Gene loci information

Transcript annotation

  • This transcript has been annotated as Activin receptor type-1.

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_2 g7472 g7472.t3 isoform g7472.t3 23909334 23911249
chr_2 g7472 g7472.t3 exon g7472.t3.exon1 23909334 23909847
chr_2 g7472 g7472.t3 cds g7472.t3.CDS1 23909335 23909847
chr_2 g7472 g7472.t3 exon g7472.t3.exon2 23909917 23910463
chr_2 g7472 g7472.t3 cds g7472.t3.CDS2 23909917 23910463
chr_2 g7472 g7472.t3 exon g7472.t3.exon3 23910777 23910906
chr_2 g7472 g7472.t3 cds g7472.t3.CDS3 23910777 23910906
chr_2 g7472 g7472.t3 exon g7472.t3.exon4 23911198 23911249
chr_2 g7472 g7472.t3 cds g7472.t3.CDS4 23911198 23911249
chr_2 g7472 g7472.t3 TSS g7472.t3 23911272 23911272
chr_2 g7472 g7472.t3 TTS g7472.t3 NA NA

Sequences

>g7472.t3 Gene=g7472 Length=1243
ATGGCCTTAATAGCAATTTTATTTTCAATATTTCTTATAAATTTCTCTATAGCAAGTATA
GAGAAAGAAAATCCAGGAATGCTTAAGGAATCTGTACCGGATTTAACAGAGAGAAGTAAT
TTTGACCACAACTTTAATCGTGGAGATATTATTATAAAAAATTCATTGGATGCAACACCA
AGGTATAAATGTCATGTATGTGATCATTCTGACTGTAAAAACGATACATCGATCGGAGAT
CATGTATGTTTAAATGCTATAACGTGCTGGAAATCTAGAGTTCGAGATTCAAGTGGATTA
GAAAGAGTAACGCGTGGATGCACAACAAAATCTGAGCACTTGCCAATTTATTGTAGTCAA
AGAGATGTCAACAATTCAGGTCCAAAAAAACGTGATGCAGCATCTTCAAATGAAAGCAGT
GGTTTGGGAACATATAATATTGAATGCTGTACTGGAGATTTTTGTAATAGCGGTAGCTTT
CCCGCTCTACCTCCCCTCAAGAAAGAACTTCCATCGGATACAACTACAGATGACATTATA
AAGTTGTGTTTAGCAATTTTTGGACCTGTTGTAATAATCGGCTTAATTGCAATCGGTATA
ATTTTATTCATGAGACGAAATCATAAAAGAAGGCTGATAGATGCTAGAAATCAACAAGAT
GCTGACATATATTACGCAAGCGACGATTTATTAAAACGTTCACATGCTTGTGGCGATTCA
ACTTTAAGAGAATATTTCGATCAATCTGTTACATCAGGCTCGGGTAGCGGTTTGCCATTG
TTGATTCAGAGAACTCTCGCAAGACAAGTGACTTTGGCTGAATGCATTGGACGAGGTCGT
TATGGTGAAGTTTGGCGTGCTGTTTGGCATGGTGAAAATGTCGCTGTTAAAATCTTCTTC
AGTCGTGATGAAGAATCTTGGAAACGAGAAACTGAAATATATTCAACAGTTCTTTTACGT
CATGAAAATATTCTCGGGTATATTGGTTCAGATATGACATCAAGAAATTCATGCACACAA
TTATGGCTGATCACACATTATTATCAACTCGGTTCACTCTACGATCATCTTAACAGAACA
GCTCTTACACATCATCAAATGATGACAATCTGCCTGTCTATTGCATCAGGATTAGTTCAT
TTGCATACAGAGATTTTTGGGAAACAAGGAAAACCGGCTATTGCACATCGCGATTTAAAA
TCTAAAAATATTTTAGTAAAAATGAATGGTCAATGTGTCATTG

>g7472.t3 Gene=g7472 Length=414
MALIAILFSIFLINFSIASIEKENPGMLKESVPDLTERSNFDHNFNRGDIIIKNSLDATP
RYKCHVCDHSDCKNDTSIGDHVCLNAITCWKSRVRDSSGLERVTRGCTTKSEHLPIYCSQ
RDVNNSGPKKRDAASSNESSGLGTYNIECCTGDFCNSGSFPALPPLKKELPSDTTTDDII
KLCLAIFGPVVIIGLIAIGIILFMRRNHKRRLIDARNQQDADIYYASDDLLKRSHACGDS
TLREYFDQSVTSGSGSGLPLLIQRTLARQVTLAECIGRGRYGEVWRAVWHGENVAVKIFF
SRDEESWKRETEIYSTVLLRHENILGYIGSDMTSRNSCTQLWLITHYYQLGSLYDHLNRT
ALTHHQMMTICLSIASGLVHLHTEIFGKQGKPAIAHRDLKSKNILVKMNGQCVI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g7472.t3 Gene3D G3DSA:2.10.60.10 CD59 59 176 9.1E-11
10 g7472.t3 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 233 349 5.8E-53
11 g7472.t3 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 351 414 3.6E-14
4 g7472.t3 PANTHER PTHR23255 TRANSFORMING GROWTH FACTOR-BETA RECEPTOR TYPE I AND II 58 414 2.5E-139
5 g7472.t3 PANTHER PTHR23255:SF72 RECEPTOR PROTEIN SERINE/THREONINE KINASE 58 414 2.5E-139
3 g7472.t3 Pfam PF01064 Activin types I and II receptor domain 62 157 1.4E-7
1 g7472.t3 Pfam PF08515 Transforming growth factor beta type I GS-motif 241 268 2.6E-13
2 g7472.t3 Pfam PF00069 Protein kinase domain 273 411 2.3E-19
14 g7472.t3 Phobius SIGNAL_PEPTIDE Signal peptide region 1 18 -
15 g7472.t3 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 1 -
16 g7472.t3 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 2 13 -
18 g7472.t3 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 14 18 -
13 g7472.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 19 178 -
17 g7472.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 179 203 -
12 g7472.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 204 414 -
21 g7472.t3 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 276 297 -
20 g7472.t3 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 394 406 -
24 g7472.t3 ProSiteProfiles PS51256 GS domain profile. 240 269 15.936
25 g7472.t3 ProSiteProfiles PS50011 Protein kinase domain profile. 270 414 24.103
22 g7472.t3 SMART SM00467 GS_4 240 270 1.4E-12
23 g7472.t3 SMART SM00220 serkin_6 270 413 0.0016
6 g7472.t3 SUPERFAMILY SSF57302 Snake toxin-like 61 164 3.19E-8
7 g7472.t3 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 246 414 4.45E-40
8 g7472.t3 SignalP_EUK SignalP-noTM SignalP-noTM 1 18 -
19 g7472.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 182 204 -

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:0016020 membrane CC
GO:0005524 ATP binding MF
GO:0004672 protein kinase activity MF
GO:0006468 protein phosphorylation BP
GO:0007178 transmembrane receptor protein serine/threonine kinase signaling pathway BP
GO:0004675 transmembrane receptor protein serine/threonine kinase 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.

Raw TPM values