Gene loci information

Transcript annotation

  • This transcript has been annotated as Beta-1,4-galactosyltransferase 7.

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_3 g352 g352.t8 isoform g352.t8 2822486 2823957
chr_3 g352 g352.t8 exon g352.t8.exon1 2822486 2822857
chr_3 g352 g352.t8 cds g352.t8.CDS1 2822799 2822857
chr_3 g352 g352.t8 exon g352.t8.exon2 2822936 2823957
chr_3 g352 g352.t8 cds g352.t8.CDS2 2822936 2823629
chr_3 g352 g352.t8 TSS g352.t8 2824055 2824055
chr_3 g352 g352.t8 TTS g352.t8 NA NA

Sequences

>g352.t8 Gene=g352 Length=1394
ATGTCTATTTTAAAGACAAATGCTATGAAGTTACTAAGCATTTGCATCATCTTTTCATTG
ATTTTGACTTGCATTATCAGTGTTTTGCCATTATCTTTAGGTTTGTTTATAATACGAAAA
AAATTTCACCCGCATAATAAAATTTTTATTCTTTTTAGACTCATGTAATTGTGAAAACTA
CATAGAAACTCATAATTCAATTTATAATGATATACAGAATAGGAAATATTATAATTCTTT
AGTTGGCAAATTTAACAATAAGAAGAAATTGGCCATAATTGTTCCATTTCGTGATCGATT
CGATGAATTGCTTGAGTTTGCACCGTATATGACTAAATTTTTAAATGACCAAGAAATTCC
TCATCATATCTTTGTGATCAATCAAGTTGATAGATTTCGATTCAATCGTGCTTCGTTGAT
AAATGTTGGATTTTTGTATACGAAAGATAATTTTGATTATTTTGCAATGCATGATGTTGA
TCTTTTGCCACTAAATAATGATCTGAAATATGAGTATCCTGAAAATGATGGAGTGATGCA
CATTGCAGCACCAGGACTTCATCCAAAATATAATTACCCATCATTTATTGGTGGTATTTT
GATAATTAAAAATGAACATTTTGCTAAAGTTAATGGAATGAGTAATAGATATTGGGGATG
GGGCTTAGAAGACGATGAATTTTATGTAAGACTCAAAGATGCATCTATAAAAGTTTATCG
ACCACAAAACATCAAAACAGACATGAGCAATACATTTGTACATAATCATGATAGAATACA
TAGACGTCGTGATACTGCCAAATGTTACAATCAAAAAGAGGAAACTCGAAAACGTGATAA
AAAGACTGGACTTGATACATTGAAATATAACATAAATTCACGCAAAGAACTCGCTATTGA
TGGTATTAAATTGACAATTCTTAATGTCAAATTCGAGTGTGATAAGAGCTTGACACCATG
GTGTGAATGTAGTGGTGATATGCCAACAAAAGATACAAAATCAAAAGCTAAAAAAGGACT
TTTTATTGTTTCTCAATTAATTTCAAACATTTTAATTAATTTATTTGCTACATTGTTTTA
AAATCAGCTCTATCTGTATATCCTCACAATTGTCACTAAATAATCAATAAATGTTGCATG
TTTTATATTTCAATTTTCTTTAAATAACAGCAACACACAATCACTCATACTACAGACACA
CATTATAATCTATATTATTCAATAAAATAAAGCATTTTTATCTTTGACTTTAGAAATTAA
TAATAAAGAAAAGAGCCAATTTTTTGATAAAAACAAATTTTCCTGCTATGTCTTTGTCAA
TGTGTCAGAATTAACAAAATAAGGAATAAACAACTTAAATTCTTCTTTCATGCTTCATCC
TTTTAAATTTACGA

>g352.t8 Gene=g352 Length=250
MTKFLNDQEIPHHIFVINQVDRFRFNRASLINVGFLYTKDNFDYFAMHDVDLLPLNNDLK
YEYPENDGVMHIAAPGLHPKYNYPSFIGGILIIKNEHFAKVNGMSNRYWGWGLEDDEFYV
RLKDASIKVYRPQNIKTDMSNTFVHNHDRIHRRRDTAKCYNQKEETRKRDKKTGLDTLKY
NINSRKELAIDGIKLTILNVKFECDKSLTPWCECSGDMPTKDTKSKAKKGLFIVSQLISN
ILINLFATLF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g352.t8 Gene3D G3DSA:3.90.550.10 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 1 215 3.7E-76
3 g352.t8 PANTHER PTHR19300:SF30 BETA-1,4-GALACTOSYLTRANSFERASE 7 1 215 4.9E-95
4 g352.t8 PANTHER PTHR19300 BETA-1,4-GALACTOSYLTRANSFERASE 1 215 4.9E-95
8 g352.t8 PRINTS PR02050 Beta-1,4-galactosyltransferase family signature 15 34 2.4E-31
7 g352.t8 PRINTS PR02050 Beta-1,4-galactosyltransferase family signature 44 63 2.4E-31
5 g352.t8 PRINTS PR02050 Beta-1,4-galactosyltransferase family signature 81 102 2.4E-31
6 g352.t8 PRINTS PR02050 Beta-1,4-galactosyltransferase family signature 103 121 2.4E-31
2 g352.t8 Pfam PF13733 N-terminal region of glycosyl transferase group 7 2 61 2.9E-13
1 g352.t8 Pfam PF02709 N-terminal domain of galactosyltransferase 70 135 5.1E-24
11 g352.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 229 -
13 g352.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 230 249 -
12 g352.t8 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 250 250 -
9 g352.t8 SUPERFAMILY SSF53448 Nucleotide-diphospho-sugar transferases 3 205 4.22E-32

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:0016757 glycosyltransferase activity MF
GO:0005975 carbohydrate metabolic process BP

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