Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Protein extra-macrochaetae.

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 g10304 g10304.t2 isoform g10304.t2 8842624 8843579
chr_1 g10304 g10304.t2 exon g10304.t2.exon1 8842624 8843579
chr_1 g10304 g10304.t2 TSS g10304.t2 8842633 8842633
chr_1 g10304 g10304.t2 cds g10304.t2.CDS1 8843136 8843579
chr_1 g10304 g10304.t2 TTS g10304.t2 NA NA

Sequences

>g10304.t2 Gene=g10304 Length=956
CAAATATTTCATTCTCGTTCAGTCTGCCGTCACGTTCATTTCGTTGCTCATTTTTTGAGT
TTAAATAATAATAAAAGAAAGAAAATTAATTTAACCTGAAGAGGATTTCAAGAGAAAGAG
AGAGAAAATAAGTTTAATTGAGAAAATAAAGAGTATAATCCCGAAAGAGATTTCGCGACA
CGCAAACAAAAGTGAAAAATAAAATAAATAGAAAAATAAATCAACGCATAGAAAAACAAA
AGAAAGAAATTGTGAAAGAAGGAAAAAAAGATTTAATTATTATTAACAAGTGGTTAATTT
CATCAGAGAAGAAACAATACGAAATTAGAAAGTTTATTGACTAAAAAGTTTATTTTTAGT
CACAGACAAATATAAAATAAAAAGTTCAAAAAGATTAAGTGAAAATAAAAATAAATCCGC
GTTTGGATTAAGCCGGATTAGCAACAACAAATTAATAATTTTTCTTGAAGTGTAAGGAAA
CATAAAAAGCCGTCAAAATTCAGCAAAGAAAGATGAAAGCAATCACAGCCGTCTGCTCAA
CTGGCGCTTCAGTACCATCAATTGCCAGTGGACGTGTTTCACGTCATCGCGATGGCGAAA
ATGCAGAAATTCAAATGTACATAAGCAAACTCAAAGATCTCGTACCCTTCATGCCAAAGA
ATCGAAAATTATCGAAATTAGAGGTCATCCATAACGTCATTCAGTACATTTGTGATTTAC
AAACGGCACTCGATACTCATCCAGCTGTCAATGAATTTGATGCAGCCGCTGTGCTTGCTG
GTCAAAATCAAATGATCGAACAAGTGAGTCCTCGACAACCACTTCATGTGAGACCTAGTC
CAAACACCATCTTACCTTCAAATAATCATAGCAACACCTCACCCTTATCACAGCAGCCGC
AACAACCACAACAAATTTTCACCACATCCAATGAATATTCATCAATAAATCATAAT

>g10304.t2 Gene=g10304 Length=148
MKAITAVCSTGASVPSIASGRVSRHRDGENAEIQMYISKLKDLVPFMPKNRKLSKLEVIH
NVIQYICDLQTALDTHPAVNEFDAAAVLAGQNQMIEQVSPRQPLHVRPSPNTILPSNNHS
NTSPLSQQPQQPQQIFTTSNEYSSINHN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g10304.t2 CDD cd19695 bHLH_dnHLH_EMC_like 27 77 5.1027E-23
5 g10304.t2 Gene3D G3DSA:4.10.280.10 HLH 29 89 1.1E-16
12 g10304.t2 MobiDBLite mobidb-lite consensus disorder prediction 120 148 -
2 g10304.t2 PANTHER PTHR11723:SF17 PROTEIN EXTRA-MACROCHAETAE 1 133 8.0E-35
3 g10304.t2 PANTHER PTHR11723 DNA-BINDING PROTEIN INHIBITOR 1 133 8.0E-35
1 g10304.t2 Pfam PF00010 Helix-loop-helix DNA-binding domain 33 70 4.3E-7
7 g10304.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
8 g10304.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
9 g10304.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
10 g10304.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 20 -
6 g10304.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 148 -
13 g10304.t2 ProSiteProfiles PS50888 Myc-type, basic helix-loop-helix (bHLH) domain profile. 17 69 9.102
4 g10304.t2 SUPERFAMILY SSF47459 HLH, helix-loop-helix DNA-binding domain 32 81 1.06E-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:0045892 negative regulation of transcription, DNA-templated BP
GO:0005634 nucleus CC
GO:0005737 cytoplasm CC
GO:0046983 protein dimerization activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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