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_4 g16249 g16249.t2 isoform g16249.t2 8851865 8854370
chr_4 g16249 g16249.t2 exon g16249.t2.exon1 8851865 8851878
chr_4 g16249 g16249.t2 cds g16249.t2.CDS1 8851865 8851878
chr_4 g16249 g16249.t2 exon g16249.t2.exon2 8852079 8853170
chr_4 g16249 g16249.t2 cds g16249.t2.CDS2 8852079 8853170
chr_4 g16249 g16249.t2 TSS g16249.t2 8853685 8853685
chr_4 g16249 g16249.t2 exon g16249.t2.exon3 8853793 8853876
chr_4 g16249 g16249.t2 cds g16249.t2.CDS3 8853793 8853876
chr_4 g16249 g16249.t2 exon g16249.t2.exon4 8854064 8854370
chr_4 g16249 g16249.t2 cds g16249.t2.CDS4 8854064 8854370
chr_4 g16249 g16249.t2 TTS g16249.t2 8854409 8854409

Sequences

>g16249.t2 Gene=g16249 Length=1497
ATGAAGACATTGTGGTTTGAATTCTTTTTCATTCCTTTCGTTTCTGCTGTTGAAATCAAT
TGTGAATTCAGAAACATTAGTTGGGGTGGAGTTGGTTTATTTTACGACTGTAATTTACAG
AATGACCCACGAATAACTTCACTTTATACTGCAGTCACAGTTGTAAATGGAAACCATCAA
TTACCTATGAATAATGAAAAAGTCCAAGGATTCACTTCACAATCGTCTTCTCAAATTATT
AATTACATACCACATGGACTTGATAAATTTTTTCCAAACCTCATTTCGATTGATATCAAT
GATGGTCGCATAAAAGAAATTCATCAAAAAGATCTTGAACAATATCCAAAGTTAAAAATA
CTTGATTTGTTTGAAAATGACATTGAATATCTTGAAAAAGATCTTTTTAAGTTCAATACA
GAGTTGCAAATTGTTTGGATATATAATAACAAAATAACTCAGATTTACCCAACAATTTTC
GATCATTTAAATAATCTTAAACGACTTTGGTTGACAAATAATAAATGTATAAACAAAAAT
AAAGAAGACAGATCAGGTGTACTTGAATTGATAAAGGAAGTCAAAGAAAATTGTTCATCT
ATATTTTCTGTATTGGATCAACTCAATAACCTTAATGAAACAAATTTAAAAAATTTTCAA
ATAATCAAAAATCAGATAACCGAAAGTTTGTCAAAAATTTTAAATTTGAAATCAGATGTT
AAAGATATAAAAAATGATTTGATCGATAAACTTAAAAAATCTGAGACAAGCATAAATCAA
AAATTTGAAATAACTGCAAAAAACATGACTGATATTATACAAATTTTAATGAAACAACAG
GAAAAAATTTCGATGATAAAATTTGGTGAACAAAATGAGGAAGTGAATCAAAATTTGAAT
AATCTTAAAAATGAAACAAGTCAACAATTTTTGAGTCTTAAAGCAGAAACGATTCATCAA
TTTTTCTTCATTGCATTGCCATTGATTTGTCTTTTCACTTCTCTTAACATCGCTATGATT
TATTTGTGCTGCCGCAAGTATAACAAAGCTGGAAAACCTCAAAAATCGTCATCATCTAAT
GACGCTGAATTAGAAGAGAGAAATTTGAGTGTAATTCAATTAAATATTGAAAATTTTGAG
GAAAATCTACAAGAAGCAAATTTAATATTTATCAAATTTTTCACTGAAAAATGTCCATTC
AGTAAGAAAATAGCTCCAGTCTGGATTGATGTTGCTTCATCTTTAAAAACTTCACATGAA
GTAAAAATTGCTGAACTTGAATGTATTAAAAATAAAAAAATCTGTGATGAATTCAATGTC
AACAGTTTCCCAACATTCAAAATATTCAAAAATGGAAAAGAAATTTCAACTTTCGATACT
GAAAAATTTAATGCAAATACTGAAAATTTTGTGAAATTTGCAAAAAGTTTTATTGATAAA
AAAGTTGAAAATTTACAAATTAATAGTAAGAAAAGTTTTGCAAAATGTTTAGGTTAA

>g16249.t2 Gene=g16249 Length=498
MKTLWFEFFFIPFVSAVEINCEFRNISWGGVGLFYDCNLQNDPRITSLYTAVTVVNGNHQ
LPMNNEKVQGFTSQSSSQIINYIPHGLDKFFPNLISIDINDGRIKEIHQKDLEQYPKLKI
LDLFENDIEYLEKDLFKFNTELQIVWIYNNKITQIYPTIFDHLNNLKRLWLTNNKCINKN
KEDRSGVLELIKEVKENCSSIFSVLDQLNNLNETNLKNFQIIKNQITESLSKILNLKSDV
KDIKNDLIDKLKKSETSINQKFEITAKNMTDIIQILMKQQEKISMIKFGEQNEEVNQNLN
NLKNETSQQFLSLKAETIHQFFFIALPLICLFTSLNIAMIYLCCRKYNKAGKPQKSSSSN
DAELEERNLSVIQLNIENFEENLQEANLIFIKFFTEKCPFSKKIAPVWIDVASSLKTSHE
VKIAELECIKNKKICDEFNVNSFPTFKIFKNGKEISTFDTEKFNANTENFVKFAKSFIDK
KVENLQINSKKSFAKCLG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g16249.t2 CDD cd02961 PDI_a_family 372 474 3.48969E-23
11 g16249.t2 Coils Coil Coil 285 316 -
10 g16249.t2 Coils Coil Coil 362 389 -
8 g16249.t2 Gene3D G3DSA:3.80.10.10 Ribonuclease Inhibitor 65 200 1.2E-17
9 g16249.t2 Gene3D G3DSA:3.40.30.10 Glutaredoxin 350 496 2.8E-26
3 g16249.t2 PANTHER PTHR45672:SF3 THIOREDOXIN DOMAIN-CONTAINING PROTEIN 5 369 478 1.4E-23
4 g16249.t2 PANTHER PTHR45672 PROTEIN DISULFIDE-ISOMERASE C17H9.14C-RELATED 369 478 1.4E-23
1 g16249.t2 Pfam PF13855 Leucine rich repeat 116 175 3.5E-8
2 g16249.t2 Pfam PF00085 Thioredoxin 371 466 4.6E-18
14 g16249.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 16 -
15 g16249.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
16 g16249.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 11 -
18 g16249.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 16 -
13 g16249.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 17 320 -
17 g16249.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 321 344 -
12 g16249.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 345 498 -
21 g16249.t2 ProSiteProfiles PS51352 Thioredoxin domain profile. 348 479 10.338
6 g16249.t2 SUPERFAMILY SSF52058 L domain-like 79 178 3.4E-17
5 g16249.t2 SUPERFAMILY SSF52833 Thioredoxin-like 368 478 1.44E-21
7 g16249.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 16 -
20 g16249.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 320 342 -

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:0005515 protein binding 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. There were no conditions that were differentially expressed