General information for g17454.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as N-acetylgalactosaminyltransferase 6.
Parent gene
- The parent gene g17454 is located on chr_4: 13578154..13581271 (+ 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_4 | g17454 | g17454.t1 | isoform | g17454.t1 | 13576843 | 13581271 |
| chr_4 | g17454 | g17454.t1 | exon | g17454.t1.exon1 | 13576843 | 13577022 |
| chr_4 | g17454 | g17454.t1 | cds | g17454.t1.CDS1 | 13576843 | 13577022 |
| chr_4 | g17454 | g17454.t1 | exon | g17454.t1.exon2 | 13578968 | 13579805 |
| chr_4 | g17454 | g17454.t1 | cds | g17454.t1.CDS2 | 13578968 | 13579805 |
| chr_4 | g17454 | g17454.t1 | exon | g17454.t1.exon3 | 13579922 | 13579949 |
| chr_4 | g17454 | g17454.t1 | cds | g17454.t1.CDS3 | 13579922 | 13579949 |
| chr_4 | g17454 | g17454.t1 | exon | g17454.t1.exon4 | 13580060 | 13580190 |
| chr_4 | g17454 | g17454.t1 | cds | g17454.t1.CDS4 | 13580060 | 13580190 |
| chr_4 | g17454 | g17454.t1 | exon | g17454.t1.exon5 | 13580255 | 13580405 |
| chr_4 | g17454 | g17454.t1 | cds | g17454.t1.CDS5 | 13580255 | 13580405 |
| chr_4 | g17454 | g17454.t1 | exon | g17454.t1.exon6 | 13580563 | 13581271 |
| chr_4 | g17454 | g17454.t1 | cds | g17454.t1.CDS6 | 13580563 | 13581271 |
| chr_4 | g17454 | g17454.t1 | TSS | g17454.t1 | NA | NA |
| chr_4 | g17454 | g17454.t1 | TTS | g17454.t1 | NA | NA |
Sequences
>g17454.t1 Gene=g17454 Length=2037
ATGAATGGAAATTTTAAGACTTTTAAAGAACTCAAAAGTGAATTGATTATCAAATACCAA
AAGTTTCAAAACTTTACATTACAAAAAAAGATAGAAGAGGAAACAAGTCAAACTCAAGGA
AGTGAAATTAAAGAAATTTTAGACATTGTAGATGAAGAAGAAGAAAAAATACAAAAAGAT
TCACGACGAGGAATAATTGAAGCTCTTTTAGTTCTTTTTACTTTCATCACTTTAACACTT
TTTGTGATGGTTAAAGTAATAGAAATAAACAATAATCCACTACAAATAAGACAAAATTTT
ATCTACATTGAGCCACTGTCCTCATTTTTCCGTCATACACATAATAAAGAAAATATCAAA
ATAGATTGGCATGATTATAAATTCATAGATGAAGAAAGCACAAGAGAAGGTCCAGGAGAG
CATGGTAGTGCATATAATCAGATTTCAGTAGAAGAAGAAAATTTAAATCAAAGACTATTT
GATGAAAACGGTTATTATGGATTAATATCTGATAAAATTTCAATCAATCGAAGTGTGGCT
GACCTGAGACATACAGATTGTTGGAAAATGAGATATTTGAAAGAATTACCAACAGTTTCT
GTGATTATTCCATTTTACAATGAACATTTAAGTACTTTATTAAGAACAGTTCATTCAGTC
ATCAACAGAAGTCCATCAAATTTACTTAAAGAAGTAATTTTAATCAATGACAGATCAACA
AAAGAATTTTTATATGATGAACTTCGAACTTACATAGCAGACACATTTAAACCAAATTTT
GTGAAACTTCTTGAACTTCCTGTTCGTTCTGGTTTAATTTGGGCACGTTTAGCGGGTGCA
AGATTGGCATCTGGTGATGTTTTAATATTTTTAGACTCACATACTGAAGCTAATACTAAT
TGGATGCCACCATTACTTGAACCAATTGCTAAAAATTATCGCATTTGTACTTGTCCATTT
ATTGATGTCATTGAGTTTACTAATTTTGAATATGTCATTCAGGATGAAGGATCGAGAGGA
GTGTTTGACTGGCAATTTAACTACAGAAAACTAGAACTCAAGCCAGGCTTCCAAAAACGA
CCAACTGATCCATTTCCTTCTCCAATCATGGCTGGTGGACTTTTTGCAATTTCAGCAAAA
TTCTTTTGGGAACTTGGTGGATATGATCCAGGCTTAGATGTCTGGGGTGGTGAGCAGTAT
GAATTGAGCTTCAAAATATGGCTTTGTGGTGGTGAGATGTATGACATTCCGTGTTCAAGA
GTTGGACATATTTACAGAGGATCAATGCCATTTGAAGATGATAGAAAAGGAATTGACTTT
CTTGCTATCAACTACAAACGAGTAGCAGAAGTTTGGTTAGGTGATGAATACAAAAATTAT
CTCTACATGCGAGATCCAGAAAGATATGGTCGAGTTGATGCTGGTGATATTTCATATCAG
CTTGCTATCAAAAAGAAACTTCAATGCAAGCCATTTTCATATTTTCTCAATGAAGTTGCA
AGTGACATGCTTGAATATTATCCATTAATTGATCCACCACCATTTGCTTATGGTGTCATT
CAAAGTATGCTTAATCCAATGATTTGTATTGATACTTATGGAAAAGATGAAAAAAGTGAA
CTTGGACTTTATGGTTGTGCTCGTGATTTACAAAATCCACAAAAAACTCAATTTTTTACT
CTTCGACATTTTCGTGACATTGAATTGAAAGGAACAATGTTTTGTTTTGATCAAAATGAA
TTTGGTCAACTAGTAACTGGCATATGTCATCATGCACAAGGAAATCAATATTTTAGATAT
GATTTAAGAACACAACAAATTTATCATGCTGGTGAAGCACGAAATGAATGCATTGATATG
GATCCAAGTAAAAGTGATGAAGGTGCTGTCTTTTTTGCCCCATGTGATTCCGAATCTTTA
ACACAAAAGTGGAAATTTGGATTTATTAATGAGACAGCTTTAAATAATTGGACAAAATAT
GGAGCAGAAATTCCAAATTTTGATGAACTAAAACGACTTGAAGGAATTTATCATTAG
>g17454.t1 Gene=g17454 Length=678
MNGNFKTFKELKSELIIKYQKFQNFTLQKKIEEETSQTQGSEIKEILDIVDEEEEKIQKD
SRRGIIEALLVLFTFITLTLFVMVKVIEINNNPLQIRQNFIYIEPLSSFFRHTHNKENIK
IDWHDYKFIDEESTREGPGEHGSAYNQISVEEENLNQRLFDENGYYGLISDKISINRSVA
DLRHTDCWKMRYLKELPTVSVIIPFYNEHLSTLLRTVHSVINRSPSNLLKEVILINDRST
KEFLYDELRTYIADTFKPNFVKLLELPVRSGLIWARLAGARLASGDVLIFLDSHTEANTN
WMPPLLEPIAKNYRICTCPFIDVIEFTNFEYVIQDEGSRGVFDWQFNYRKLELKPGFQKR
PTDPFPSPIMAGGLFAISAKFFWELGGYDPGLDVWGGEQYELSFKIWLCGGEMYDIPCSR
VGHIYRGSMPFEDDRKGIDFLAINYKRVAEVWLGDEYKNYLYMRDPERYGRVDAGDISYQ
LAIKKKLQCKPFSYFLNEVASDMLEYYPLIDPPPFAYGVIQSMLNPMICIDTYGKDEKSE
LGLYGCARDLQNPQKTQFFTLRHFRDIELKGTMFCFDQNEFGQLVTGICHHAQGNQYFRY
DLRTQQIYHAGEARNECIDMDPSKSDEGAVFFAPCDSESLTQKWKFGFINETALNNWTKY
GAEIPNFDELKRLEGIYH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g17454.t1 | CDD | cd02510 | pp-GalNAc-T | 200 | 500 | 3.13701E-157 |
| 13 | g17454.t1 | CDD | cd00161 | RICIN | 518 | 646 | 1.66805E-14 |
| 9 | g17454.t1 | Coils | Coil | Coil | 43 | 63 | - |
| 8 | g17454.t1 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 117 | 510 | 1.7E-151 |
| 7 | g17454.t1 | Gene3D | G3DSA:2.80.10.50 | - | 514 | 652 | 1.1E-21 |
| 3 | g17454.t1 | PANTHER | PTHR11675:SF41 | POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 10 | 112 | 658 | 7.3E-154 |
| 4 | g17454.t1 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 112 | 658 | 7.3E-154 |
| 2 | g17454.t1 | Pfam | PF00535 | Glycosyl transferase family 2 | 200 | 385 | 2.0E-27 |
| 1 | g17454.t1 | Pfam | PF00652 | Ricin-type beta-trefoil lectin domain | 517 | 644 | 4.1E-17 |
| 10 | g17454.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 64 | - |
| 12 | g17454.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 65 | 87 | - |
| 11 | g17454.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 88 | 678 | - |
| 17 | g17454.t1 | ProSiteProfiles | PS50231 | Lectin domain of ricin B chain profile. | 575 | 646 | 12.483 |
| 16 | g17454.t1 | SMART | SM00458 | ricin_3 | 515 | 647 | 1.7E-9 |
| 6 | g17454.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 176 | 501 | 2.06E-54 |
| 5 | g17454.t1 | SUPERFAMILY | SSF50370 | Ricin B-like lectins | 510 | 647 | 1.02E-18 |
| 15 | g17454.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 65 | 87 | - |
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.
