Gene loci information

Transcript annotation

  • This transcript has been annotated as Actin-related 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_1 g10194 g10194.t7 TSS g10194.t7 8163978 8163978
chr_1 g10194 g10194.t7 isoform g10194.t7 8164080 8166261
chr_1 g10194 g10194.t7 exon g10194.t7.exon1 8164080 8164123
chr_1 g10194 g10194.t7 cds g10194.t7.CDS1 8164080 8164123
chr_1 g10194 g10194.t7 exon g10194.t7.exon2 8164251 8164431
chr_1 g10194 g10194.t7 cds g10194.t7.CDS2 8164251 8164431
chr_1 g10194 g10194.t7 exon g10194.t7.exon3 8164492 8165343
chr_1 g10194 g10194.t7 cds g10194.t7.CDS3 8164492 8165343
chr_1 g10194 g10194.t7 exon g10194.t7.exon4 8165407 8165483
chr_1 g10194 g10194.t7 cds g10194.t7.CDS4 8165407 8165483
chr_1 g10194 g10194.t7 exon g10194.t7.exon5 8165553 8166261
chr_1 g10194 g10194.t7 cds g10194.t7.CDS5 8165553 8165643
chr_1 g10194 g10194.t7 TTS g10194.t7 8166263 8166263

Sequences

>g10194.t7 Gene=g10194 Length=1863
ATGACAGGAAGGCTTCCAGCTTGTGTAATTGATGTTGGTACCGGTTATACTAAATTAGGC
TACGCTGCTAATAAAGATCCACAATTTATCTTTCCATCTGCAATTGCCATCAAAGAGAGC
GCTCGTGTTGGTGACCAAACAGCTCGCAGAATAACAAAAGGTGTCGAAGATTTAGATTTT
TATATCGGCGATGAAGCATTTGATGCAACTGGATATGCAGTAAAGTATCCTGTTCGTCAT
GGCTTAGTAGAAGATTGGGATTTAATGGAACGATTTTTGGAACAATGTATTTTCAAATAT
TTACGTGCTGAACCTGGAGATCATCATTTTTTGCTCACTGAACCACCACTCAACACACCC
GAAAATCGTGAATATACTGCCGAGATAATGTTTGAAACATTCAACGTTCCTGGGCTTTAT
ATCGCCGTACAAGCTGTGTTGGCACTGGCTGCCAGTTGGGCTTCTCGTCCTGTTGAAGAA
CGCACACTGACTGGAATTGTGATTGATAGTGGTGATGGTGTCACTCATGTCATTCCAGTT
GCCGAGGGCTATGTTATTGGATCTTGTATCAAGCATATTCCAATCGCTGGTCGAAACATT
ACCTCATTCATTCAAAGCTTATTACGAGAACGAGAGGTGGGCATTCCGCCTGAACAAAGT
CTTGAAACTGCCAAAGCAATTAAAGAACGTTTCTGTTACATATGTCCCGATATTGCAAAA
GAATTTGCAAAATATGATTCAGAACCATCGAAATGGATTAAGACTTATGAAGGTATCAAT
AGTATTACGAAGCAACAATTTAATGTTGATGTAGGATATGAAAGATTCCTTGGTCCAGAA
ATTTTCTTTCATCCTGAATTTTCAAATCCTGACTTTACTACGCCAATATCCGAAATTGTT
GATAATGTCATTCAAAATTGTCCGATCGATGTTCGACGACCATTGTATAATAATATTGTT
TTGAGCGGTGGCTCAACTATGTTTAGAGACTTTGGTAGACGCTTACAGCGTGATATTAAA
AGATCAGTTGATGCTCGACTAAGAATTAGTGAAAATTTAAGTGAGGGAAGAATTAAGCCC
AAACCCATTGATGTGAATGTCATTTCTCACCATATGCAACGTTATGCTGTTTGGTTCGGC
GGAAGCATGTTGGCCCTGAATTTTATCAAGTTTGTCATACAAAAGCAGAATACGAGGAAT
ATGGTCCTCGCATTTGCCGTTACAATGCAGTATTCGGTACAATGACGTAATTTTTTTTGT
TTGGTGGTCTTGTTTTACATATAGTATATCAACATCAACTTAGACATTCCTACTATTGCT
GAGCTCAACATCAATCATCAAGAGACACGTTTATTCTATCATTGATAAAAGCTGAAAATC
TTTTTTCTATGAAAATTGTAAAATGCTTTAGAAGACTACCGCCAAATTAATTTTTTTGGC
GACTTATGAACAAATACAAACTTTTTATAATTTCTTTATTTAAAAAGTGAAAGTAGGAAA
AATAGTGAAAATGCCCCATTTGAAATTAAATATACTTATTTTAGCCATTTACTATCCCAT
AATAATCGTCCTTTAAAACTTCATTTTTTTATGTATAAGCAACCACAAAGTATATAATAT
ATTTTTTTGTTTCATTCAAAATTTCATTTCACTCTTTACAATATATATTAATCATAATTT
TTTAAAATGATTCGCGTCTATAGTGAAACATGTTGCATTTCAATTTAAGTTTAAATATTT
TTTATATTATTTTAAATTTACAAGTACGCAAAAAAGAACTTTCCGTTTTCATTCTCTTAA
AGTGATTTTTTTTACTCAATAACTTCTTTTAAAAAAGTTTCAAATAAAGAATTGTCTTTT
GTC

>g10194.t7 Gene=g10194 Length=414
MTGRLPACVIDVGTGYTKLGYAANKDPQFIFPSAIAIKESARVGDQTARRITKGVEDLDF
YIGDEAFDATGYAVKYPVRHGLVEDWDLMERFLEQCIFKYLRAEPGDHHFLLTEPPLNTP
ENREYTAEIMFETFNVPGLYIAVQAVLALAASWASRPVEERTLTGIVIDSGDGVTHVIPV
AEGYVIGSCIKHIPIAGRNITSFIQSLLREREVGIPPEQSLETAKAIKERFCYICPDIAK
EFAKYDSEPSKWIKTYEGINSITKQQFNVDVGYERFLGPEIFFHPEFSNPDFTTPISEIV
DNVIQNCPIDVRRPLYNNIVLSGGSTMFRDFGRRLQRDIKRSVDARLRISENLSEGRIKP
KPIDVNVISHHMQRYAVWFGGSMLALNFIKFVIQKQNTRNMVLAFAVTMQYSVQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g10194.t7 CDD cd00012 NBD_sugar-kinase_HSP70_actin 9 209 2.42501E-11
7 g10194.t7 Gene3D G3DSA:3.30.420.40 - 9 396 2.7E-138
8 g10194.t7 Gene3D G3DSA:3.30.420.40 - 145 386 2.7E-138
6 g10194.t7 Gene3D G3DSA:3.90.640.10 Actin; Chain A 202 300 2.7E-138
2 g10194.t7 PANTHER PTHR11937 ACTIN 6 396 1.8E-207
3 g10194.t7 PANTHER PTHR11937:SF175 ACTIN-RELATED PROTEIN 3 6 396 1.8E-207
1 g10194.t7 Pfam PF00022 Actin 5 396 2.9E-80
10 g10194.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 374 -
11 g10194.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 375 393 -
9 g10194.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 394 414 -
13 g10194.t7 ProSitePatterns PS01132 Actins and actin-related proteins signature. 111 123 -
14 g10194.t7 SMART SM00268 actin_3 5 407 5.1E-151
4 g10194.t7 SUPERFAMILY SSF53067 Actin-like ATPase domain 5 155 1.58E-48
5 g10194.t7 SUPERFAMILY SSF53067 Actin-like ATPase domain 162 386 7.78E-68

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:0007015 actin filament organization BP
GO:0005885 Arp2/3 protein complex CC
GO:0034314 Arp2/3 complex-mediated actin nucleation BP
GO:0005524 ATP 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.

Raw TPM values