Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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 g2421 g2421.t4 isoform g2421.t4 17881631 17884779
chr_3 g2421 g2421.t4 exon g2421.t4.exon1 17881631 17882320
chr_3 g2421 g2421.t4 cds g2421.t4.CDS1 17881631 17882314
chr_3 g2421 g2421.t4 exon g2421.t4.exon2 17884570 17884779
chr_3 g2421 g2421.t4 TSS g2421.t4 17884848 17884848
chr_3 g2421 g2421.t4 TTS g2421.t4 NA NA

Sequences

>g2421.t4 Gene=g2421 Length=900
TAAAAATAAATTTTATAAATGTGATATTCATAAATCATTTGCTGACTGCAAATTAGTGTG
ATCATCACATAAGATGAGATGTTTTATTATTTGCTAAATAAATATTGAGAAAAAATTAAC
TCACAGTTGACTTCTTAGAGTGAAAGAGAGAAAAAGTGAAAAAGCATAAAAGAAAAATAT
TGTAGTTCATAGAGTGGAAATAATCAATTAACCATTATGCGCGATACATTTACAATAGAG
AATTCAAGGCATCCGGGAGATTATGATACAAAGAAGCACTTCCTTAACTTAAGTCGCTTG
ACGTTCTTTTTGCTCCTGGCTATGTTCATTTGCAGTTTAGTGGCTGTTGCTCTTCTAGTC
TACAATTTTGCTGTATGTCCTCAAGACGATGATGTCAAAGTATGCTCAAAACATTATCAT
ATCAACGAAAATTCATCACCATCAACAACATCAATTGCATCTATAACTGATATTGGTGAA
ACAACAGAACCACCAATTATAAAAGATGTTCGATTACCGAGATCTATTAAACCTTTATCA
TATGACATTGTGATTGTTCCAAATTTAAATGGCGAAAATTTCACATTCGAGGGCGATGTC
GCTATAAAAATTCACGTGGATGAGTCATGCAACAATATCACTTTACATTCATGGACTTTG
AAAATTCGACGAGATTTTACGAAAATATTTATTTTTGACATTGATGGAAATGTAACCGCT
GATCAAATTGATATTAAAAATCAATTTTTTATTGATGAAAAACAATTTCTTGTGCTTGAG
ACTAAACAAGAACTGGAAAAGGGAAAAAATTATTTATTAAAGATCAAATATATTGGACAA
ATAACAGATAATTTGCAGGGTTTTTATAAATCATCATATACAGTCAATGGAGAGACAAAG

>g2421.t4 Gene=g2421 Length=228
MRDTFTIENSRHPGDYDTKKHFLNLSRLTFFLLLAMFICSLVAVALLVYNFAVCPQDDDV
KVCSKHYHINENSSPSTTSIASITDIGETTEPPIIKDVRLPRSIKPLSYDIVIVPNLNGE
NFTFEGDVAIKIHVDESCNNITLHSWTLKIRRDFTKIFIFDIDGNVTADQIDIKNQFFID
EKQFLVLETKQELEKGKNYLLKIKYIGQITDNLQGFYKSSYTVNGETK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g2421.t4 Gene3D G3DSA:2.60.40.1730 tricorn interacting facor f3 domain 93 228 8.1E-33
2 g2421.t4 PANTHER PTHR11533 PROTEASE M1 ZINC METALLOPROTEASE 88 228 2.9E-27
3 g2421.t4 PANTHER PTHR11533:SF246 AMINOPEPTIDASE 88 228 2.9E-27
1 g2421.t4 Pfam PF17900 Peptidase M1 N-terminal domain 105 228 3.3E-20
7 g2421.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 27 -
9 g2421.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 28 52 -
8 g2421.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 53 228 -
5 g2421.t4 SUPERFAMILY SSF63737 Leukotriene A4 hydrolase N-terminal domain 97 226 1.96E-16
4 g2421.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 30 52 -

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. There were no conditions that were differentially expressed