Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 4F2 cell-surface antigen heavy chain.

Parent gene

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.t5 TTS g2332.t5 16878904 16878904
chr_3 g2332 g2332.t5 isoform g2332.t5 16879049 16881293
chr_3 g2332 g2332.t5 exon g2332.t5.exon1 16879049 16879262
chr_3 g2332 g2332.t5 cds g2332.t5.CDS1 16879049 16879262
chr_3 g2332 g2332.t5 exon g2332.t5.exon2 16879474 16880753
chr_3 g2332 g2332.t5 cds g2332.t5.CDS2 16879474 16880741
chr_3 g2332 g2332.t5 exon g2332.t5.exon3 16881090 16881293
chr_3 g2332 g2332.t5 TSS g2332.t5 16882297 16882297

Sequences

>g2332.t5 Gene=g2332 Length=1698
TCACTGGTGAAACAGTCAAAAACTCTAATATGGTACGCGAAAAGAGTAACGAGCATCTTC
AAGATGGAGCTGATGAAAAAATGTTGGGATCTGATGATAAAGAGACCCTTGCTTTAAAAA
GCATCGAAGTAAAATTTATTCCCAGTGATCAAAATCAGAATGGCGATGCTAAAATTGAAA
TTGAGAATGGCGGTGAAAAGGTGAACATTCACTGGCATGACCAAAGAAGAGTTGATGAAA
TACGCAAATGATCCGTTTTGGATCAAATTGAGATGGTTTTTGTTTGTGCTTTTCTGGCTA
GCATGGATCGGAATGTTAGTAGGAGCAATTGCAATCATTGTTCTTGCACCGAAGTGTGCA
GCACCTACACCTTTAGTGTGGTATAAGAAAGGTCCTCTCGCTAAAATTGAAAGTACTAAT
GTCGATGATTCAATAATTGAAAAGATGAAAGAATTTGAAATTCAAGGTGTTATTTATGAA
TTGCCTTCAGACGCAACATACAAAGTCGAGTCTGGCCAAATGCATGATGATATCAAAGAA
ATGGTGAAAAAATTTAAAGCTAAGGACATTCATGTTGTTATTGATTTAACTCCAAACGTT
GTCACAGAAGATGATCAATTGTTTAAGGATGCCCTAAAAGGTTCTCGAGAAAGCTTTGAT
GCTTTTGTAACAAATGACAAGCAATTGAATTGGATACAAGTTGATGGAACAAAATCAGCT
TGGAAGAAATTTAATAATACTTACTTCTTGAATCAATTTGGTGATTATTACGACATTCGT
CTCAACAAACCTATCGTTCAAAATAGATTAACAAATGTCATTAAAAAATTAACAGAAATT
GGAGTTAAAGGATTTCGATTTGTTAACGCTAAATATATTGTTACTGAATCGGAATTTATA
GATGAAATTCCTAATTCAAAAGCACATGGTTTAAACAAAGAAGATTTTGGTTTCTATATG
CACAGTCAACGAGAATTTTCACAAGAACTCAAAGATATTATTCTTTATTATAATAGTTTT
GTATTAAATGTTACAAATGATGAAGGATTTTTAGCTATTCGAGATGATATTTCTAATCAT
ATTGAAAGTTTTGTTGACAATAAAAGAATCAATGCATTTGAACTGCCACGATTTGGATTT
ATAACCAAATTTTTCCATGATGCAAAAACCAAAAATGTTGCCAAAAGTCTCTTTGACGTT
TTTGAAAATTTAAGCGGTAACGTTGATTTGTCATTAGTATGGACTCAAATTCAATATACA
AAGAATACTTATAATAATTTCGAAGAATCTGCATACAAGCTATTCATCAGTTTCTTGCGT
GGCGTTCAAATTGCACCTTTTGATGATCTCGTTTACATAGATGATGATAACGGTGAAACA
TATAATAAGCTAAAAACTGAACGTGCTTCACGTGCTACTGTTTTTGAACATGGAAATTTT
AATTTCTATTTAAGCAACAATACTGATGCATTCGCATATTCTAGAGTCAAACCTGGAAAT
CCAGGAATTTTTGTGGTCGTCAACCCAACAAATGAAAAAATTCGTGCTAATTTTTCTAGT
AACTTTGGCGGTTCAGATTTGTCAATGTTAATTGGAAGTAAGAATTTTGGGAACAATTTA
ATAAAATCTAAGATCAATCCAGATAACATTGAGTTGCCTCAACAATCCACTGCCATCTTC
ACATTCGTTCCAGAATAA

>g2332.t5 Gene=g2332 Length=493
MTKEELMKYANDPFWIKLRWFLFVLFWLAWIGMLVGAIAIIVLAPKCAAPTPLVWYKKGP
LAKIESTNVDDSIIEKMKEFEIQGVIYELPSDATYKVESGQMHDDIKEMVKKFKAKDIHV
VIDLTPNVVTEDDQLFKDALKGSRESFDAFVTNDKQLNWIQVDGTKSAWKKFNNTYFLNQ
FGDYYDIRLNKPIVQNRLTNVIKKLTEIGVKGFRFVNAKYIVTESEFIDEIPNSKAHGLN
KEDFGFYMHSQREFSQELKDIILYYNSFVLNVTNDEGFLAIRDDISNHIESFVDNKRINA
FELPRFGFITKFFHDAKTKNVAKSLFDVFENLSGNVDLSLVWTQIQYTKNTYNNFEESAY
KLFISFLRGVQIAPFDDLVYIDDDNGETYNKLKTERASRATVFEHGNFNFYLSNNTDAFA
YSRVKPGNPGIFVVVNPTNEKIRANFSSNFGGSDLSMLIGSKNFGNNLIKSKINPDNIEL
PQQSTAIFTFVPE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g2332.t5 Gene3D G3DSA:3.20.20.80 Glycosidases 104 262 1.1E-16
8 g2332.t5 Gene3D G3DSA:3.90.400.10 - 128 188 1.1E-16
3 g2332.t5 PANTHER PTHR46673 4F2 CELL-SURFACE ANTIGEN HEAVY CHAIN 2 137 1.7E-29
1 g2332.t5 Pfam PF16028 Solute carrier family 3 member 2 N-terminus 1 61 9.9E-31
2 g2332.t5 Pfam PF00128 Alpha amylase, catalytic domain 103 330 6.3E-12
9 g2332.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 19 -
11 g2332.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 44 -
10 g2332.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 45 493 -
6 g2332.t5 SMART SM00642 aamy 65 396 0.0063
5 g2332.t5 SUPERFAMILY SSF51445 (Trans)glycosidases 3 230 1.35E-22
4 g2332.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 21 43 -

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 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.

Raw TPM values