Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative GTP-binding protein SAR1b.

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 g1978 g1978.t63 TSS g1978.t63 14174170 14174170
chr_3 g1978 g1978.t63 isoform g1978.t63 14174779 14176064
chr_3 g1978 g1978.t63 exon g1978.t63.exon1 14174779 14174834
chr_3 g1978 g1978.t63 cds g1978.t63.CDS1 14174792 14174834
chr_3 g1978 g1978.t63 exon g1978.t63.exon2 14175073 14175123
chr_3 g1978 g1978.t63 cds g1978.t63.CDS2 14175073 14175123
chr_3 g1978 g1978.t63 exon g1978.t63.exon3 14175214 14175494
chr_3 g1978 g1978.t63 cds g1978.t63.CDS3 14175214 14175494
chr_3 g1978 g1978.t63 exon g1978.t63.exon4 14175587 14176064
chr_3 g1978 g1978.t63 cds g1978.t63.CDS4 14175587 14175598
chr_3 g1978 g1978.t63 TTS g1978.t63 14176066 14176066

Sequences

>g1978.t63 Gene=g1978 Length=866
CAAATTATTCACAATGTTCATTTGGGACTGGTTCACTGGTGTTTTAGGATATTTGGGATT
ATGGAAGAAGTCGGGCAAATTATTATTTCTCGGATTAGATAATGCTGGCAATATGCGCTT
CACAACTTTCGATTTAGGTGGTCACACACAGGCACGTCGTGTGTGGAAGGACTATTTTCC
AGCTGTTGATGCAATTGTCTTCTTAATTGATGCATGGGATCGTAGTCGTTTTCAAGAGAG
CAAAAATGAATTGGATTCATTGTTAACTGATGAAGCATTATCGAATTGTCCCGTTCTCAT
ATTGGGAAATAAAATTGACAAACCGGGAGCTGCCAGTGAAGACGAATTGAGAAATTTTTA
TGGACTTTATCAACTTACAACAGGAAAGGCCGTCCATTAGAACTTTTTATGTGCTCGGTG
CTGAAGAGACAAGGATATGGTGAAGGTTTTCGCTGGTTAGCTCAATATATCGATTAAAAA
TTATGAAGTCGACCATAATATTTTTAAATCAACCAACAACAACAATAATTAAAAAGCGTA
AAGTTTCAAAATTCCCAACGCAAAGGTTTCACAAAATGAAACAAATTTTTACAAATTAAT
TAATTTAATATGCAACATTTGTGAATGATATGATATCAAATTCTTCAAAAAAAGACATCG
TGGGATACAATAAAATAAAAAAAATAGTGAAAGAATCCTTTTTTAAACCATAATACCTAA
TTGTATAATGATTATCAACATATTTATATTTTTGGTTTCTGAGCAACTTGATGTGTTATC
ATTACTTTTTTAAACTATTGGAATGAAATCTGCTTCAAAAAAGGCCGTTTGAAATAATAA
AAGGAAACAATCTTTTTCTCATAAAT

>g1978.t63 Gene=g1978 Length=128
MFIWDWFTGVLGYLGLWKKSGKLLFLGLDNAGNMRFTTFDLGGHTQARRVWKDYFPAVDA
IVFLIDAWDRSRFQESKNELDSLLTDEALSNCPVLILGNKIDKPGAASEDELRNFYGLYQ
LTTGKAVH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g1978.t63 Gene3D G3DSA:3.40.50.300 - 30 128 0.0000
3 g1978.t63 PANTHER PTHR45684 RE74312P 1 33 0.0000
5 g1978.t63 PANTHER PTHR45684:SF2 RE74312P 1 33 0.0000
2 g1978.t63 PANTHER PTHR45684 RE74312P 32 125 0.0000
4 g1978.t63 PANTHER PTHR45684:SF2 RE74312P 32 125 0.0000
7 g1978.t63 PRINTS PR00328 GTP-binding SAR1 protein signature 20 44 0.0000
6 g1978.t63 PRINTS PR00328 GTP-binding SAR1 protein signature 47 72 0.0000
8 g1978.t63 PRINTS PR00328 GTP-binding SAR1 protein signature 92 113 0.0000
1 g1978.t63 Pfam PF00025 ADP-ribosylation factor family 32 124 0.0000
13 g1978.t63 ProSiteProfiles PS51422 small GTPase SAR1 family profile. 1 128 15.3510
10 g1978.t63 SMART SM00177 arf_sub_2 3 128 0.0064
11 g1978.t63 SMART SM00178 sar_sub_1 4 127 0.0000
9 g1978.t63 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 17 124 0.0000

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:0006886 intracellular protein transport BP
GO:0005525 GTP binding 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