General information for g2332.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 4F2 cell-surface antigen heavy chain.
Parent gene
- The parent gene g2332 is located on chr_3: 16882318..16883268 (- 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 | g2332 | g2332.t4 | isoform | g2332.t4 | 16878900 | 16881293 |
| chr_3 | g2332 | g2332.t4 | exon | g2332.t4.exon1 | 16878900 | 16879262 |
| chr_3 | g2332 | g2332.t4 | TTS | g2332.t4 | 16878904 | 16878904 |
| chr_3 | g2332 | g2332.t4 | cds | g2332.t4.CDS1 | 16879049 | 16879262 |
| chr_3 | g2332 | g2332.t4 | exon | g2332.t4.exon2 | 16879474 | 16880753 |
| chr_3 | g2332 | g2332.t4 | cds | g2332.t4.CDS2 | 16879474 | 16880753 |
| chr_3 | g2332 | g2332.t4 | exon | g2332.t4.exon3 | 16881094 | 16881293 |
| chr_3 | g2332 | g2332.t4 | cds | g2332.t4.CDS3 | 16881094 | 16881264 |
| chr_3 | g2332 | g2332.t4 | TSS | g2332.t4 | 16882297 | 16882297 |
Sequences
>g2332.t4 Gene=g2332 Length=1843
TCACTGGTGAAACAGTCAAAAACTCTAATATGGTACGCGAAAAGAGTAACGAGCATCTTC
AAGATGGAGCTGATGAAAAAATGTTGGGATCTGATGATAAAGAGACCCTTGCTTTAAAAA
GCATCGAAGTAAAATTTATTCCCAGTGATCAAAATCAGAATGGCGATGCTAAAATTGAAA
TTGAGAATGGCGGTGAAAAGACATTCACTGGCATGACCAAAGAAGAGTTGATGAAATACG
CAAATGATCCGTTTTGGATCAAATTGAGATGGTTTTTGTTTGTGCTTTTCTGGCTAGCAT
GGATCGGAATGTTAGTAGGAGCAATTGCAATCATTGTTCTTGCACCGAAGTGTGCAGCAC
CTACACCTTTAGTGTGGTATAAGAAAGGTCCTCTCGCTAAAATTGAAAGTACTAATGTCG
ATGATTCAATAATTGAAAAGATGAAAGAATTTGAAATTCAAGGTGTTATTTATGAATTGC
CTTCAGACGCAACATACAAAGTCGAGTCTGGCCAAATGCATGATGATATCAAAGAAATGG
TGAAAAAATTTAAAGCTAAGGACATTCATGTTGTTATTGATTTAACTCCAAACGTTGTCA
CAGAAGATGATCAATTGTTTAAGGATGCCCTAAAAGGTTCTCGAGAAAGCTTTGATGCTT
TTGTAACAAATGACAAGCAATTGAATTGGATACAAGTTGATGGAACAAAATCAGCTTGGA
AGAAATTTAATAATACTTACTTCTTGAATCAATTTGGTGATTATTACGACATTCGTCTCA
ACAAACCTATCGTTCAAAATAGATTAACAAATGTCATTAAAAAATTAACAGAAATTGGAG
TTAAAGGATTTCGATTTGTTAACGCTAAATATATTGTTACTGAATCGGAATTTATAGATG
AAATTCCTAATTCAAAAGCACATGGTTTAAACAAAGAAGATTTTGGTTTCTATATGCACA
GTCAACGAGAATTTTCACAAGAACTCAAAGATATTATTCTTTATTATAATAGTTTTGTAT
TAAATGTTACAAATGATGAAGGATTTTTAGCTATTCGAGATGATATTTCTAATCATATTG
AAAGTTTTGTTGACAATAAAAGAATCAATGCATTTGAACTGCCACGATTTGGATTTATAA
CCAAATTTTTCCATGATGCAAAAACCAAAAATGTTGCCAAAAGTCTCTTTGACGTTTTTG
AAAATTTAAGCGGTAACGTTGATTTGTCATTAGTATGGACTCAAATTCAATATACAAAGA
ATACTTATAATAATTTCGAAGAATCTGCATACAAGCTATTCATCAGTTTCTTGCGTGGCG
TTCAAATTGCACCTTTTGATGATCTCGTTTACATAGATGATGATAACGGTGAAACATATA
ATAAGCTAAAAACTGAACGTGCTTCACGTGCTACTGTTTTTGAACATGGAAATTTTAATT
TCTATTTAAGCAACAATACTGATGCATTCGCATATTCTAGAGTCAAACCTGGAAATCCAG
GAATTTTTGTGGTCGTCAACCCAACAAATGAAAAAATTCGTGCTAATTTTTCTAGTAACT
TTGGCGGTTCAGATTTGTCAATGTTAATTGGAAGTAAGAATTTTGGGAACAATTTAATAA
AATCTAAGATCAATCCAGATAACATTGAGTTGCCTCAACAATCCACTGCCATCTTCACAT
TCGTTCCAGAATAAATATTTTAATGTGTTTGTCTAATGTCTTTTGAATCATTAACTAATA
ATTGATGACAATATCCCTATAATTGTATTCCTAGAGAATCGTTTTAAAAATATTGTATTA
ATGTTTAATCGTATCAATAAAGTTAGAATCAGCATATAGAAAA
>g2332.t4 Gene=g2332 Length=554
MVREKSNEHLQDGADEKMLGSDDKETLALKSIEVKFIPSDQNQNGDAKIEIENGGEKTFT
GMTKEELMKYANDPFWIKLRWFLFVLFWLAWIGMLVGAIAIIVLAPKCAAPTPLVWYKKG
PLAKIESTNVDDSIIEKMKEFEIQGVIYELPSDATYKVESGQMHDDIKEMVKKFKAKDIH
VVIDLTPNVVTEDDQLFKDALKGSRESFDAFVTNDKQLNWIQVDGTKSAWKKFNNTYFLN
QFGDYYDIRLNKPIVQNRLTNVIKKLTEIGVKGFRFVNAKYIVTESEFIDEIPNSKAHGL
NKEDFGFYMHSQREFSQELKDIILYYNSFVLNVTNDEGFLAIRDDISNHIESFVDNKRIN
AFELPRFGFITKFFHDAKTKNVAKSLFDVFENLSGNVDLSLVWTQIQYTKNTYNNFEESA
YKLFISFLRGVQIAPFDDLVYIDDDNGETYNKLKTERASRATVFEHGNFNFYLSNNTDAF
AYSRVKPGNPGIFVVVNPTNEKIRANFSSNFGGSDLSMLIGSKNFGNNLIKSKINPDNIE
LPQQSTAIFTFVPE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2332.t4 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 155 | 432 | 1.2E-14 |
| 11 | g2332.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 21 | - |
| 3 | g2332.t4 | PANTHER | PTHR46673 | 4F2 CELL-SURFACE ANTIGEN HEAVY CHAIN | 40 | 158 | 1.9E-34 |
| 1 | g2332.t4 | Pfam | PF16028 | Solute carrier family 3 member 2 N-terminus | 46 | 122 | 4.0E-37 |
| 2 | g2332.t4 | Pfam | PF00128 | Alpha amylase, catalytic domain | 164 | 391 | 8.5E-12 |
| 6 | g2332.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 80 | - |
| 8 | g2332.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 81 | 105 | - |
| 7 | g2332.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 106 | 554 | - |
| 10 | g2332.t4 | SMART | SM00642 | aamy | 126 | 457 | 0.0063 |
| 4 | g2332.t4 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 55 | 291 | 7.64E-24 |
| 9 | g2332.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 82 | 104 | - |
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:0006865 | amino acid transport | BP |
| GO:0005975 | carbohydrate metabolic process | BP |
| GO:0003824 | catalytic activity | MF |
KEGG
Orthology
- This transcript has been annotated with K06519 (solute carrier family 3, member 2)
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.
