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 g16487 g16487.t2 isoform g16487.t2 9675936 9676467
chr_4 g16487 g16487.t2 exon g16487.t2.exon1 9675936 9676467
chr_4 g16487 g16487.t2 cds g16487.t2.CDS1 9675937 9676467
chr_4 g16487 g16487.t2 TSS g16487.t2 9676496 9676496
chr_4 g16487 g16487.t2 TTS g16487.t2 NA NA

Sequences

>g16487.t2 Gene=g16487 Length=532
ATGAAATATTTTGCTGCTTTAATTTCTTTATTTTATATTTTAAATTCAGTGTCTGGACAA
GAATTTACTTGCGATTATAGAAATGGCACAATTAATTCTGTACCAGCTTACTATTGTTTA
TTGACAGCAAACAACCCAAATGGTGCTGAAAATATTACATCCATAGGTGGACAACATTTA
GAAGGTTTTACTGATGCTGACGTTTTTGGAGTTTTCAGTAGGGATGGAATTTCTACAAAT
GTTCCTACAGTCTTTTGTACACAATTTACAAACCTTGTTGAACTTGATTTATCTGGTCTG
AGAATTACAAATGTTGCTGCAAATTCATTTAATGCTTGCACAAATCTTCTTTGGCTTCGA
CTTTATTTCAATAATATTTCAAGTTTGCCAGCAAATGTATTTTCTAATACTCAAAGCTTG
GAATATTTAGATTTAGATACAAATCAATTGACAACATTGCCAGAGAACATTTTTGCTAAT
TTAGGACGATTAGACATGTTGGAATTGAGAAATAATCCTTTCCAAAATATTC

>g16487.t2 Gene=g16487 Length=177
MKYFAALISLFYILNSVSGQEFTCDYRNGTINSVPAYYCLLTANNPNGAENITSIGGQHL
EGFTDADVFGVFSRDGISTNVPTVFCTQFTNLVELDLSGLRITNVAANSFNACTNLLWLR
LYFNNISSLPANVFSNTQSLEYLDLDTNQLTTLPENIFANLGRLDMLELRNNPFQNI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g16487.t2 Gene3D G3DSA:3.80.10.10 Ribonuclease Inhibitor 13 177 3.8E-27
2 g16487.t2 PANTHER PTHR24373 SLIT RELATED LEUCINE-RICH REPEAT NEURONAL PROTEIN 19 177 1.1E-19
1 g16487.t2 Pfam PF13855 Leucine rich repeat 115 173 7.3E-12
7 g16487.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
8 g16487.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
9 g16487.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 14 -
10 g16487.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
6 g16487.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 177 -
17 g16487.t2 ProSiteProfiles PS51450 Leucine-rich repeat profile. 91 112 5.81
19 g16487.t2 ProSiteProfiles PS51450 Leucine-rich repeat profile. 115 136 6.834
16 g16487.t2 ProSiteProfiles PS51450 Leucine-rich repeat profile. 139 160 7.65
18 g16487.t2 ProSiteProfiles PS51450 Leucine-rich repeat profile. 163 177 5.217
14 g16487.t2 SMART SM00369 LRR_typ_2 89 112 37.0
11 g16487.t2 SMART SM00364 LRR_bac_2 113 132 65.0
13 g16487.t2 SMART SM00369 LRR_typ_2 113 136 1.7
12 g16487.t2 SMART SM00364 LRR_bac_2 137 156 0.37
15 g16487.t2 SMART SM00369 LRR_typ_2 137 160 0.035
3 g16487.t2 SUPERFAMILY SSF52058 L domain-like 80 174 7.78E-23
4 g16487.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -

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