Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Protein roadkill.

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_3 g1015 g1015.t1 isoform g1015.t1 7481282 7482491
chr_3 g1015 g1015.t1 exon g1015.t1.exon1 7481282 7481430
chr_3 g1015 g1015.t1 cds g1015.t1.CDS1 7481282 7481430
chr_3 g1015 g1015.t1 exon g1015.t1.exon2 7481493 7481736
chr_3 g1015 g1015.t1 cds g1015.t1.CDS2 7481493 7481736
chr_3 g1015 g1015.t1 exon g1015.t1.exon3 7481799 7482280
chr_3 g1015 g1015.t1 cds g1015.t1.CDS3 7481799 7482280
chr_3 g1015 g1015.t1 exon g1015.t1.exon4 7482341 7482491
chr_3 g1015 g1015.t1 cds g1015.t1.CDS4 7482341 7482491
chr_3 g1015 g1015.t1 TSS g1015.t1 NA NA
chr_3 g1015 g1015.t1 TTS g1015.t1 NA NA

Sequences

>g1015.t1 Gene=g1015 Length=1026
ATGTCTTCAAATCAACAACATGCAGCTAATCGTAGAGTCGTGTGGAACATTAGTAATTTC
ACTAAAGCTCAAAGAAGTAACCGTGAAAGGTCGTATAAGTTATATTCTGATCCTTTCGAA
ATTCTAATTGGTGAAAATAAAACAATATGGCGTCTAATGTTTGAAATAAGATACTGTTAT
ATTTTCTTGATCAAAGAATCAGATATTTCTGATTTGTATATCTGTTGGAAAATTACTGAT
AGTAAATTAGTGTTAATTTTTGAAGGCGTATTTAGAATCAAGAAAAATGTATTGGCAGAT
GAAAAACAATATTTTATAGGTAATTTACAGCCAGATAACGTTTTCAATAATCAAAACTTT
GTTTCAAATGAAACTCTCACTCTCATACTCGATATAGAACTTTATCAATCTTATCCAGAA
AAAACTGCAAATGGCTCAAAAGGCAAACTTTCTGAAATTGTTAAAAATTTGTTCAATTCT
AACAGCTATAGTGATTTTACAATTATCTCTTCTGATGGAAAAATGTTTTCTGCTCATCAA
TGTATTCTTGCTGGTCGTTCATCAGTTTTCAAAGCAATGCTGTCAACTGAAATGATTGAA
AAGAAACTTAACAAGATTAAAGTAAAAGATATTGATGGTGACACAATGCATGAGCTTTTG
AAATTTATCTACACTGAAGAAGTTGAAAATTCAAATAATGTTGCTAAAAAGTTAATTTAT
GCAGCTGAAAAATATGACCTTCCTGAGCTTAAATCAATTTGTATCAGTAAATTGATAAAT
GAAATAGCAGAAGAAAACATTTTTGAAATACTTTTGCTGGCTGATCGTTTCAATGAAGAG
ATATTGCTGAACAAATGCATGTTGTTTATTAAAAGCAATTACGATGAATTAGAAAATCGA
AATGAGTGGAACAATATTGATATTAAATTGATAAAGAGAATCATGAAATTTTTGAAAGAC
AATTCTGATATTATTTGTCTTTCAAATCAAAATCACTTTGAATCATTTTTTACAACAGTT
AGATAA

>g1015.t1 Gene=g1015 Length=341
MSSNQQHAANRRVVWNISNFTKAQRSNRERSYKLYSDPFEILIGENKTIWRLMFEIRYCY
IFLIKESDISDLYICWKITDSKLVLIFEGVFRIKKNVLADEKQYFIGNLQPDNVFNNQNF
VSNETLTLILDIELYQSYPEKTANGSKGKLSEIVKNLFNSNSYSDFTIISSDGKMFSAHQ
CILAGRSSVFKAMLSTEMIEKKLNKIKVKDIDGDTMHELLKFIYTEEVENSNNVAKKLIY
AAEKYDLPELKSICISKLINEIAEENIFEILLLADRFNEEILLNKCMLFIKSNYDELENR
NEWNNIDIKLIKRIMKFLKDNSDIICLSNQNHFESFFTTVR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g1015.t1 CDD cd14733 BACK 264 316 4.80e-06
6 g1015.t1 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 135 293 0.00e+00
2 g1015.t1 PANTHER PTHR24413:SF213 FI01029P-RELATED 112 305 0.00e+00
3 g1015.t1 PANTHER PTHR24413 SPECKLE-TYPE POZ PROTEIN 112 305 0.00e+00
1 g1015.t1 Pfam PF00651 BTB/POZ domain 155 260 0.00e+00
7 g1015.t1 ProSiteProfiles PS50097 BTB domain profile. 164 232 1.69e+01
5 g1015.t1 SMART SM00225 BTB_4 164 262 0.00e+00
4 g1015.t1 SUPERFAMILY SSF54695 POZ domain 149 260 0.00e+00

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

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. There were no conditions that were differentially expressed