Gene loci information

Transcript annotation

  • This transcript has been annotated as SH3 and multiple ankyrin repeat domains protein 3.

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 g3717 g3717.t4 isoform g3717.t4 27627547 27630956
chr_3 g3717 g3717.t4 exon g3717.t4.exon1 27627547 27627644
chr_3 g3717 g3717.t4 cds g3717.t4.CDS1 27627547 27627644
chr_3 g3717 g3717.t4 exon g3717.t4.exon2 27627705 27627801
chr_3 g3717 g3717.t4 cds g3717.t4.CDS2 27627705 27627801
chr_3 g3717 g3717.t4 exon g3717.t4.exon3 27627880 27628048
chr_3 g3717 g3717.t4 cds g3717.t4.CDS3 27627880 27628048
chr_3 g3717 g3717.t4 exon g3717.t4.exon4 27628108 27628439
chr_3 g3717 g3717.t4 cds g3717.t4.CDS4 27628108 27628439
chr_3 g3717 g3717.t4 exon g3717.t4.exon5 27628952 27629077
chr_3 g3717 g3717.t4 cds g3717.t4.CDS5 27628952 27629077
chr_3 g3717 g3717.t4 exon g3717.t4.exon6 27629557 27629755
chr_3 g3717 g3717.t4 cds g3717.t4.CDS6 27629557 27629724
chr_3 g3717 g3717.t4 exon g3717.t4.exon7 27630383 27630803
chr_3 g3717 g3717.t4 exon g3717.t4.exon8 27630909 27630956
chr_3 g3717 g3717.t4 TSS g3717.t4 27630956 27630956
chr_3 g3717 g3717.t4 TTS g3717.t4 NA NA

Sequences

>g3717.t4 Gene=g3717 Length=1490
AGTGTACAGTGAACGTAAAAAAGAATGGTCGAAGTTGAAAAAATTATGAACACAGTGCAG
TTTAATAACATTTTCTAGTGCAAAACATTTTTTTAAGACTCAGTAAAGAAAAAAATTATA
TTCTAAAGTAGCAAAAAAAAGGAGAGAAGAGTGAGAATACCTAGAGCAAGAAATCAATTA
GAAGTATTAAATTGTTCGTAATTTAATTAAAATCTCCTTCATAAATTCAGTTATAAAAAT
AGTCAAGAAATCATGTTCCATATGTACGGAAGAGCAATCAATTTTCTAATCGTAAAACAA
TGATCTAAAATCGCGACAAATCAAACGAAAAAAAATTATAAGTGCGAGCGAAAGATTAAG
TCGAAAAAGAGTGTGTGACTTAAACATACATGAAAAGAAGTAGTGTTTCAAAATATTAAT
ATGGCAAATGGAAAATAATTAATACCTGTATAGAACTAAAAATCTAAATCTCACTAAAAA
TTAATTTATAACAAAACACAATGGACACTCCATACAATGACGATGAATCTTCAACAGAGA
TAGCGAGGGAAGGCTGGATACTCCTTAGAATTCATGTTCCCGAATTCGATACCTATAAAT
GCTTGCAATTTCCAATCGAGCAATTAGTTTGGGATATAAAAAATCAAGTGATTGCTTCAT
TGCCAAAAGAATTAAAAGAAGCATTCAACTATGGACTATTTTCGCCACCATCAAATGGAA
AAGCAGGAAAATTTCTAGATGAAGAGAGACGACTTGGTGACTATCCTTTTAGTGGTCCAG
TTGGTTTCTTGGAGCTCAAATACAAACGTCGTGTCTATAAAATGTTGAACTTGGACGAAC
GACAATTGCGTGCATTGCATTCTCGATCGAATTTGAGAAGATTTTTGGAATGCATACATG
GTGGTCATGTGGATAAAGTGTCAAAAATGTGTGCAAAAGGACTCGATCCAAATTTTCATT
GCAATGAAACTGGCGAGACACCATTAACAATAGCAGCATGTGCAAAAAAGCCGCAAAAAT
TATTAATTGCTCTTGTAAATGGTGGAGCATTGCTTGATTATAGAACTAAAGATGGAAGTA
CAGCTCTTCATCGTGCTGTTGAAAAGGATTCACTTGAAGCTGTTACAACACTGCTTGAAC
TCGGTGCTTCACCAAATTATAAAGATATGAAAATGCTAACACCCGTTTATATTTCGGTTG
CAAAGAAAATCGATCCGAAAATAACTGAGGTGCTATTGCATGATCATGCCACATTGGGAA
CGAAAGATTCGCAGGGTTGGAATGAAGTTCATCAGGCTTGCCGAAATAACCTAGTTCAGC
ATTTGGAACATCTGCTGGCCTACGGTGCGGATATGGATAGTAAAAATTCCACTGGAAACA
CACCACTGCATGTGTGCGCAGTCAATAATCAAGAGACATGTGCCAGAATTCTATTGTTTC
GTGGTGCCAATCGAGAGGCACTAAACTATGCCAATCAGACTCCTTATCAG

>g3717.t4 Gene=g3717 Length=330
MDTPYNDDESSTEIAREGWILLRIHVPEFDTYKCLQFPIEQLVWDIKNQVIASLPKELKE
AFNYGLFSPPSNGKAGKFLDEERRLGDYPFSGPVGFLELKYKRRVYKMLNLDERQLRALH
SRSNLRRFLECIHGGHVDKVSKMCAKGLDPNFHCNETGETPLTIAACAKKPQKLLIALVN
GGALLDYRTKDGSTALHRAVEKDSLEAVTTLLELGASPNYKDMKMLTPVYISVAKKIDPK
ITEVLLHDHATLGTKDSQGWNEVHQACRNNLVQHLEHLLAYGADMDSKNSTGNTPLHVCA
VNNQETCARILLFRGANREALNYANQTPYQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g3717.t4 CDD cd17091 FERM_F0_SHANK 20 103 0.0000e+00
11 g3717.t4 Gene3D G3DSA:3.10.20.90 - 20 99 1.0000e-07
13 g3717.t4 Gene3D G3DSA:1.25.40.20 - 100 256 0.0000e+00
12 g3717.t4 Gene3D G3DSA:1.25.40.20 - 257 330 0.0000e+00
4 g3717.t4 PANTHER PTHR24135:SF18 LD13733P 11 330 0.0000e+00
5 g3717.t4 PANTHER PTHR24135 SH3 AND MULTIPLE ANKYRIN REPEAT DOMAINS PROTEIN 11 330 0.0000e+00
3 g3717.t4 Pfam PF16511 N-terminal or F0 domain of Talin-head FERM 22 90 4.0000e-07
2 g3717.t4 Pfam PF12796 Ankyrin repeats (3 copies) 134 222 0.0000e+00
1 g3717.t4 Pfam PF12796 Ankyrin repeats (3 copies) 238 317 0.0000e+00
14 g3717.t4 ProSiteProfiles PS50297 Ankyrin repeat region circular profile. 135 330 4.2176e+01
16 g3717.t4 ProSiteProfiles PS50088 Ankyrin repeat profile. 191 223 1.2449e+01
15 g3717.t4 ProSiteProfiles PS50088 Ankyrin repeat profile. 258 290 9.8050e+00
17 g3717.t4 ProSiteProfiles PS50088 Ankyrin repeat profile. 291 323 1.0579e+01
10 g3717.t4 SMART SM00248 ANK_2a 157 187 2.4000e+02
9 g3717.t4 SMART SM00248 ANK_2a 191 220 5.4000e-04
7 g3717.t4 SMART SM00248 ANK_2a 258 287 2.8000e+00
8 g3717.t4 SMART SM00248 ANK_2a 291 320 1.7000e-03
6 g3717.t4 SUPERFAMILY SSF48403 Ankyrin repeat 122 330 0.0000e+00

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.

Raw TPM values