Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative aldehyde dehydrogenase family 7 member A1-like protein.

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 g13028 g13028.t7 TTS g13028.t7 27588380 27588380
chr_1 g13028 g13028.t7 isoform g13028.t7 27588928 27590146
chr_1 g13028 g13028.t7 exon g13028.t7.exon1 27588928 27589095
chr_1 g13028 g13028.t7 cds g13028.t7.CDS1 27588928 27589095
chr_1 g13028 g13028.t7 exon g13028.t7.exon2 27589156 27590146
chr_1 g13028 g13028.t7 cds g13028.t7.CDS2 27589156 27590142
chr_1 g13028 g13028.t7 TSS g13028.t7 27590232 27590232

Sequences

>g13028.t7 Gene=g13028 Length=1159
AGCAATGTCATCGTCACGTTATCTCATTGATGATCCAAATTTTTCTTTCCTAAAAGAGCT
CGGATTAGAACGAGTAAACAAAGGAGTTTATAATGGCGAATGGTGCGGTAGTGGTGAGCT
ATCAAAATCTATTGATCCAGCAACAAACGAGGTTATCGCTGAAGTTCAAAATGGAAGTGT
TGATGATCTTGAAAGTTGCATAAAAACAGCTGAAGATGCATACAAACATTGGAGAAATAT
GCCAGCTCCATTTAGAGGTGAAATTGTGAGACAAATTGGTGATGAATTGAGAAAATATCG
TGAACCACTTGGTAAACTTGTTTCACTCGAAATGGGAAAAATTCAAGCTGAAGGGATTGG
TGAAGTTCAGGAGTTTATCGACATTTGTGACTACGCAACTGGCTTATCACGAATGTTTGC
TGGTCAAATCTTACCATCAGAACGCAATCAACATGTGATTATTGAAAAATGGAATCCACT
TGGAATTGTTGGTATCATTTCAGCATTTAATTTTCCTAATGCAGTCTTTGGATGGAATGC
TGCTATTGCTTTAGCAGTGGGAAATGTCTCTCTATGGAAAGGTGCACCATCAACTCCTCT
TGTATCAATTGCAACAACAAAAATTGTCACTGAAGTCCTTAAACGCAATAATTTACCACC
GACTATTACTTTATGCCAAGGAGGAACTGAAGTTGGTAAAAAATTAGTTGCTGATAAACG
TGTGAAACTTGTTTCATTCACTGGCAGTTCAAAAGTCGGTCAAGAAGTTGGTGTTGAAGT
ACAAAAGAGATTTGGTAAATTGATTCTTGAATTAGGTGGCAACAATGCACTCATTATTAA
TGATGATGCCGATTTTGATATGGCACTTGATGCTGCATTCTTTGGATGTATTGGAACAGC
TGGACAAAGATGCACAACAACAAGAAGATTGATTATTCATGAAAAACTTTATGATGCTTT
CTTACAGAAATTAATTGCAAGATATAAAGGACTTATGAAACGTGTCGGTCATCCATTAGA
TTCATCAACGCTTTATGGTCCACTTCATAATCAACAAGCTGTTGATAATTATAAAGCAAC
TATCGATGAAGCAGTTAAGCTTGGTGGAAAAATTGAAGTAGGAGGAAATGTGATGGAAAG
ACCAGGATTCTTTGTTGGT

>g13028.t7 Gene=g13028 Length=385
MSSSRYLIDDPNFSFLKELGLERVNKGVYNGEWCGSGELSKSIDPATNEVIAEVQNGSVD
DLESCIKTAEDAYKHWRNMPAPFRGEIVRQIGDELRKYREPLGKLVSLEMGKIQAEGIGE
VQEFIDICDYATGLSRMFAGQILPSERNQHVIIEKWNPLGIVGIISAFNFPNAVFGWNAA
IALAVGNVSLWKGAPSTPLVSIATTKIVTEVLKRNNLPPTITLCQGGTEVGKKLVADKRV
KLVSFTGSSKVGQEVGVEVQKRFGKLILELGGNNALIINDDADFDMALDAAFFGCIGTAG
QRCTTTRRLIIHEKLYDAFLQKLIARYKGLMKRVGHPLDSSTLYGPLHNQQAVDNYKATI
DEAVKLGGKIEVGGNVMERPGFFVG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g13028.t7 Gene3D G3DSA:3.40.605.10 Aldehyde Dehydrogenase; Chain A 39 271 2.2E-108
7 g13028.t7 Gene3D G3DSA:3.40.309.10 Aldehyde Dehydrogenase; Chain A 272 384 2.2E-108
2 g13028.t7 PANTHER PTHR43521:SF1 ALPHA-AMINOADIPIC SEMIALDEHYDE DEHYDROGENASE 23 384 1.7E-152
3 g13028.t7 PANTHER PTHR43521 ALPHA-AMINOADIPIC SEMIALDEHYDE DEHYDROGENASE 23 384 1.7E-152
1 g13028.t7 Pfam PF00171 Aldehyde dehydrogenase family 40 384 1.4E-96
5 g13028.t7 ProSitePatterns PS00687 Aldehyde dehydrogenases glutamic acid active site. 268 275 -
4 g13028.t7 SUPERFAMILY SSF53720 ALDH-like 23 384 3.93E-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:0016620 oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor MF
GO:0055114 NA NA
GO:0016491 oxidoreductase 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