General information for g10284.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein crumbs.
Parent gene
- The parent gene g10284 is located on chr_1: 8634497..8640239 (- strand)
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.t4 | isoform | g10284.t4 | 8628144 | 8631605 |
| chr_1 | g10284 | g10284.t4 | exon | g10284.t4.exon1 | 8628144 | 8628244 |
| chr_1 | g10284 | g10284.t4 | exon | g10284.t4.exon2 | 8628330 | 8628683 |
| chr_1 | g10284 | g10284.t4 | cds | g10284.t4.CDS1 | 8628661 | 8628683 |
| chr_1 | g10284 | g10284.t4 | exon | g10284.t4.exon3 | 8631196 | 8631605 |
| chr_1 | g10284 | g10284.t4 | cds | g10284.t4.CDS2 | 8631196 | 8631556 |
| chr_1 | g10284 | g10284.t4 | TSS | g10284.t4 | NA | NA |
| chr_1 | g10284 | g10284.t4 | TTS | g10284.t4 | NA | NA |
Sequences
>g10284.t4 Gene=g10284 Length=865
TTTCAAAGGAATCATTCAAGATGTTCAATTGTCAAATGGATCGCATGCAATGACTGTTGA
ACTTTATCCATTAGAAGATGAAGAAGGACTTAATCTGCCTCCGCCATTTGGTGAAGTTCA
TATAGATAGAGATTCAGTTCTTAGAGGAGAAGTTTCTGACGATCTTTGTAGAAATATGCC
ATGCGAACATGGTGCGACTTGTCATAATACATGGAATGATTTTGTTTGTGAATGCACAAA
AGGCTACAAAGGCAAATACTGCCAAGATATTCAGTTCTGTGAACTGCACAAGTGTCCTGG
ACATGCATTTTGCAAAAATCTTGATGATGGCTACGATTGTATTACAAATGTGACTTTCAG
AGGAACTGAAGACAGTCCATTACAGTATTACTTCGTTTCGCAAGGAACTGCTTTATCGAA
GATACATAACTGAAAAGAAGATAATAAAATTTATTAAAAAGATCCAAAACAAGTGAATTT
CTTTCTTAACTCGTACAATCAAATTTGGTTTTATTTTCATCTAAAAACAGATGTATAGCA
ACAACAATCGACTGATGTTTGAAATTTGTGCTTGATATCAATTTTCCTAAGTTAATGGAC
AAGCTCGCGAGCTAAAGCTTTCACAAAATATAGATCATTTAAATGTGATTTTCTTGGACT
TAATAAATTAATTTTTATCCGTCTTTCCCACTTATTGTGTGAGTCCGAGTTTTTTCTTGA
GTGATTCTGGCATTTCTGGTGGTGGTGGACGAGGCATTGAGAGGCTTACCATCATACACG
AACCATTGAGCAGCTGTAAGAGTACCAATCATAACAATACGTGGAAGTAAACCTCCCCAC
AATCCACCCCAGCCGAGTTTCTTTG
>g10284.t4 Gene=g10284 Length=127
MTVELYPLEDEEGLNLPPPFGEVHIDRDSVLRGEVSDDLCRNMPCEHGATCHNTWNDFVC
ECTKGYKGKYCQDIQFCELHKCPGHAFCKNLDDGYDCITNVTFRGTEDSPLQYYFVSQGT
ALSKIHN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10284.t4 | CDD | cd00054 | EGF_CA | 44 | 72 | 2.21608E-7 |
| 5 | g10284.t4 | Gene3D | G3DSA:2.10.25.10 | Laminin | 38 | 107 | 1.4E-12 |
| 2 | g10284.t4 | PANTHER | PTHR24049 | CRUMBS FAMILY MEMBER | 30 | 108 | 7.6E-21 |
| 3 | g10284.t4 | PANTHER | PTHR24049:SF1 | PROTEIN CRUMBS HOMOLOG 1 | 30 | 108 | 7.6E-21 |
| 1 | g10284.t4 | Pfam | PF00008 | EGF-like domain | 40 | 70 | 8.5E-8 |
| 9 | g10284.t4 | ProSitePatterns | PS00010 | Aspartic acid and asparagine hydroxylation site. | 51 | 62 | - |
| 7 | g10284.t4 | ProSitePatterns | PS01186 | EGF-like domain signature 2. | 60 | 71 | - |
| 8 | g10284.t4 | ProSitePatterns | PS00022 | EGF-like domain signature 1. | 60 | 71 | - |
| 12 | g10284.t4 | ProSiteProfiles | PS50026 | EGF-like domain profile. | 36 | 72 | 19.929 |
| 10 | g10284.t4 | SMART | SM00179 | egfca_6 | 36 | 72 | 1.2E-4 |
| 11 | g10284.t4 | SMART | SM00181 | egf_5 | 39 | 72 | 3.4E-5 |
| 4 | g10284.t4 | SUPERFAMILY | SSF57196 | EGF/Laminin | 35 | 72 | 1.36E-9 |
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.
