATTTTCTTGCC
ACTTTTTGAAGCGACTGCTTATCCTAACAAACATCCAGAACTGCACAAGTTCTTGCAATA
TGTAATTGGCTTAGATTCAGTTGATGATGAGAGCAAGCCTGAAAATCCTTTAATTGATAC
TGAAATGCCAACACCAGCTCAATGGACTGATGATGAAAATCCACCTTATGCATATTATCT
CTTTTATATGTATTCTAATCTCACTGTATTGAACAACTTCCGTCGTGAACGTGGATTGAA
TACATTTGTCTTAAGACCTCATTGTGGTGAAGCTGGTGCAGTTCAGCATTTGGTTTGTGG
ATATTTAATGGCTGAAAATATTTCTCATGGTTTGTTATTAAGAAAAGTTCCAGTTCTTCA
ATATCTTTTCTATCTCGCTCAAATTGGAATTGCCATGAGTCCGCTCAGCAACAATTCACT
CTTCTTAAATTATCATCGTAATCCATTGCCTGAATATTTAGCTCGTGGATTAATTGTATC
ACTTTCAACTGATGATCCTTTGCAATTTCATTTCACTAAAGAACCTCTTATGGAAGAATA
TTCAATTGCTGCACAAGTATGGAAATTATCTAGCTGTGACATGTGTGAATTGGCTCGCAA
TAGTGTCATTATGTCTGGATTTTCACATAAAGTTAAACAACATTGGCTTGGACCCAATTA
CACTCGTGAAGGAGTCGCTGGCAATGACATAACACGCACAAATGTGCCAGACATTAGAGT
CGCTTTTCGTTATGAGACATTGTTAGATGAATTGTCAAATATTTTCAAAGTTGGCGCAGA
AATGTCCTAGGGCTACGAGAATGCTGGCTATGAAGATGAATGGGACATGCAGACTTAGTA
ATCTTCTTTAATACCTGTTTTCATTAAAATTTGAGAAATCTCTGATCAAAAATTTGAATA
AAAACTTCAAAGAAATAAATCGAAAGATTTCTCAAATTTTATTTTACTTAAATCGATTTT
TCTCTTTCTCTCATATCTTTGCACACATAAGGAAACTACACAAAAAATGTTGTTAGAATT
ATTGAAAATATCATGGAAAAGAACTATAATTATTGACCACAAAATGTAATGCGACATTAA
ATAAATAAATGAAAAATCATGCTTCATTAGTGTCTTACCATTTAGCCAAAATATGAAAGG
AAAACACAAAAGTATTTGAGAGATTTCAATCAAAAACGAATTTTATTTGTAGAAAATTTT
TCATTTTTTAAGAATTAACAGTCAGGAAGATGCTTTATGTGTAATTCAAATATATAATAA
AAAATCAATGAATTTCTCTTCTTATAAAACTTTATTGCCATATTTAAAAATGATATTCAA
AAAAAATTATAATGTGATGTTTTGTATATGATAAATTAAAATATATCAAATATGAGATGA
AGAAAAATTAGGCATTGGACAAAAAAAGAGAATTTAGATTTATATGAATTAGAAATTTAT
TCAATCTCCAATTTTTCACTAATTAGAAAATAATTCTAAAATAGACTCTTGACTGTTATA
TGATAAAAAAATAAAGAAATCTTTAGAAATTCATTTATCATATTTTCTGGATAAAATGTA
TTAATTATAGCTCTATAATCTTTCTGTAGTAATCAAACAAATATTTAAAAATTCATTGTA
TTTAAATCTAATTAAATAAACAAAAACAATAATCTATGTTGGGAAAATAAACAAACATA

>g13432.t2 Gene=g13432 Length=505
MQTMCTMIADGPLKSFCYRRLSYLYSKFQLHVLLNELRELASQKAVPHRDFYNIRKVDTH
IHAASCMNQKHLLRFIKKTLKNNADEVVTVTKSGQKMTLSEVFKSMNLTTYDLTVDMLDV
HADRNTFHRFDKFNAKYNPIGESRLREVFLKTDNYLNGKYFAHIIKEVASDFEESKYQNA
ELRLSIYGKSRDEWEKLAKWGLDHNVYSDNIRWLIQVPRLYDIFKTNKIVKSFQEIIDNI
FLPLFEATAYPNKHPELHKFLQYVIGLDSVDDESKPENPLIDTEMPTPAQWTDDENPPYA
YYLFYMYSNLTVLNNFRRERGLNTFVLRPHCGEAGAVQHLVCGYLMAENISHGLLLRKVP
VLQYLFYLAQIGIAMSPLSNNSLFLNYHRNPLPEYLARGLIVSLSTDDPLQFHFTKEPLM
EEYSIAAQVWKLSSCDMCELARNSVIMSGFSHKVKQHWLGPNYTREGVAGNDITRTNVPD
IRVAFRYETLLDELSNIFKVGAEMS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g13432.t2 CDD cd01319 AMPD 1 494 0.0
5 g13432.t2 Gene3D G3DSA:3.20.20.140 - 1 493 2.0E-262
4 g13432.t2 Gene3D G3DSA:2.30.30.800 - 67 158 2.0E-262
2 g13432.t2 PANTHER PTHR11359 AMP DEAMINASE 1 500 2.1E-283
6 g13432.t2 PIRSF PIRSF001251 AMP_deaminase 1 505 1.3E-299
1 g13432.t2 Pfam PF00962 Adenosine/AMP deaminase 53 460 4.0E-122
8 g13432.t2 ProSitePatterns PS00485 Adenosine and AMP deaminase signature. 403 409 -
3 g13432.t2 SUPERFAMILY SSF51556 Metallo-dependent hydrolases 1 496 6.03E-174
9 g13432.t2 TIGRFAM TIGR01429 AMP_deaminase: AMP deaminase 2 497 3.3E-283

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:0019239 deaminase activity MF
GO:0032264 IMP salvage BP
GO:0003876 AMP deaminase activity MF
GO:0009168 purine ribonucleoside monophosphate biosynthetic process 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