General information for g651.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glycosyltransferase 25 family member.
Parent gene
- The parent gene g651 is located on chr_3: 5002030..5004400 (- strand)
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.t1 | TTS | g651.t1 | 5001848 | 5001848 |
| chr_3 | g651 | g651.t1 | isoform | g651.t1 | 5002030 | 5004400 |
| chr_3 | g651 | g651.t1 | exon | g651.t1.exon1 | 5002030 | 5003260 |
| chr_3 | g651 | g651.t1 | cds | g651.t1.CDS1 | 5002030 | 5003260 |
| chr_3 | g651 | g651.t1 | exon | g651.t1.exon2 | 5003325 | 5003440 |
| chr_3 | g651 | g651.t1 | cds | g651.t1.CDS2 | 5003325 | 5003440 |
| chr_3 | g651 | g651.t1 | exon | g651.t1.exon3 | 5003497 | 5003942 |
| chr_3 | g651 | g651.t1 | cds | g651.t1.CDS3 | 5003497 | 5003942 |
| chr_3 | g651 | g651.t1 | exon | g651.t1.exon4 | 5004388 | 5004400 |
| chr_3 | g651 | g651.t1 | cds | g651.t1.CDS4 | 5004388 | 5004400 |
| chr_3 | g651 | g651.t1 | TSS | g651.t1 | NA | NA |
Sequences
>g651.t1 Gene=g651 Length=1806
ATGACAGCAAAAATTAAATACTCAACAAATAGTGACAATGCAAGTGATGAAAAGACAAAA
GAAAGTGTAGAGATGTTGAAAAAGATGAGCATAGTCAGTGATGATAGTCATTTGTATAAA
AAACCAACAGTTTTGATAGTTAGCTTAATAAGAAACAAGGCACATACATTGCCATTGTTT
TTAACATATTTAGAAGAACAACAGTATCCAAAAGATAGAATTTCATTGTGGTTGATAACA
GATCATAATGAAGACAATAGCAGGGAAATTTTAGAAGTTTGGTTAACAAAAGTCAAAAAT
TTCTATCACTCAATAAATTATCAACATGATGATAGCGAAAAAATTAGAAAAGGTGAATCG
AATTTGACCCATTGGCCGGAAGAGAGATTTAAAGATTTAATTAAAATGAAAGAACAAGCG
TTAGAGTATGCTCGACAATCATGGGCTGATTATGTTTTTTTTTTGGATGCAGATGTGTTT
TTAACGACTGCCAATATTTTAGATACATTGATTACTTTAAATAAACCAATCGTTGCTCCA
ATGCTCGTATCTGAAGGTTTATACAGTAATTTTTGGTGTGGAATGTCATCAGATTATTAT
TATAGACGAACTGAAAATTACAAGAAAATTCGTCAGTATGACTTGCTTGGTGAACATAAA
GTTCCAATGGTTCATAGTGCAGTACTAGTTGATCTCAAAAGAATCTCAAGCGATTTCCTA
ACTTTCAATGCAACGACTCTTAATCATTTTTATACAAACAAACATTTCGATGGTCCAATT
GATGATATCATTATTTTTGCAATTGCTGCCAACTTCTCAAATACTGAAATGTTTATTTCA
AATTCAAGATTTTATGGATTTATTCTTGTGCCACTCGATCAAGAAGATAAGATCGAAAAA
GATTTTCAGCAGCTGGTTAATGCCAAAGTTTCAATCATAAATCATTACGATGAAATTCAC
ATTCTTCCAGAACTTCAAAAATTTGCCATTTATCCAGAATTAAGTAAATTATCATTCTCA
GAAATTTTTATGATAAATTTGAAACGACGAACAGAGAGAAAATTGAGAATGGAAATGACA
TTAAGGGAATTGGGAATTGATTATACATATTTTGAGGCAATTGATGGAAAGAAAATAACG
AGTGAAACTTTAGTCGAAAGAGGAATCAAATTCATGCCAGAATATGAAGATCCTTATCAT
AAGAGACCAATGAAAATGGGTGAAGTAGGATGTTTTCTCAGTCATTATACAATTTGGCAA
CGAATGATTGATAATAATCTCAATGAAGTTTTAGTACTTGAAGATGACATTAAATTTGAG
CCATATTTTAGAGAGAGTGCAATTGAATTAATGAAAGAAGCACGCAAAATTGGTGGCTAT
GATTTAATTTATTTTGGAAGAAAAAGACTGCAAGATAAAGAAGAATTTATTGAACAAAGT
AACAATTTTGTCAAGGTTTCTTATACATATTGGACACTTGGTTATGTGTTGACACTTCAA
GGAGCTAAAAAATTACTTGCTGCTGAACCACTTAAGCGACTTCTTCCAGTTGATGAATTT
CTTCCAATTATGTTTGATCAACATCCGAATGATACATGGAAAATGAATTATAATAACAGA
AATTTAGTTGCATGGAGTGTTAATCCACTTTTACTATTCCCAACACATTATACAGGTGAA
GAAGGTTACATTTCAGACACAGAAGACTCGAAACAACTTGAAAGAGATATTTCAGAAGAT
CAAGCAATTCAAAATGTTAAGGAAAACATTCTACATCATCGTCATCATGATTCTAGTGAA
TTTTAA
>g651.t1 Gene=g651 Length=601
MTAKIKYSTNSDNASDEKTKESVEMLKKMSIVSDDSHLYKKPTVLIVSLIRNKAHTLPLF
LTYLEEQQYPKDRISLWLITDHNEDNSREILEVWLTKVKNFYHSINYQHDDSEKIRKGES
NLTHWPEERFKDLIKMKEQALEYARQSWADYVFFLDADVFLTTANILDTLITLNKPIVAP
MLVSEGLYSNFWCGMSSDYYYRRTENYKKIRQYDLLGEHKVPMVHSAVLVDLKRISSDFL
TFNATTLNHFYTNKHFDGPIDDIIIFAIAANFSNTEMFISNSRFYGFILVPLDQEDKIEK
DFQQLVNAKVSIINHYDEIHILPELQKFAIYPELSKLSFSEIFMINLKRRTERKLRMEMT
LRELGIDYTYFEAIDGKKITSETLVERGIKFMPEYEDPYHKRPMKMGEVGCFLSHYTIWQ
RMIDNNLNEVLVLEDDIKFEPYFRESAIELMKEARKIGGYDLIYFGRKRLQDKEEFIEQS
NNFVKVSYTYWTLGYVLTLQGAKKLLAAEPLKRLLPVDEFLPIMFDQHPNDTWKMNYNNR
NLVAWSVNPLLLFPTHYTGEEGYISDTEDSKQLERDISEDQAIQNVKENILHHRHHDSSE
F
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g651.t1 | CDD | cd06532 | Glyco_transf_25 | 341 | 521 | 2.04924E-42 |
| 7 | g651.t1 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 19 | 229 | 3.6E-12 |
| 6 | g651.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - |
| 3 | g651.t1 | PANTHER | PTHR10730:SF8 | PROCOLLAGEN GALACTOSYLTRANSFERASE 2 | 24 | 577 | 6.8E-176 |
| 4 | g651.t1 | PANTHER | PTHR10730 | PROCOLLAGEN-LYSINE,2-OXOGLUTARATE 5-DIOXYGENASE/GLYCOSYLTRANSFERASE 25 FAMILY MEMBER | 24 | 577 | 6.8E-176 |
| 2 | g651.t1 | Pfam | PF03452 | Anp1 | 33 | 184 | 1.1E-12 |
| 1 | g651.t1 | Pfam | PF01755 | Glycosyltransferase family 25 (LPS biosynthesis protein) | 340 | 520 | 1.8E-35 |
| 5 | g651.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 40 | 227 | 1.48E-10 |
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 transcript has been annotated with K11703 (collagen beta-1,O-galactosyltransferase)
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.
