General information for g8112.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glycogenin-1.
Parent gene
- The parent gene g8112 is located on chr_2: 28638693..28641568 (+ 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_2 | g8112 | g8112.t1 | TSS | g8112.t1 | 28628590 | 28628590 |
| chr_2 | g8112 | g8112.t1 | isoform | g8112.t1 | 28628724 | 28641568 |
| chr_2 | g8112 | g8112.t1 | exon | g8112.t1.exon1 | 28628724 | 28628730 |
| chr_2 | g8112 | g8112.t1 | cds | g8112.t1.CDS1 | 28628724 | 28628730 |
| chr_2 | g8112 | g8112.t1 | exon | g8112.t1.exon2 | 28631217 | 28631428 |
| chr_2 | g8112 | g8112.t1 | cds | g8112.t1.CDS2 | 28631217 | 28631428 |
| chr_2 | g8112 | g8112.t1 | exon | g8112.t1.exon3 | 28631608 | 28631689 |
| chr_2 | g8112 | g8112.t1 | cds | g8112.t1.CDS3 | 28631608 | 28631689 |
| chr_2 | g8112 | g8112.t1 | exon | g8112.t1.exon4 | 28631903 | 28632291 |
| chr_2 | g8112 | g8112.t1 | cds | g8112.t1.CDS4 | 28631903 | 28632291 |
| chr_2 | g8112 | g8112.t1 | exon | g8112.t1.exon5 | 28632926 | 28633519 |
| chr_2 | g8112 | g8112.t1 | cds | g8112.t1.CDS5 | 28632926 | 28633519 |
| chr_2 | g8112 | g8112.t1 | exon | g8112.t1.exon6 | 28638499 | 28638619 |
| chr_2 | g8112 | g8112.t1 | cds | g8112.t1.CDS6 | 28638499 | 28638619 |
| chr_2 | g8112 | g8112.t1 | exon | g8112.t1.exon7 | 28638687 | 28639070 |
| chr_2 | g8112 | g8112.t1 | cds | g8112.t1.CDS7 | 28638687 | 28639070 |
| chr_2 | g8112 | g8112.t1 | exon | g8112.t1.exon8 | 28641537 | 28641568 |
| chr_2 | g8112 | g8112.t1 | cds | g8112.t1.CDS8 | 28641537 | 28641568 |
| chr_2 | g8112 | g8112.t1 | TTS | g8112.t1 | 28642224 | 28642224 |
Sequences
>g8112.t1 Gene=g8112 Length=1821
ATGAGCAATTTTGCATGGGTTACATTAGCAACTAATGACAGCTATTCACTTGGTGCTTTA
GTTGTTGCACACTCATTGAAAAGAGTGGAGACAGCTCACAAGTTGGTTGTAGTTATAACA
CCTGGAGTATCAGATGTTATGAGAAGCAAATTACAAGATGTCTTTGATGTTGTACAATTT
GTAAACGTGCTCGATTCAAAAGATGCAGCTAATCTGGCTGTTTTGCAAAATTGCGATGAA
TTATTCGAGCGAGAAGAGCTTTCTGCTGCAGCAGATGTTGGCTGGCCAGATTGCTTTAAT
ACTGGCGTTTTTGTATTCAAGCCAAGTTCTGATACATATGGAAAATTGATTAAATTTGCT
GAAAGTGTTGGAAGCTTTGACGGAGCTGATCAGGGTTTGTTGAATCAATATTTCTCTAAC
TGGTCAACTGGCGATTCATCAAGAAGACTTCCTTTCTTATATAATACCGCATCGACTGCA
ACATATTCTTACTTGCCTGCATTTAAGCATTTTAATAAGGATGTCAAAATTCTTCATTTC
ATCGGAGATGTAAAACCATGGGTGCAGCAATTCAATTCAGTTACAAGACAAGTACAAAGC
CCAACTGGATATAGTCACCTTCAAGACTTTTTGCAATTATGGTGGAATATATTTTGCGAA
AAAGTACATCCTGTTCTTAGCGATGCAATGAATATTCCTTGGTTGAGTCGTTTTGAAGAT
AATTGTGTTCAATATAATTATCCATGCGATTATTCGGATCCGCCAGCAACAATAGTTGAT
GCACATTCAGATAATCATAATAACTATAATAGTAATCATAATAATAATAATATAAACGAA
GAGGAAAATCAAGTGCGAACATATGATCCATATCTCATTGCGTATCATGAAGATAGCAAT
ACGTTTACATACAATGATCCGTGGGTTGATGATAGAAATAATAGGAATGAAAATAATGAA
AATAGTAATAATAATTGTACTAATAATAATAACAACACAACCATCAACAATCAAATCAAC
GTGGATAATATTGATTCCACGTGGACACGGATGCACGAGCATTCGAATGGCTGCAATGAT
TTGACACATGCATCTGAAATTACAACAACGTCACTACCATCAATGACATCAGCTTCAATC
CTGCAAAGTAGTTCTGACTTAATTAACAATAATACAATTGTTAATGAAAATCAAAGCGTT
GAAAATATAAGTCACATAACTTGCGATAAAGATCATTCGCCATCTTCTATTGTTGAAGCC
AATAGTGATAATGTGACAGATGAGAGTGGTATTGCTGGCGCTTTAGCTAATTTACAATTA
GGAACTGAACGTAGTGCCGAGCAGCAAGCATACGAAGATCAATTCCGTCGTGCAAATTGG
GAATCTGGCCATATCGATTATTTAGGGCAAGATTCTTTTGCTAATATTTGGAAGAAAATT
CAAACAACTATCGAAGCACCACCTGCTGAAGTAGTTGAACAACAAGAACGCAGAAGATCA
CGTTCACGATCAAAAACACCACAAAGAGAACCAAGTCCGAAGCCTGTAGAAAAAAAATCG
GACGCATCAGCAGCACCAATTGAACCCGCTAAAGTTGTTGAAGAACCAGTGAAAGTAGCT
GCTCCAGTGAAAAAGCAAGAAACTGTACCAGCAGCACAAACAAAACCAGTTGCGTCCAAA
CCTGTTGTATCAGATAAACCAACAACAACTTCAAACGCACCTGCATCAATTGCAGCAACA
ACAACAACAACAGCAGCAGCTCCTGTAGCACCCAAAAAGAAAGAAGGAGTACCATCGGTA
GAGAAGAGAAAACGAAAGTAA
>g8112.t1 Gene=g8112 Length=606
MSNFAWVTLATNDSYSLGALVVAHSLKRVETAHKLVVVITPGVSDVMRSKLQDVFDVVQF
VNVLDSKDAANLAVLQNCDELFEREELSAAADVGWPDCFNTGVFVFKPSSDTYGKLIKFA
ESVGSFDGADQGLLNQYFSNWSTGDSSRRLPFLYNTASTATYSYLPAFKHFNKDVKILHF
IGDVKPWVQQFNSVTRQVQSPTGYSHLQDFLQLWWNIFCEKVHPVLSDAMNIPWLSRFED
NCVQYNYPCDYSDPPATIVDAHSDNHNNYNSNHNNNNINEEENQVRTYDPYLIAYHEDSN
TFTYNDPWVDDRNNRNENNENSNNNCTNNNNNTTINNQINVDNIDSTWTRMHEHSNGCND
LTHASEITTTSLPSMTSASILQSSSDLINNNTIVNENQSVENISHITCDKDHSPSSIVEA
NSDNVTDESGIAGALANLQLGTERSAEQQAYEDQFRRANWESGHIDYLGQDSFANIWKKI
QTTIEAPPAEVVEQQERRRSRSRSKTPQREPSPKPVEKKSDASAAPIEPAKVVEEPVKVA
APVKKQETVPAAQTKPVASKPVVSDKPTTTSNAPASIAATTTTTAAAPVAPKKKEGVPSV
EKRKRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g8112.t1 | CDD | cd02537 | GT8_Glycogenin | 4 | 220 | 5.84274E-75 |
| 13 | g8112.t1 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 1 | 73 | 3.7E-18 |
| 12 | g8112.t1 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 74 | 231 | 3.3E-60 |
| 11 | g8112.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 488 | 606 | - |
| 10 | g8112.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 491 | 517 | - |
| 9 | g8112.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 563 | 587 | - |
| 4 | g8112.t1 | PANTHER | PTHR11183:SF141 | GLYCOGENIN-1 | 1 | 75 | 9.3E-73 |
| 7 | g8112.t1 | PANTHER | PTHR11183 | GLYCOGENIN SUBFAMILY MEMBER | 1 | 75 | 9.3E-73 |
| 2 | g8112.t1 | PANTHER | PTHR11183:SF141 | GLYCOGENIN-1 | 70 | 228 | 9.3E-73 |
| 5 | g8112.t1 | PANTHER | PTHR11183 | GLYCOGENIN SUBFAMILY MEMBER | 70 | 228 | 9.3E-73 |
| 3 | g8112.t1 | PANTHER | PTHR11183:SF141 | GLYCOGENIN-1 | 422 | 483 | 9.3E-73 |
| 6 | g8112.t1 | PANTHER | PTHR11183 | GLYCOGENIN SUBFAMILY MEMBER | 422 | 483 | 9.3E-73 |
| 1 | g8112.t1 | Pfam | PF01501 | Glycosyl transferase family 8 | 65 | 188 | 3.0E-12 |
| 15 | g8112.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 23 | - |
| 16 | g8112.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 17 | g8112.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 11 | - |
| 18 | g8112.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 12 | 23 | - |
| 14 | g8112.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 24 | 606 | - |
| 8 | g8112.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 1 | 224 | 3.66E-41 |
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 |
KEGG
Orthology
- This transcript has been annotated with K00750 (glycogenin)
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.
