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 g1446 g1446.t1 isoform g1446.t1 11006450 11007632
chr_3 g1446 g1446.t1 exon g1446.t1.exon1 11006450 11006576
chr_3 g1446 g1446.t1 cds g1446.t1.CDS1 11006450 11006576
chr_3 g1446 g1446.t1 exon g1446.t1.exon2 11006637 11007115
chr_3 g1446 g1446.t1 cds g1446.t1.CDS2 11006637 11007115
chr_3 g1446 g1446.t1 exon g1446.t1.exon3 11007174 11007432
chr_3 g1446 g1446.t1 cds g1446.t1.CDS3 11007174 11007432
chr_3 g1446 g1446.t1 exon g1446.t1.exon4 11007484 11007632
chr_3 g1446 g1446.t1 cds g1446.t1.CDS4 11007484 11007632
chr_3 g1446 g1446.t1 TSS g1446.t1 NA NA
chr_3 g1446 g1446.t1 TTS g1446.t1 NA NA

Sequences

>g1446.t1 Gene=g1446 Length=1014
ATGGCAGACGAAAAAATTGAAGCAAGTCGTAGATTCATTTGGCAAATTAAAAATTTCACA
AGAGAAGAATTAAATAAATATTATCTTAAGTCAAAAACTATAAAATCTGAAAGTTTTGAA
ATTTTGTTTGGAAAAGAAAGCATCAAATTGCATTTTGAAATAATACAAGTGGATTACCAG
ACTAGATTTTTCATAATTCATGAAGCTGGATATTTTCGTAATTATATGATAAAGCTAAGA
CTTGCGATTAAGACTTCTGTTGATGAATATGTTACAATAAAAAAAGAAAAATTTACATCG
AAAAATTCTGAAAGTCGATTTGGATGGAATTATATTTTGAGCTCTGATGACATTTTTGAT
GAAAGTAAAAAATATCTTTGCAACAATACACTTACATTGGTTGTTATTGTAAAATTCTTT
AAACCATGTCCAAAAGAAAAGGTCTTTCCACAAGGAGCAGTTTTTGAAATGAATAAAAAA
TATTTCAACTCATATTCATTCAGCGACATTCAAATTGTCTCGTCTGATGGAAAAGTGTTT
CCTGCTCATCGCAATATTCTTGCTGGTCGTTCATCAGTTTTCAAAGCAATGCTCTTAACA
GATATGATTGAAAAGAAACTCAACAAGATTGAAGTTGAAGATATTGATAGCGAAACAATG
CTTGAACTTTTGAGATTCATTTATACAGAAGAAGCTCAAAATCTTTGCGGTGTTGCTCAT
AAACTCATTTATGCAGCTGAGAAATATGACCTGCCAGATCTTAAATTAATTTGCGTATCT
TACATGACAAACATGATATCACAAGAAAATATTTTTGAGACATTTGGAACTGCTATTCGA
TTCAATGAAGAAAAATTGTTAGATGAATGCATGGACTTCGTTGATTGGTACTTTGGAAAA
TTACAATATCGAAATGAATGGAAGAAATTTGATATTGATTTGATGCTTAAGATAATGACA
TATATTAAAGATTCTTGGAAAAATTTGACTGTGCTTACAACTTCTTCATTTTAA

>g1446.t1 Gene=g1446 Length=337
MADEKIEASRRFIWQIKNFTREELNKYYLKSKTIKSESFEILFGKESIKLHFEIIQVDYQ
TRFFIIHEAGYFRNYMIKLRLAIKTSVDEYVTIKKEKFTSKNSESRFGWNYILSSDDIFD
ESKKYLCNNTLTLVVIVKFFKPCPKEKVFPQGAVFEMNKKYFNSYSFSDIQIVSSDGKVF
PAHRNILAGRSSVFKAMLLTDMIEKKLNKIEVEDIDSETMLELLRFIYTEEAQNLCGVAH
KLIYAAEKYDLPDLKLICVSYMTNMISQENIFETFGTAIRFNEEKLLDECMDFVDWYFGK
LQYRNEWKKFDIDLMLKIMTYIKDSWKNLTVLTTSSF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g1446.t1 CDD cd14733 BACK 269 318 0.0013411
8 g1446.t1 Gene3D G3DSA:2.60.210.10 Apoptosis 1 142 0.0000280
7 g1446.t1 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 145 295 0.0000000
2 g1446.t1 PANTHER PTHR24413:SF213 FI01029P-RELATED 105 309 0.0000000
3 g1446.t1 PANTHER PTHR24413 SPECKLE-TYPE POZ PROTEIN 105 309 0.0000000
1 g1446.t1 Pfam PF00651 BTB/POZ domain 159 264 0.0000000
9 g1446.t1 ProSiteProfiles PS50097 BTB domain profile. 168 231 16.0520000
6 g1446.t1 SMART SM00225 BTB_4 168 266 0.0000000
4 g1446.t1 SUPERFAMILY SSF49599 TRAF domain-like 9 144 0.0000001
5 g1446.t1 SUPERFAMILY SSF54695 POZ domain 154 265 0.0000000

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