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
HiC_scaffold_129 g17724 g17724.t1 isoform g17724.t1 1 2000
HiC_scaffold_129 g17724 g17724.t1 exon g17724.t1.exon1 1229 2000
HiC_scaffold_129 g17724 g17724.t1 cds g17724.t1.CDS1 1229 2000
HiC_scaffold_129 g17724 g17724.t1 TSS g17724.t1 NA NA
HiC_scaffold_129 g17724 g17724.t1 TTS g17724.t1 NA NA

Sequences

>g17724.t1 Gene=g17724 Length=772
CATTTCATATTCAAATGCACAAGTAATTTGTGAATTTGGAATCCGTTTTGTCGGTGGTGG
AGGTGCTGTATATTCTTGTGGAATATCAGCAAATAATCCAAATGGAAGTGAAATCACAGA
AATTCACGGTTTTCACTTGGAAGGTTACACTGATGCTGATGTTCTTGGTGTTGTAAGAGT
CAATGGATCACTTGGAACAGCTTTCCCTCCAGTTTTTTGTCAAAGATTTCCAAATATTCA
AGCATTTGGGCTCTTTAATACAGGAATTACTGAAATAACTGATGCTTCATTTAGTGGCTG
CAATTCAGTCAATTATCTTTCAATTCTAACAAATCGAATCAGTTCAATTAGTCAAAATGC
TTTTGTCAATAATCAAAATTTGACTTACATTGATTTGGACAGCAATCAACTTACAACATT
ACCTGAAAATGTTTTCGCATCACTTGGCAATTTAGCTACACTTGACTTAAGAAATAATCC
ATTTGAGAACATCCCAGCTGGTGCTTTCAATGGTTTAGGAGCTTTATCAACACTTTTCCT
ACAAAATTCGAGACTCACAGCCATTAATCCAGCTTGGTTTGCAGCAACTCCAAATTTAAT
TAGCCTTTATCTTTACAATAATAACATTAGCGAATTTAATGCTGCTGCTTTTACTGGATT
GAGTAATCTTCAGACACTTGACATGGGTGGCAATAACATCAGTGGCATTAATGAAAATTC
ATTTGTTGGTCTTGAAAATCTTTCATATCTTAGTTTAAATGACAATTTCTTC

>g17724.t1 Gene=g17724 Length=257
ISYSNAQVICEFGIRFVGGGGAVYSCGISANNPNGSEITEIHGFHLEGYTDADVLGVVRV
NGSLGTAFPPVFCQRFPNIQAFGLFNTGITEITDASFSGCNSVNYLSILTNRISSISQNA
FVNNQNLTYIDLDSNQLTTLPENVFASLGNLATLDLRNNPFENIPAGAFNGLGALSTLFL
QNSRLTAINPAWFAATPNLISLYLYNNNISEFNAAAFTGLSNLQTLDMGGNNISGINENS
FVGLENLSYLSLNDNFF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g17724.t1 Gene3D G3DSA:3.80.10.10 Ribonuclease Inhibitor 35 257 0.0000
4 g17724.t1 PANTHER PTHR24373 SLIT RELATED LEUCINE-RICH REPEAT NEURONAL PROTEIN 72 175 0.0000
3 g17724.t1 PANTHER PTHR24373 SLIT RELATED LEUCINE-RICH REPEAT NEURONAL PROTEIN 127 255 0.0000
2 g17724.t1 Pfam PF13855 Leucine rich repeat 106 160 0.0000
1 g17724.t1 Pfam PF13855 Leucine rich repeat 175 233 0.0000
16 g17724.t1 ProSiteProfiles PS51450 Leucine-rich repeat profile. 102 123 5.1170
17 g17724.t1 ProSiteProfiles PS51450 Leucine-rich repeat profile. 126 147 7.3350
15 g17724.t1 ProSiteProfiles PS51450 Leucine-rich repeat profile. 150 171 7.0030
14 g17724.t1 ProSiteProfiles PS51450 Leucine-rich repeat profile. 198 219 6.4180
13 g17724.t1 ProSiteProfiles PS51450 Leucine-rich repeat profile. 222 243 7.3040
12 g17724.t1 ProSiteProfiles PS51450 Leucine-rich repeat profile. 246 257 4.7390
8 g17724.t1 SMART SM00369 LRR_typ_2 125 147 0.3000
7 g17724.t1 SMART SM00369 LRR_typ_2 148 171 0.0011
9 g17724.t1 SMART SM00369 LRR_typ_2 172 195 13.0000
10 g17724.t1 SMART SM00369 LRR_typ_2 196 219 24.0000
6 g17724.t1 SMART SM00369 LRR_typ_2 220 243 0.0990
5 g17724.t1 SUPERFAMILY SSF52058 L domain-like 61 256 0.0000

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