Gene loci information

Transcript annotation

  • This transcript has been annotated as Septin-4.

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 g1390 g1390.t1 TSS g1390.t1 10540038 10540038
chr_3 g1390 g1390.t1 isoform g1390.t1 10540354 10544273
chr_3 g1390 g1390.t1 exon g1390.t1.exon1 10540354 10540360
chr_3 g1390 g1390.t1 cds g1390.t1.CDS1 10540354 10540360
chr_3 g1390 g1390.t1 exon g1390.t1.exon2 10542852 10543293
chr_3 g1390 g1390.t1 cds g1390.t1.CDS2 10542852 10543293
chr_3 g1390 g1390.t1 exon g1390.t1.exon3 10543640 10544273
chr_3 g1390 g1390.t1 cds g1390.t1.CDS3 10543640 10544273
chr_3 g1390 g1390.t1 TTS g1390.t1 NA NA

Sequences

>g1390.t1 Gene=g1390 Length=1083
ATGTCGGATCGTGATCGTGATTACATTGGCTTTGGTTCACTACCATTACAATATCATCGA
AAATCAGTGAAACGTGGCTTTGAATTCACACTGATGGTTGTTGGTGAATCTGGTCTTGGA
AAATCAACTCTTATCAACAGTCTCTTCTTAACTGACCTATACAAAAATCGCATTGTGCCA
CCTGTCGATGAACGTATTGAAAAAACCACAAGAATTGAAAAAAAGACATTGGATATTGAA
GAGAAAAGTGTTCGATTGCGTTTGAATGTTATTGACACTCCTGGCTTTGGTGATGCAATT
AATGGCGATGAAAGCTGGCGTGTAGTGGTCGATTATATTGATGAGCAATTTCGTCAATAC
TTTATGGACGAAAGTGGCTTAAATCGTAAGAATATCGTAGATAATCGCGTGCATTGCTGT
TTATATGCAGTTCCACCATGGGGACATAGTTTGCGTCAAATGGACATCGATGTATTGCGA
CGTTTACATAAGAAAGTGAATTTAGTAATCGTGATAACCAAAGCTGACACTTTAACAACG
AACGAGGTGAAAAGGCTAAAGGCGAATATTTTGCGAGACATTGAAGCAAATGGCATTCAA
CTGTACAAATTTCCCGAGTGTGATTCTGATGAGGATGATGACTTTAAAAAGCAAGACGAG
GAGCTCAAACAGAGTGTGCCATTTGCTGTCATTGGTTCAAATACAATTTTTGATATTGGT
GGAAAGAAAATACGCGGGCGACAATATCCATGGGGTATAGTTGATGTAGAAAATACAACA
CACAGTGATTTTATAAAACTTCGTACGATGCTTATTGCAACGCACATGCAGGACTTGTGC
GATACAACGCAAGATGTGCACTATGAAAATTTCCGAGCACAATGTATCTCGCAGATACAG
CATAATGCCAAAACAGGAAAAGTTCGAAGTGATTCAATTAAAACACCAACAGGTGAAATC
GTAATTCCAGTTGTAACAGAAACTGACAAATTGCTGTTACAAAAAGAAGAAGAAATTCGA
CGCATGCAAGAAATGCTCGCGCAAATGCAGGAAAAATTAAAACAGCAGACAATTGATGTT
TAA

>g1390.t1 Gene=g1390 Length=360
MSDRDRDYIGFGSLPLQYHRKSVKRGFEFTLMVVGESGLGKSTLINSLFLTDLYKNRIVP
PVDERIEKTTRIEKKTLDIEEKSVRLRLNVIDTPGFGDAINGDESWRVVVDYIDEQFRQY
FMDESGLNRKNIVDNRVHCCLYAVPPWGHSLRQMDIDVLRRLHKKVNLVIVITKADTLTT
NEVKRLKANILRDIEANGIQLYKFPECDSDEDDDFKKQDEELKQSVPFAVIGSNTIFDIG
GKKIRGRQYPWGIVDVENTTHSDFIKLRTMLIATHMQDLCDTTQDVHYENFRAQCISQIQ
HNAKTGKVRSDSIKTPTGEIVIPVVTETDKLLLQKEEEIRRMQEMLAQMQEKLKQQTIDV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g1390.t1 CDD cd01850 CDC_Septin 25 300 1.31811E-148
6 g1390.t1 Coils Coil Coil 332 359 -
5 g1390.t1 Gene3D G3DSA:3.40.50.300 - 5 300 1.7E-112
2 g1390.t1 PANTHER PTHR18884:SF71 SEPTIN-4 2 356 5.3E-189
3 g1390.t1 PANTHER PTHR18884 SEPTIN 2 356 5.3E-189
7 g1390.t1 PIRSF PIRSF006698 Septin 1 360 6.0E-132
1 g1390.t1 Pfam PF00735 Septin 25 303 4.2E-118
9 g1390.t1 ProSiteProfiles PS51719 Septin-type guanine nucleotide-binding (G) domain profile. 25 298 101.477
4 g1390.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 9 271 2.02E-26

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:0005525 GTP 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.

Raw TPM values