Gene loci information

Transcript annotation

  • This transcript has been annotated as Synaptosomal-associated protein 25.

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 g1584 g1584.t6 TTS g1584.t6 12007092 12007092
chr_3 g1584 g1584.t6 isoform g1584.t6 12007166 12018474
chr_3 g1584 g1584.t6 exon g1584.t6.exon1 12007166 12007228
chr_3 g1584 g1584.t6 cds g1584.t6.CDS1 12007166 12007228
chr_3 g1584 g1584.t6 exon g1584.t6.exon2 12007759 12007903
chr_3 g1584 g1584.t6 cds g1584.t6.CDS2 12007759 12007903
chr_3 g1584 g1584.t6 exon g1584.t6.exon3 12007981 12008109
chr_3 g1584 g1584.t6 cds g1584.t6.CDS3 12007981 12008109
chr_3 g1584 g1584.t6 exon g1584.t6.exon4 12008169 12008286
chr_3 g1584 g1584.t6 cds g1584.t6.CDS4 12008169 12008286
chr_3 g1584 g1584.t6 exon g1584.t6.exon5 12012162 12012210
chr_3 g1584 g1584.t6 cds g1584.t6.CDS5 12012162 12012210
chr_3 g1584 g1584.t6 exon g1584.t6.exon6 12016106 12016147
chr_3 g1584 g1584.t6 cds g1584.t6.CDS6 12016106 12016147
chr_3 g1584 g1584.t6 exon g1584.t6.exon7 12016216 12016300
chr_3 g1584 g1584.t6 cds g1584.t6.CDS7 12016216 12016299
chr_3 g1584 g1584.t6 exon g1584.t6.exon8 12018411 12018474
chr_3 g1584 g1584.t6 TSS g1584.t6 12018999 12018999

Sequences

>g1584.t6 Gene=g1584 Length=695
AAATTTTCATTTCAGCTTTCCCTCAAGTAATTGTATCGGATTAATTAAAAACTATATCTA
TCAGAATGCCGGCACCAACTGCAGAACCAGCACCTCCACGAACTGAACTGCAAGAATTGC
AATTAAAGGCACAAGAAAAGACCGATGAGTCTCTTGAGTCAACACGTCGAATGTTGGCAC
TTTGCGAAGAGAGCAAAGAAGCCGGTATTCGAACATTGGTAGCGCTCGATGATCAGGGAG
AACAATTGGATCGAATTGAGGAGGGTATGGACCAGATTAATGCTGACATGCGTGAAGCTG
AAAAAAATTTGAGTGGAATGGAAAAATGCTGCGGTATTTGTGTTTTGCCATGTAATAAGA
GTGCGTCATTTAAAGAGGATGATGGAACATGGAAGGGTAATGATGATGGAAAAGTTGTAA
ACAATCAGCCACAACGTGTATGTGACGATCGTAATGGTCTTGGACCGCAAGGAGGTTACA
TTGGACGAATCACAAATGATGCACGTGAAGATGAGATGGAAGAGAATATGGGTCAAGTGA
ACACAATGATTGGTAATTTAAGAAATATGGCACTCGATATGGGTTCAGAGCTCGAAAATC
AGAATCGTCAAATTGATAGAATCAATCGCAAGGGTGAATCAAATGAGACGAGGATAGCGG
TGGCCAACGAAAGAGCACATGATTTGCTCAAATAA

>g1584.t6 Gene=g1584 Length=209
MPAPTAEPAPPRTELQELQLKAQEKTDESLESTRRMLALCEESKEAGIRTLVALDDQGEQ
LDRIEEGMDQINADMREAEKNLSGMEKCCGICVLPCNKSASFKEDDGTWKGNDDGKVVNN
QPQRVCDDRNGLGPQGGYIGRITNDAREDEMEENMGQVNTMIGNLRNMALDMGSELENQN
RQIDRINRKGESNETRIAVANERAHDLLK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g1584.t6 CDD cd15889 SNARE_SNAP25N_23N 20 84 4.55714E-31
11 g1584.t6 CDD cd15885 SNARE_SNAP25C 148 206 6.24705E-31
8 g1584.t6 Coils Coil Coil 54 88 -
9 g1584.t6 Coils Coil Coil 169 189 -
6 g1584.t6 Gene3D G3DSA:1.20.5.110 - 5 85 1.4E-37
7 g1584.t6 Gene3D G3DSA:1.20.5.110 - 125 209 1.5E-31
14 g1584.t6 MobiDBLite mobidb-lite consensus disorder prediction 1 29 -
2 g1584.t6 PANTHER PTHR19305:SF14 SYNAPTOSOMAL-ASSOCIATED PROTEIN-RELATED 9 209 1.2E-89
3 g1584.t6 PANTHER PTHR19305 SYNAPTOSOMAL ASSOCIATED PROTEIN 9 209 1.2E-89
1 g1584.t6 Pfam PF00835 SNAP-25 family 95 146 1.1E-20
16 g1584.t6 ProSiteProfiles PS50192 t-SNARE coiled-coil homology domain profile. 23 85 13.494
15 g1584.t6 ProSiteProfiles PS50192 t-SNARE coiled-coil homology domain profile. 145 207 17.599
13 g1584.t6 SMART SM00397 tSNARE_6 18 85 3.5E-11
12 g1584.t6 SMART SM00397 tSNARE_6 140 207 2.3E-14
4 g1584.t6 SUPERFAMILY SSF58038 SNARE fusion complex 13 83 8.05E-22
5 g1584.t6 SUPERFAMILY SSF58038 SNARE fusion complex 135 208 6.02E-18

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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