Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Protein crumbs.

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_1 g10284 g10284.t6 TTS g10284.t6 8628629 8628629
chr_1 g10284 g10284.t6 isoform g10284.t6 8629094 8630122
chr_1 g10284 g10284.t6 exon g10284.t6.exon1 8629094 8629138
chr_1 g10284 g10284.t6 exon g10284.t6.exon2 8629215 8629477
chr_1 g10284 g10284.t6 cds g10284.t6.CDS1 8629443 8629477
chr_1 g10284 g10284.t6 exon g10284.t6.exon3 8629541 8630122
chr_1 g10284 g10284.t6 cds g10284.t6.CDS2 8629541 8629904
chr_1 g10284 g10284.t6 TSS g10284.t6 NA NA

Sequences

>g10284.t6 Gene=g10284 Length=890
AGTTAGTTTAAAAAAAAAAATTTAATGAACAACATTTTTTAAAAAAATATATTTAAATTT
CAGACATCACGACGGGAAATAATTTTACATGCATATGCAAAGAAGGCTTTGAAGGGGCAC
TTTGTGACTACGCTTACTGTCTTGTTGAGCCGTGCAAAAATGATGGAAACTGTTATACAG
ATTCAGAAGTGCCAGAGTGTAAATGCCAACTTGGTTTCATGGGAAAATATTGTGAAATTG
ATATTGATGATTGTGCCTCAACTCCATGTCAAAATAATGCAACATGCATTGACTTGGTGA
ACGATTATAAATGCGAATGTGAAGGAACTGGTTTCACAGGAGAAAATTGTGAAAATGACA
TTGATGAATGTTTGACAGAAAATATTTCATGTGGCGGTTTGGGAACTTGTATTAATACAA
AAGGATCTTATAAATGTCAATGTAATGAAGGAATGTGTGGATCAGATTGCAATTTAGTAG
ATCCTTGTCAAGAAAATGAGTCACCGTGCATGAATGGTGGTAAATGTATTGAAACATGTG
TCACATTCCCTGACTATAGGTGTCAATGTGTTGATGGTTATGTGACTTTTAAAAAATTAT
TTCTTAGGTGCTTTTAGCAACAGGACCAACTGCAGGTGACATTTTAATAATTGTCATTCC
AATCGTCGTCAGTTTATTAGCTATCGGTGGAATTGTTCTTGCAGTACTTTTAATGATGGC
AAGAAATAAAAGAGCAACGAGAGGAACTTATAGTCCTTCAGCGCAAGAATATTGCAATCC
TCGACTTGAAATGGATTCTGTTTTAAAACAACCACCAGAGGAGAGACTTATCTAAAGAAT
ACTTATCCATCACGTGCGAATGATGTGTTAGTTATTATGTGATATAAAAA

>g10284.t6 Gene=g10284 Length=132
MGKYCEIDIDDCASTPCQNNATCIDLVNDYKCECEGTGFTGENCENDIDECLTENISCGG
LGTCINTKGSYKCQCNEGMCGSDCNLVDPCQENESPCMNGGKCIETCVTFPDYRCQCVDG
YVTFKKLFLRCF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g10284.t6 CDD cd00054 EGF_CA 8 45 6.25736E-6
17 g10284.t6 CDD cd00054 EGF_CA 47 84 2.59338E-5
14 g10284.t6 Gene3D G3DSA:2.10.25.10 Laminin 7 46 7.0E-16
15 g10284.t6 Gene3D G3DSA:2.10.25.10 Laminin 47 86 6.6E-9
13 g10284.t6 Gene3D G3DSA:2.10.25.10 Laminin 87 125 6.4E-8
4 g10284.t6 PANTHER PTHR45836:SF13 NOTCH 3 2 121 2.2E-23
5 g10284.t6 PANTHER PTHR45836 SLIT HOMOLOG 2 121 2.2E-23
9 g10284.t6 PRINTS PR00010 Type II EGF-like signature 8 19 3.9E-5
7 g10284.t6 PRINTS PR00010 Type II EGF-like signature 20 27 3.9E-5
6 g10284.t6 PRINTS PR00010 Type II EGF-like signature 28 38 3.9E-5
8 g10284.t6 PRINTS PR00010 Type II EGF-like signature 40 46 3.9E-5
1 g10284.t6 Pfam PF00008 EGF-like domain 12 43 1.4E-9
3 g10284.t6 Pfam PF07645 Calcium-binding EGF domain 47 78 4.0E-7
2 g10284.t6 Pfam PF00008 EGF-like domain 90 121 1.3E-5
21 g10284.t6 ProSitePatterns PS00010 Aspartic acid and asparagine hydroxylation site. 23 34 -
19 g10284.t6 ProSitePatterns PS01187 Calcium-binding EGF-like domain signature. 47 73 -
20 g10284.t6 ProSitePatterns PS00010 Aspartic acid and asparagine hydroxylation site. 64 75 -
18 g10284.t6 ProSitePatterns PS00022 EGF-like domain signature 1. 73 84 -
30 g10284.t6 ProSiteProfiles PS50026 EGF-like domain profile. 8 45 22.305
29 g10284.t6 ProSiteProfiles PS50026 EGF-like domain profile. 47 85 12.772
28 g10284.t6 ProSiteProfiles PS50026 EGF-like domain profile. 86 129 8.93
24 g10284.t6 SMART SM00179 egfca_6 8 45 8.7E-10
26 g10284.t6 SMART SM00181 egf_5 11 45 4.5E-6
23 g10284.t6 SMART SM00179 egfca_6 47 85 2.6E-6
25 g10284.t6 SMART SM00181 egf_5 50 85 0.69
22 g10284.t6 SMART SM00179 egfca_6 87 132 0.35
27 g10284.t6 SMART SM00181 egf_5 89 132 0.0039
10 g10284.t6 SUPERFAMILY SSF57196 EGF/Laminin 8 52 8.38E-11
11 g10284.t6 SUPERFAMILY SSF57196 EGF/Laminin 47 85 1.15E-7
12 g10284.t6 SUPERFAMILY SSF57196 EGF/Laminin 95 122 2.42E-5

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:0005509 calcium ion 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.

Raw TPM values