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.t2 isoform g1015.t2 7481282 7482491
chr_3 g1015 g1015.t2 exon g1015.t2.exon1 7481282 7481736
chr_3 g1015 g1015.t2 cds g1015.t2.CDS1 7481500 7481736
chr_3 g1015 g1015.t2 exon g1015.t2.exon2 7481799 7482280
chr_3 g1015 g1015.t2 cds g1015.t2.CDS2 7481799 7482280
chr_3 g1015 g1015.t2 exon g1015.t2.exon3 7482341 7482491
chr_3 g1015 g1015.t2 cds g1015.t2.CDS3 7482341 7482491
chr_3 g1015 g1015.t2 TSS g1015.t2 NA NA
chr_3 g1015 g1015.t2 TTS g1015.t2 NA NA

Sequences

>g1015.t2 Gene=g1015 Length=1088
ATGTCTTCAAATCAACAACATGCAGCTAATCGTAGAGTCGTGTGGAACATTAGTAATTTC
ACTAAAGCTCAAAGAAGTAACCGTGAAAGGTCGTATAAGTTATATTCTGATCCTTTCGAA
ATTCTAATTGGTGAAAATAAAACAATATGGTGAGAAAAATTGTTTTGTTTAATTTAAAAT
TTGAAACAATAAATTGATTGTATTTTTTTAGGCGTCTAATGTTTGAAATAAGATACTGTT
ATATTTTCTTGATCAAAGAATCAGATATTTCTGATTTGTATATCTGTTGGAAAATTACTG
ATAGTAAATTAGTGTTAATTTTTGAAGGCGTATTTAGAATCAAGAAAAATGTATTGGCAG
ATGAAAAACAATATTTTATAGGTAATTTACAGCCAGATAACGTTTTCAATAATCAAAACT
TTGTTTCAAATGAAACTCTCACTCTCATACTCGATATAGAACTTTATCAATCTTATCCAG
AAAAAACTGCAAATGGCTCAAAAGGCAAACTTTCTGAAATTGTTAAAAATTTGTTCAATT
CTAACAGCTATAGTGATTTTACAATTATCTCTTCTGATGGAAAAATGTTTTCTGCTCATC
AATGTATTCTTGCTGGTCGTTCATCAGTTTTCAAAGCAATGCTGTCAACTGAAATGATTG
AAAAGAAACTTAACAAGATTAAAGTAAAAGATATTGATGGTGACACAATGCATGAGCTTT
TGAAATTTATCTACACTGAAGAAGTTGAAAATTCAAATAATGTTGCTAAAAAGTTAATTT
ATGCAGCTGAAAAATATGACCTTCCTGAGCTTAAATCAATTTGTATCAGTAAATTGATAA
ATGAAATAGCAGAAGAAAACATTTTTGAAATACTTTTGCTGGCTGATCGTTTCAATGAAG
AGATATTGCTGAACAAATGCATGTTGTTTATTAAAAGCAATTACGATGAATTAGAAAATC
GAAATGAGTGGAACAATATTGATATTAAATTGATAAAGAGAATCATGAAATTTTTGAAAG
ACAATTCTGATATTATTTGTCTTTCAAATCAAAATCACTTTGAATCATTTTTTACAACAG
TTAGATAA

>g1015.t2 Gene=g1015 Length=289
MFEIRYCYIFLIKESDISDLYICWKITDSKLVLIFEGVFRIKKNVLADEKQYFIGNLQPD
NVFNNQNFVSNETLTLILDIELYQSYPEKTANGSKGKLSEIVKNLFNSNSYSDFTIISSD
GKMFSAHQCILAGRSSVFKAMLSTEMIEKKLNKIKVKDIDGDTMHELLKFIYTEEVENSN
NVAKKLIYAAEKYDLPELKSICISKLINEIAEENIFEILLLADRFNEEILLNKCMLFIKS
NYDELENRNEWNNIDIKLIKRIMKFLKDNSDIICLSNQNHFESFFTTVR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g1015.t2 CDD cd14733 BACK 212 264 8.10e-06
6 g1015.t2 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 83 241 0.00e+00
2 g1015.t2 PANTHER PTHR24413:SF213 FI01029P-RELATED 60 253 0.00e+00
3 g1015.t2 PANTHER PTHR24413 SPECKLE-TYPE POZ PROTEIN 60 253 0.00e+00
1 g1015.t2 Pfam PF00651 BTB/POZ domain 103 208 0.00e+00
7 g1015.t2 ProSiteProfiles PS50097 BTB domain profile. 112 180 1.69e+01
5 g1015.t2 SMART SM00225 BTB_4 112 210 0.00e+00
4 g1015.t2 SUPERFAMILY SSF54695 POZ domain 97 208 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