Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Leucine-rich repeat-containing protein 15.

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 g14415 g14415.t3 isoform g14415.t3 393862 394935
chr_4 g14415 g14415.t3 exon g14415.t3.exon1 393862 394239
chr_4 g14415 g14415.t3 cds g14415.t3.CDS1 393864 394239
chr_4 g14415 g14415.t3 exon g14415.t3.exon2 394292 394935
chr_4 g14415 g14415.t3 cds g14415.t3.CDS2 394292 394935
chr_4 g14415 g14415.t3 TSS g14415.t3 394988 394988
chr_4 g14415 g14415.t3 TTS g14415.t3 NA NA

Sequences

>g14415.t3 Gene=g14415 Length=1022
ATGAGGGCATTTTTAATTGCCTTTTTGCTTTTCTCAAGTGTATGTTACATAAGTTCGAAG
GCAGTTTTAAAAAATTTTGACGATGATGAGATCATAAGTTGTGACTTTTTCGGTACCGGA
CAAATTGAAGATGAATACGGATGCTTTTTGACATTAAGAAATCCTAATGGAATAGAATTT
CCGAGCATAGAAGGCACACATTTGCCTGGATTTGATGATAGTGATGTACAAGTTGTTTCC
GGATATATGCAAGATTCACCCATAGTTCCATCAGTCTTATGCCGCCAATTTTCAAATCTT
GAAGTTATTGTTATGGCCGGTGGTAATATTCGTGACCTCACGCCAGCTGCTTTCGAAAAT
TGTTCAAATTTGAGACAAATTTTACTCCAAGGAAATCAACTTACATCAATACCTGCAAAT
ATCTTTAGCAACAGCAATAATTTAGAAATTCTTGATTTTGGATCAAATCAAATTAATGAA
ATTGATAATAATGCATTTACTGGAACATCAATACAATTTATGGAACTTTCATATAATAAT
TTAACGGAAGTTAATGCTGCTTGGTTTACGCCTATCGCATCAAGTTTAATATTTTTAGAT
TTGATGAATAATCGTATAAGAGAAATAGGAAATGCTGCTTTTTCACCGTTGACTGGTCTA
ACAAATCTTTTACTTGCATACAATAATATTGAATCTATTCATCCTGGAGCATTTAATGGA
CTTTCTAATTTACTTGACCTTTCATTATCAACTACAACAATCACTGAGCTTATTCCAGAA
TGGTTTTCAACTTTAATTTCACTACGAACTTTCTCAGCAACAAACAATCGCATCACATCA
CTTCCGGATGGATTATTTACTTCAAATACTAATCTTGCAGAGCTTTATCTCTATTCAAAT
CGCATTCGAGAGATTCATAGCAACGCTTTTGGCACAGCAACATCAAGGAACCTGAGAACT
GTATATTTAACAAACAATTTTGTTAACAATATTGATCCTGTTTGGATTAATGATGCTGAA
AA

>g14415.t3 Gene=g14415 Length=340
MRAFLIAFLLFSSVCYISSKAVLKNFDDDEIISCDFFGTGQIEDEYGCFLTLRNPNGIEF
PSIEGTHLPGFDDSDVQVVSGYMQDSPIVPSVLCRQFSNLEVIVMAGGNIRDLTPAAFEN
CSNLRQILLQGNQLTSIPANIFSNSNNLEILDFGSNQINEIDNNAFTGTSIQFMELSYNN
LTEVNAAWFTPIASSLIFLDLMNNRIREIGNAAFSPLTGLTNLLLAYNNIESIHPGAFNG
LSNLLDLSLSTTTITELIPEWFSTLISLRTFSATNNRITSLPDGLFTSNTNLAELYLYSN
RIREIHSNAFGTATSRNLRTVYLTNNFVNNIDPVWINDAE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g14415.t3 Gene3D G3DSA:3.80.10.10 Ribonuclease Inhibitor 85 192 4.3E-22
9 g14415.t3 Gene3D G3DSA:3.80.10.10 Ribonuclease Inhibitor 193 339 9.1E-33
3 g14415.t3 PANTHER PTHR24369 ANTIGEN BSP, PUTATIVE-RELATED 86 287 9.3E-47
4 g14415.t3 PANTHER PTHR24369 ANTIGEN BSP, PUTATIVE-RELATED 209 333 9.3E-47
2 g14415.t3 Pfam PF13306 BspA type Leucine rich repeat region (6 copies) 99 215 4.4E-12
1 g14415.t3 Pfam PF13855 Leucine rich repeat 219 278 2.4E-13
11 g14415.t3 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
12 g14415.t3 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
13 g14415.t3 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
14 g14415.t3 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
10 g14415.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 340 -
31 g14415.t3 ProSiteProfiles PS51450 Leucine-rich repeat profile. 123 144 7.119
29 g14415.t3 ProSiteProfiles PS51450 Leucine-rich repeat profile. 147 168 7.419
30 g14415.t3 ProSiteProfiles PS51450 Leucine-rich repeat profile. 170 191 4.662
28 g14415.t3 ProSiteProfiles PS51450 Leucine-rich repeat profile. 195 216 7.527
26 g14415.t3 ProSiteProfiles PS51450 Leucine-rich repeat profile. 219 240 6.649
25 g14415.t3 ProSiteProfiles PS51450 Leucine-rich repeat profile. 243 264 4.77
27 g14415.t3 ProSiteProfiles PS51450 Leucine-rich repeat profile. 267 288 6.611
32 g14415.t3 ProSiteProfiles PS51450 Leucine-rich repeat profile. 291 312 6.973
24 g14415.t3 ProSiteProfiles PS51450 Leucine-rich repeat profile. 317 338 5.325
17 g14415.t3 SMART SM00369 LRR_typ_2 97 120 120.0
16 g14415.t3 SMART SM00369 LRR_typ_2 121 144 0.88
21 g14415.t3 SMART SM00369 LRR_typ_2 147 168 13.0
23 g14415.t3 SMART SM00369 LRR_typ_2 194 216 61.0
22 g14415.t3 SMART SM00369 LRR_typ_2 217 240 0.0037
18 g14415.t3 SMART SM00369 LRR_typ_2 241 264 170.0
20 g14415.t3 SMART SM00369 LRR_typ_2 265 288 0.1
19 g14415.t3 SMART SM00369 LRR_typ_2 290 312 6.1
5 g14415.t3 SUPERFAMILY SSF52058 L domain-like 90 333 2.38E-43
7 g14415.t3 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -
15 g14415.t3 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 17 -
6 g14415.t3 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 20 -

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