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.t8 TTS g10284.t8 8628629 8628629
chr_1 g10284 g10284.t8 isoform g10284.t8 8629225 8630059
chr_1 g10284 g10284.t8 exon g10284.t8.exon1 8629225 8629442
chr_1 g10284 g10284.t8 cds g10284.t8.CDS1 8629413 8629442
chr_1 g10284 g10284.t8 exon g10284.t8.exon2 8629518 8630059
chr_1 g10284 g10284.t8 cds g10284.t8.CDS2 8629518 8629904
chr_1 g10284 g10284.t8 TSS g10284.t8 NA NA

Sequences

>g10284.t8 Gene=g10284 Length=760
ACATCACGACGGGAAATAATTTTACATGCATATGCAAAGAAGGCTTTGAAGGGGCACTTT
GTGACTACGCTTACTGTCTTGTTGAGCCGTGCAAAAATGATGGAAACTGTTATACAGATT
CAGAAGTGCCAGAGTGTAAATGCCAACTTGGTTTCATGGGAAAATATTGTGAAATTGATA
TTGATGATTGTGCCTCAACTCCATGTCAAAATAATGCAACATGCATTGACTTGGTGAACG
ATTATAAATGCGAATGTGAAGGAACTGGTTTCACAGGAGAAAATTGTGAAAATGACATTG
ATGAATGTTTGACAGAAAATATTTCATGTGGCGGTTTGGGAACTTGTATTAATACAAAAG
GATCTTATAAATGTCAATGTAATGAAGGAATGTGTGGATCAGATTGCAATTTAGTAGATC
CTTGTCAAGAAAATGAGTCACCGTGCATGAATGGTGGTAAATGTATTGAAACATGTGTCA
CATTCCCTGACTATAGGTGTCAATGTGTTGATGGTTATGCTGGCAAAAATTGCACAGAAC
AACAACAGGACCAACTGCAGGTGACATTTTAATAATTGTCATTCCAATCGTCGTCAGTTT
ATTAGCTATCGGTGGAATTGTTCTTGCAGTACTTTTAATGATGGCAAGAAATAAAAGAGC
AACGAGAGGAACTTATAGTCCTTCAGCGCAAGAATATTGCAATCCTCGACTTGAAATGGA
TTCTGTTTTAAAACAACCACCAGAGGAGAGACTTATCTAA

>g10284.t8 Gene=g10284 Length=138
MGKYCEIDIDDCASTPCQNNATCIDLVNDYKCECEGTGFTGENCENDIDECLTENISCGG
LGTCINTKGSYKCQCNEGMCGSDCNLVDPCQENESPCMNGGKCIETCVTFPDYRCQCVDG
YAGKNCTEQQQDQLQVTF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g10284.t8 CDD cd00054 EGF_CA 8 45 6.37335E-6
17 g10284.t8 CDD cd00054 EGF_CA 47 84 2.59845E-5
15 g10284.t8 CDD cd00054 EGF_CA 87 127 0.0048513
12 g10284.t8 Gene3D G3DSA:2.10.25.10 Laminin 6 46 9.0E-16
14 g10284.t8 Gene3D G3DSA:2.10.25.10 Laminin 47 86 7.1E-9
13 g10284.t8 Gene3D G3DSA:2.10.25.10 Laminin 87 129 1.4E-9
4 g10284.t8 PANTHER PTHR22804:SF53 - 2 133 9.2E-27
5 g10284.t8 PANTHER PTHR22804 AGGRECAN/VERSICAN PROTEOGLYCAN 2 133 9.2E-27
8 g10284.t8 PRINTS PR00010 Type II EGF-like signature 8 19 3.5E-6
7 g10284.t8 PRINTS PR00010 Type II EGF-like signature 100 107 3.5E-6
9 g10284.t8 PRINTS PR00010 Type II EGF-like signature 111 121 3.5E-6
6 g10284.t8 PRINTS PR00010 Type II EGF-like signature 122 128 3.5E-6
1 g10284.t8 Pfam PF00008 EGF-like domain 12 43 1.5E-9
3 g10284.t8 Pfam PF07645 Calcium-binding EGF domain 47 78 4.3E-7
2 g10284.t8 Pfam PF00008 EGF-like domain 90 125 8.8E-8
23 g10284.t8 ProSitePatterns PS00010 Aspartic acid and asparagine hydroxylation site. 23 34 -
21 g10284.t8 ProSitePatterns PS01187 Calcium-binding EGF-like domain signature. 47 73 -
22 g10284.t8 ProSitePatterns PS00010 Aspartic acid and asparagine hydroxylation site. 64 75 -
19 g10284.t8 ProSitePatterns PS00022 EGF-like domain signature 1. 73 84 -
18 g10284.t8 ProSitePatterns PS01186 EGF-like domain signature 2. 115 126 -
20 g10284.t8 ProSitePatterns PS00022 EGF-like domain signature 1. 115 126 -
32 g10284.t8 ProSiteProfiles PS50026 EGF-like domain profile. 8 45 22.305
30 g10284.t8 ProSiteProfiles PS50026 EGF-like domain profile. 47 85 12.772
31 g10284.t8 ProSiteProfiles PS50026 EGF-like domain profile. 86 127 16.58
26 g10284.t8 SMART SM00179 egfca_6 8 45 8.7E-10
29 g10284.t8 SMART SM00181 egf_5 11 45 4.5E-6
25 g10284.t8 SMART SM00179 egfca_6 47 85 2.6E-6
27 g10284.t8 SMART SM00181 egf_5 50 85 0.69
24 g10284.t8 SMART SM00179 egfca_6 87 127 0.15
28 g10284.t8 SMART SM00181 egf_5 89 127 3.8E-5
10 g10284.t8 SUPERFAMILY SSF57184 Growth factor receptor domain 4 128 4.87E-8
11 g10284.t8 SUPERFAMILY SSF57196 EGF/Laminin 8 52 3.54E-11

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