Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Synaptic vesicle glycoprotein 2B.

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 g2774 g2774.t2 TSS g2774.t2 20148927 20148927
chr_3 g2774 g2774.t2 isoform g2774.t2 20149182 20149849
chr_3 g2774 g2774.t2 exon g2774.t2.exon1 20149182 20149849
chr_3 g2774 g2774.t2 cds g2774.t2.CDS1 20149182 20149847
chr_3 g2774 g2774.t2 TTS g2774.t2 NA NA

Sequences

>g2774.t2 Gene=g2774 Length=668
ATGGTAGATTCTGAAACTGATCAAAAACACGTCAACGAATCCAATGTAACAAACGGTGGC
GAAAGCCAACAGCACCAAGTCAACAGACTTACAATAGAAGAAGTTGTGCCAAAGAGAAAA
ATTTCTCCTGCTATACTACAAACAACAAGTGCAATAGGTCCATTGCGAACGGGCGACAAA
GATCAAATTGAACGCGAAGAGCAATATCGTCCACTCGATCCAGAGCGCGGAGCGGGCGAT
GATCTTGTGGCGCAATCTTTTCATCAACTGCCACCTCCATACTCACCAGACAATGATGGC
ATTGCAAGAGCAGATTTTGAGCGTGCCATTGAGCTCACGGGATATGGAAAATTTCACTAT
ATTTTGCTCGCCATTTGCGGTCTCGTAAGTACGAGTGAAGAAATGGATGTGATTTCAATG
AGTTTCATTCTACCATCAGCACAGTGTGATTTAAATCTCAATACGCACACTAAAGGATGG
CTAAATTGCATCATTTTCATTGGTATGATGGTTGGTGCATATGTTTGGGGATCAATTGCT
GATTCACTTGGACGCAAACGTGTACTAATTGTCATTTCATTCATGAATGCCGCTTGCATT
GTTGCCTCATCATTTTCGCAAAATTATGAGCTTTTCATGCTCTTTCGATTCTTAAATGGA
GCCGCTTT

>g2774.t2 Gene=g2774 Length=222
MVDSETDQKHVNESNVTNGGESQQHQVNRLTIEEVVPKRKISPAILQTTSAIGPLRTGDK
DQIEREEQYRPLDPERGAGDDLVAQSFHQLPPPYSPDNDGIARADFERAIELTGYGKFHY
ILLAICGLVSTSEEMDVISMSFILPSAQCDLNLNTHTKGWLNCIIFIGMMVGAYVWGSIA
DSLGRKRVLIVISFMNAACIVASSFSQNYELFMLFRFLNGAA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g2774.t2 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 117 222 9.8E-25
14 g2774.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 29 -
13 g2774.t2 MobiDBLite mobidb-lite consensus disorder prediction 11 29 -
2 g2774.t2 PANTHER PTHR24064 SOLUTE CARRIER FAMILY 22 MEMBER 77 222 8.4E-78
3 g2774.t2 PANTHER PTHR24064:SF544 LP17136P 77 222 8.4E-78
1 g2774.t2 Pfam PF07690 Major Facilitator Superfamily 136 221 8.4E-13
7 g2774.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 158 -
10 g2774.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 159 176 -
6 g2774.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 177 187 -
9 g2774.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 188 206 -
8 g2774.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 207 222 -
15 g2774.t2 ProSiteProfiles PS50850 Major facilitator superfamily (MFS) profile. 120 222 18.119
4 g2774.t2 SUPERFAMILY SSF103473 MFS general substrate transporter 99 222 2.49E-23
12 g2774.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 160 179 -
11 g2774.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 189 206 -

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:0055085 transmembrane transport BP
GO:0022857 transmembrane transporter activity MF

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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