Gene loci information

Transcript annotation

  • This transcript has been annotated as Glycosyltransferase 25 family member.

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 g651 g651.t4 TTS g651.t4 5001848 5001848
chr_3 g651 g651.t4 isoform g651.t4 5002030 5003434
chr_3 g651 g651.t4 exon g651.t4.exon1 5002030 5003260
chr_3 g651 g651.t4 cds g651.t4.CDS1 5002030 5003260
chr_3 g651 g651.t4 exon g651.t4.exon2 5003325 5003434
chr_3 g651 g651.t4 cds g651.t4.CDS2 5003325 5003359
chr_3 g651 g651.t4 TSS g651.t4 5004011 5004011

Sequences

>g651.t4 Gene=g651 Length=1341
GATGCAGATGTGTTTTTAACGACTGCCAATATTTTAGATACATTGATTACTTTAAATAAA
CCAATCGTTGCTCCAATGCTCGTATCTGAAGGTTTATACAGTAATTTTTGGTGTGGAATG
TCATCAGATTATTATTATAGACGAACTGAAAATTACAAGAAAATTCGTCAGTATGACTTG
CTTGGTGAACATAAAGTTCCAATGGTTCATAGTGCAGTACTAGTTGATCTCAAAAGAATC
TCAAGCGATTTCCTAACTTTCAATGCAACGACTCTTAATCATTTTTATACAAACAAACAT
TTCGATGGTCCAATTGATGATATCATTATTTTTGCAATTGCTGCCAACTTCTCAAATACT
GAAATGTTTATTTCAAATTCAAGATTTTATGGATTTATTCTTGTGCCACTCGATCAAGAA
GATAAGATCGAAAAAGATTTTCAGCAGCTGGTTAATGCCAAAGTTTCAATCATAAATCAT
TACGATGAAATTCACATTCTTCCAGAACTTCAAAAATTTGCCATTTATCCAGAATTAAGT
AAATTATCATTCTCAGAAATTTTTATGATAAATTTGAAACGACGAACAGAGAGAAAATTG
AGAATGGAAATGACATTAAGGGAATTGGGAATTGATTATACATATTTTGAGGCAATTGAT
GGAAAGAAAATAACGAGTGAAACTTTAGTCGAAAGAGGAATCAAATTCATGCCAGAATAT
GAAGATCCTTATCATAAGAGACCAATGAAAATGGGTGAAGTAGGATGTTTTCTCAGTCAT
TATACAATTTGGCAACGAATGATTGATAATAATCTCAATGAAGTTTTAGTACTTGAAGAT
GACATTAAATTTGAGCCATATTTTAGAGAGAGTGCAATTGAATTAATGAAAGAAGCACGC
AAAATTGGTGGCTATGATTTAATTTATTTTGGAAGAAAAAGACTGCAAGATAAAGAAGAA
TTTATTGAACAAAGTAACAATTTTGTCAAGGTTTCTTATACATATTGGACACTTGGTTAT
GTGTTGACACTTCAAGGAGCTAAAAAATTACTTGCTGCTGAACCACTTAAGCGACTTCTT
CCAGTTGATGAATTTCTTCCAATTATGTTTGATCAACATCCGAATGATACATGGAAAATG
AATTATAATAACAGAAATTTAGTTGCATGGAGTGTTAATCCACTTTTACTATTCCCAACA
CATTATACAGGTGAAGAAGGTTACATTTCAGACACAGAAGACTCGAAACAACTTGAAAGA
GATATTTCAGAAGATCAAGCAATTCAAAATGTTAAGGAAAACATTCTACATCATCGTCAT
CATGATTCTAGTGAATTTTAA

>g651.t4 Gene=g651 Length=421
MLVSEGLYSNFWCGMSSDYYYRRTENYKKIRQYDLLGEHKVPMVHSAVLVDLKRISSDFL
TFNATTLNHFYTNKHFDGPIDDIIIFAIAANFSNTEMFISNSRFYGFILVPLDQEDKIEK
DFQQLVNAKVSIINHYDEIHILPELQKFAIYPELSKLSFSEIFMINLKRRTERKLRMEMT
LRELGIDYTYFEAIDGKKITSETLVERGIKFMPEYEDPYHKRPMKMGEVGCFLSHYTIWQ
RMIDNNLNEVLVLEDDIKFEPYFRESAIELMKEARKIGGYDLIYFGRKRLQDKEEFIEQS
NNFVKVSYTYWTLGYVLTLQGAKKLLAAEPLKRLLPVDEFLPIMFDQHPNDTWKMNYNNR
NLVAWSVNPLLLFPTHYTGEEGYISDTEDSKQLERDISEDQAIQNVKENILHHRHHDSSE
F

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g651.t4 CDD cd06532 Glyco_transf_25 161 341 0
2 g651.t4 PANTHER PTHR10730:SF8 PROCOLLAGEN GALACTOSYLTRANSFERASE 2 1 397 0
3 g651.t4 PANTHER PTHR10730 PROCOLLAGEN-LYSINE,2-OXOGLUTARATE 5-DIOXYGENASE/GLYCOSYLTRANSFERASE 25 FAMILY MEMBER 1 397 0
1 g651.t4 Pfam PF01755 Glycosyltransferase family 25 (LPS biosynthesis protein) 160 340 0

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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