General information for g13675.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dolichyl-diphosphooligosaccharide–protein glycosyltransferase 48 kDa subunit.
Parent gene
- The parent gene g13675 is located on chr_1: 31501155..31506482 (- 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_1 | g13675 | g13675.t1 | TTS | g13675.t1 | 31500856 | 31500856 |
| chr_1 | g13675 | g13675.t1 | isoform | g13675.t1 | 31500973 | 31506482 |
| chr_1 | g13675 | g13675.t1 | exon | g13675.t1.exon1 | 31500973 | 31502162 |
| chr_1 | g13675 | g13675.t1 | cds | g13675.t1.CDS1 | 31500973 | 31502162 |
| chr_1 | g13675 | g13675.t1 | exon | g13675.t1.exon2 | 31502224 | 31502322 |
| chr_1 | g13675 | g13675.t1 | cds | g13675.t1.CDS2 | 31502224 | 31502322 |
| chr_1 | g13675 | g13675.t1 | exon | g13675.t1.exon3 | 31502646 | 31502700 |
| chr_1 | g13675 | g13675.t1 | cds | g13675.t1.CDS3 | 31502646 | 31502700 |
| chr_1 | g13675 | g13675.t1 | exon | g13675.t1.exon4 | 31502760 | 31503198 |
| chr_1 | g13675 | g13675.t1 | cds | g13675.t1.CDS4 | 31502760 | 31503198 |
| chr_1 | g13675 | g13675.t1 | exon | g13675.t1.exon5 | 31503260 | 31503786 |
| chr_1 | g13675 | g13675.t1 | cds | g13675.t1.CDS5 | 31503260 | 31503786 |
| chr_1 | g13675 | g13675.t1 | exon | g13675.t1.exon6 | 31503839 | 31504003 |
| chr_1 | g13675 | g13675.t1 | cds | g13675.t1.CDS6 | 31503839 | 31504003 |
| chr_1 | g13675 | g13675.t1 | exon | g13675.t1.exon7 | 31504074 | 31504187 |
| chr_1 | g13675 | g13675.t1 | cds | g13675.t1.CDS7 | 31504074 | 31504187 |
| chr_1 | g13675 | g13675.t1 | exon | g13675.t1.exon8 | 31504260 | 31504313 |
| chr_1 | g13675 | g13675.t1 | cds | g13675.t1.CDS8 | 31504260 | 31504313 |
| chr_1 | g13675 | g13675.t1 | exon | g13675.t1.exon9 | 31504405 | 31504476 |
| chr_1 | g13675 | g13675.t1 | cds | g13675.t1.CDS9 | 31504405 | 31504476 |
| chr_1 | g13675 | g13675.t1 | exon | g13675.t1.exon10 | 31506396 | 31506482 |
| chr_1 | g13675 | g13675.t1 | cds | g13675.t1.CDS10 | 31506396 | 31506482 |
| chr_1 | g13675 | g13675.t1 | TSS | g13675.t1 | NA | NA |
Sequences
>g13675.t1 Gene=g13675 Length=2802
ATGCTCAGTTGGAATTTCGATGATCAAAGAAACCAAATGGCAAATCCGTTTCCATTTATG
CCTTTGAGAAAATCAAGCATTCCGTTGCCATGGAGCACAAGTGTTCCTTGTATTTCGCCA
AATGATGATGGTCCAAAGAAAATTGGCAGTTACTATGAAGCACCAAAACAAAAATCTGAT
TGGCGTCCTGCTATGGGATATGAGAATGTTGATATAACGCCATTGCCAGCGCATCCAACG
ACTAATCAACTTGTTCAACCGTGTTTCATGCCTACAAACATGTCCACAGAACCACTGAAC
TTTCCTAATTTAGTCACAGCATTTGAGAGAAATCCACAGCATGCAGCTAGAGCGGCATTA
TATACTCGATTCACGCCAAGTGAGTGGAATCAACACTGTATTGCAACATACAATGATTCA
GATACAAATAGAAATTATGCTGAAAGAATGCGAAACGAAGCAGTTCGTCTCGTTCGTGAG
ACTTATGAAAAAACAAGTCAAGGACAACGTGACGTTGGAAGACGTTTGGGAGAACGTCTT
ACTGACATTACTTTTTGGCGTAATGAAATCAATACTGAATTGGAAGCACTAGTTGCAGAA
GCCGCTCAATTGACCGACACTAAACGAAATGTTCAGAAAGCAATTCAAGATTTAGAAGCA
CCATTGCACATTACACAAGAATGTCTTTATCACCGAGAAAATCGCAAAGGAATAGATTTA
GTTCATGATCATGTTGAGAAAAGTCTTCTCGTTGAAACAGACAACTTGCGATCATGTCAA
GAGAAACTTAATGCATGTCTAAATAAAATTAATCAACAACTTTCTGATTTAAGATCAAGT
CAGTTTCAATTGGAAGATGATTTAACTCATAAAGAAAGCGCAATTGGAATCGATTCTGTC
TGTCATCAATTGAATAATTTCTCACGTGGCATAAATTATTACGGTGGTATCGAGAAAGTT
GATCCAACAATTAGCACAGTCGGTACATGGGCTGCAGCTTCTTCTTTGAATATACAACGT
TCACAAGCTGAACGCGGGAAGTCAGCACAATTGAGATCAGATGCAGAGGCCCTTATCAAT
GCTTGCGCAACGTCAGTTTGGGATTGCTGGAGCAATACTAATAATTCATTGAATCGTCGA
GCATCTGAAGTTATGGAAGCAAAGAGCAAAGTTCAACTTCATCTTCATAAAGTTCAACAA
GAAATATTTGATGTCGAGAAACATATTGAAATTTTACGCAAAGCTATTAATGATAAATCG
AATCCACTTAAAGTTGCTCAAACTCGCCTCGAAGCTCGCGCTCATCGTCCAGATCTTGAA
TTGTGTCGGGATAATGCCCATGTGCGGTTGGTTGAAGAAGTTTGTGACATACAAGAGAGT
GTTAGCGTTTTGCAGCGTAAATTACAAGATGCCGAAACTCAACATCAGGCACTTCTAAAA
ACTAAATCTAGCCTTGAAGGAAATTTGAAGAATAAAGTTGAAGCCTTATTTATTGATCGA
GAGAAATGTATGGCTTCTTCAGGCTATGCAGATCAGAAAAAGGATACTCTAGTTTTGTTA
GATAACTTGGCTACAAGAGAAACTCATTCGATTTTCTTTAAAAATTTACAAGATCGTGAA
TTTAAGCTCACATTTAAACTAGCTGATGACTCAAATCTTGTCTTATCTAGATATGGAGAG
TATTTGTATCAAAATCTCATCATTTTTGCACCATCAGTTGAAGAATTTGGTGGATCAATT
TCAGTGGAAGCGATTACTCAATTCATCGATGACGGAGGAAATGTATTAGTCGCAGCTTCA
TCAACTTCCGGAGAAGCTATTCGTGAACTTGCATCAGAAGTTGGTTTTGAGATTGATGAA
GAAAATGCAGCTGTTATTGATCATTTGAACTATGACCAACTTCTCGATTCTGGTGATCAC
ACAACGATCGTTGCATCGCCTAAAAATTTGATTGATTCAGAAATTATTGTCGGTAGCAAA
AACATCAATCCGCTTTTATTCAAAGGAACTGGAATTTTGGCTGATCGTGAAAATCAACTC
GTACTTCCTCTTCTCACTGGTGATGCCACTGCATACAGTTATATTCCTGATTCGCCTATT
AAAGAATATCCACATGCTGTCGGTAAAGGAACAATTTTAATTGCAGCTCTTCAAGCACGC
AACAATGCTCGTGTTGTTTTCTCTGGCTCACTTTACTTCTTTTCTGATGATGCCATTATG
TCACAAATTAAAAAAGTTGGTGATAATCAAGTGCATGACAAATCTGGTAATCTTAATGTT
ATTAACGCTATCAGCAAATGGGTATTTAAAGAAGCAGGTCAAATTCGTGTCAAATCAGTC
AGTCATCATAAAGATGGAGAGAAACAAGCTCCTGCTAGCTATACAATCACTGATCCTGTT
GTTTATACAATCGAAGTTGAACAATTGATTGATGGAAAATGGAAACCATTTGTTGCTAGT
GATATTCAAGTTGAATTTGTTCGCATTGATCCATTTGTGAGACTCACATTGAAATCAATT
GGCGGTGGAAAATATCAATCTAAATTCAAAATTCCTGATGTGTATGGAGTTTATCAATTC
AAAGTAGAATATGATCGAGTTGGATTCACAAGACTTTATAGTACAACACAAGTTTCAGTG
AGACCGCTACAGCATACTCAATATGAACGTTTCATTCCGAGTGCTTATCCATATTATGCT
AGCGCTTTCTCAATGATGTTTGGTGTTTTCATCTTTTCATTTGTATTTCTTTATTACAAG
GATAAGCCAGAAAAAGCCGAAGTTGAAAAGAAAACTAATTAA
>g13675.t1 Gene=g13675 Length=933
MLSWNFDDQRNQMANPFPFMPLRKSSIPLPWSTSVPCISPNDDGPKKIGSYYEAPKQKSD
WRPAMGYENVDITPLPAHPTTNQLVQPCFMPTNMSTEPLNFPNLVTAFERNPQHAARAAL
YTRFTPSEWNQHCIATYNDSDTNRNYAERMRNEAVRLVRETYEKTSQGQRDVGRRLGERL
TDITFWRNEINTELEALVAEAAQLTDTKRNVQKAIQDLEAPLHITQECLYHRENRKGIDL
VHDHVEKSLLVETDNLRSCQEKLNACLNKINQQLSDLRSSQFQLEDDLTHKESAIGIDSV
CHQLNNFSRGINYYGGIEKVDPTISTVGTWAAASSLNIQRSQAERGKSAQLRSDAEALIN
ACATSVWDCWSNTNNSLNRRASEVMEAKSKVQLHLHKVQQEIFDVEKHIEILRKAINDKS
NPLKVAQTRLEARAHRPDLELCRDNAHVRLVEEVCDIQESVSVLQRKLQDAETQHQALLK
TKSSLEGNLKNKVEALFIDREKCMASSGYADQKKDTLVLLDNLATRETHSIFFKNLQDRE
FKLTFKLADDSNLVLSRYGEYLYQNLIIFAPSVEEFGGSISVEAITQFIDDGGNVLVAAS
STSGEAIRELASEVGFEIDEENAAVIDHLNYDQLLDSGDHTTIVASPKNLIDSEIIVGSK
NINPLLFKGTGILADRENQLVLPLLTGDATAYSYIPDSPIKEYPHAVGKGTILIAALQAR
NNARVVFSGSLYFFSDDAIMSQIKKVGDNQVHDKSGNLNVINAISKWVFKEAGQIRVKSV
SHHKDGEKQAPASYTITDPVVYTIEVEQLIDGKWKPFVASDIQVEFVRIDPFVRLTLKSI
GGGKYQSKFKIPDVYGVYQFKVEYDRVGFTRLYSTTQVSVRPLQHTQYERFIPSAYPYYA
SAFSMMFGVFIFSFVFLYYKDKPEKAEVEKKTN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g13675.t1 | Coils | Coil | Coil | 187 | 214 | - |
| 9 | g13675.t1 | Coils | Coil | Coil | 461 | 488 | - |
| 3 | g13675.t1 | PANTHER | PTHR19960:SF11 | TEKTIN 3 | 44 | 505 | 4.3E-189 |
| 4 | g13675.t1 | PANTHER | PTHR19960 | TEKTIN | 44 | 505 | 4.3E-189 |
| 7 | g13675.t1 | PRINTS | PR00511 | Tektin signature | 414 | 430 | 8.3E-17 |
| 5 | g13675.t1 | PRINTS | PR00511 | Tektin signature | 433 | 453 | 8.3E-17 |
| 6 | g13675.t1 | PRINTS | PR00511 | Tektin signature | 456 | 472 | 8.3E-17 |
| 1 | g13675.t1 | Pfam | PF03148 | Tektin family | 129 | 505 | 7.4E-131 |
| 2 | g13675.t1 | Pfam | PF03345 | Oligosaccharyltransferase 48 kDa subunit beta | 516 | 925 | 6.7E-145 |
| 12 | g13675.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 895 | - |
| 13 | g13675.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 896 | 919 | - |
| 11 | g13675.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 920 | 933 | - |
| 8 | g13675.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 896 | 918 | - |
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:0018279 | protein N-linked glycosylation via asparagine | BP |
| GO:0005789 | endoplasmic reticulum membrane | CC |
KEGG
Orthology
- This transcript has been annotated with K12670 (oligosaccharyltransferase complex subunit beta)
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.
