Gene loci information

Transcript annotation

  • This transcript has been annotated as Bone morphogenetic protein receptor type-1B.

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 g5950 g5950.t3 isoform g5950.t3 12995721 12997425
chr_2 g5950 g5950.t3 exon g5950.t3.exon1 12995721 12995902
chr_2 g5950 g5950.t3 cds g5950.t3.CDS1 12995807 12995902
chr_2 g5950 g5950.t3 exon g5950.t3.exon2 12995968 12996814
chr_2 g5950 g5950.t3 cds g5950.t3.CDS2 12995968 12996814
chr_2 g5950 g5950.t3 exon g5950.t3.exon3 12996881 12997211
chr_2 g5950 g5950.t3 cds g5950.t3.CDS3 12996881 12997211
chr_2 g5950 g5950.t3 exon g5950.t3.exon4 12997281 12997425
chr_2 g5950 g5950.t3 cds g5950.t3.CDS4 12997281 12997425
chr_2 g5950 g5950.t3 TTS g5950.t3 12997494 12997494
chr_2 g5950 g5950.t3 TSS g5950.t3 NA NA

Sequences

>g5950.t3 Gene=g5950 Length=1505
GCTTAAGTTGTTATTGCGAAGGACATTGTCCATCAAATACACAAAATGGAACATGCGAAG
TTAAATTCGGCGGACAATGTTTTTCAATGGTTGAAGAAGTCATTGATGAACAAACAGGTC
TTATGGAACCAGAATATTCTTTTGGATGCATATCAGCTGATCAAACTTCAGGTCTTTTAC
AGTGCAATGCAGGAAAAAGTGCTCAAATTCATGGCACAAATATAATTTGTTGCTCTGATG
GTGATTTCTGTAATCGAGATAAATTTCCTGATTACACACCTCGTACAACGACTTCACCTC
CAATTGAACCAATACAACCCGCCAATATGTCAAACTTGACTTACATCGTTCTATTTGCAT
CGATGTTAGCCTGCTTAGCTGTCTTTATGATCATCATTCTATGTGTGTATATCTCATATA
AACGACGTGAGAATAAAAGATTAAGAAGAAATCAAAGACTGATGGAACCAAATTGGAATG
GAAGTGCAGCAAATCAAATGTCACCATTAGCCAATCTTGTTGAGCAGAGTTCTGGTTCTG
GAAGTGGTCTACCGTTACTTGTACAAAGAACGATCGCTAAGCAAATACAAATGGTTGAAT
CAATAGGAAAAGGTCGATATGGTGAAGTTTGGTTAGCAAGATGGCGTGATGAAAAAGTTG
CTGCCAAAGTATTTTTCACAACTGAAGAAGCTTCATGGTTTAGAGAAACTGAAATTTATC
AGACAGTTCTTATGCGACATGAAAACATTTTGGGATTCATTGCAGCCGATATCAAAGGCA
CTGGCTCATGGACTCAAATGTTATTAATTACTGATTATCATGAATTAGGAAGTCTTCATG
ATTATTTACAAAAACGCGTTCTTAATCCTCAAATGGTGAAAACTTTGGCATTATCGTTAG
CATCTGGCTTAGCACATTTGCATACTGAAATTTTTGGAACACCTGGGAAGCCAGCAATCG
CTCATCGTGATTTGAAATCTAAAAATATCCTCGTTAAATATAATGGACAATGTGCAATTG
CTGATTTCGGTCTTGCTGTAAAATATACATCAGAATCAGATGAAGTTCAAATTGCACCAA
ATTCACGTGTTGGTACACGTCGTTATATGGCAAATGAAGTTTTAGATCAATCAATGGACA
TGATGTCTTTTGAATCATTCAAAATGGCTGATATATATTCACTTGGTCTCATATTTTGGG
AAATTTGTAGAAGATGCATTACATCAATCTCACCATCAAAAAATACTACATGTGAAGACT
ATGCTCTTCCATACCATGATGTTGTTCCTTCAGATCCAAGCTTTCAAGATATGTACGATG
CTGTTTGTGTGAAAGGCATTCGACCACCAGTGCCGCAAAGATGGCTACAAGAAGATGTTC
TTGCAATGCTCTCGAAGATCATGCAAGAATGTTGGCATCCAAATCCTGCTGTTCGTCTAA
CAGCACTTCGTGTCAAAAAGTCACTCAACAAACTTAGTGGAGACGTTAAAATCAACTTAG
TGTAA

>g5950.t3 Gene=g5950 Length=472
MVEEVIDEQTGLMEPEYSFGCISADQTSGLLQCNAGKSAQIHGTNIICCSDGDFCNRDKF
PDYTPRTTTSPPIEPIQPANMSNLTYIVLFASMLACLAVFMIIILCVYISYKRRENKRLR
RNQRLMEPNWNGSAANQMSPLANLVEQSSGSGSGLPLLVQRTIAKQIQMVESIGKGRYGE
VWLARWRDEKVAAKVFFTTEEASWFRETEIYQTVLMRHENILGFIAADIKGTGSWTQMLL
ITDYHELGSLHDYLQKRVLNPQMVKTLALSLASGLAHLHTEIFGTPGKPAIAHRDLKSKN
ILVKYNGQCAIADFGLAVKYTSESDEVQIAPNSRVGTRRYMANEVLDQSMDMMSFESFKM
ADIYSLGLIFWEICRRCITSISPSKNTTCEDYALPYHDVVPSDPSFQDMYDAVCVKGIRP
PVPQRWLQEDVLAMLSKIMQECWHPNPAVRLTALRVKKSLNKLSGDVKINLV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g5950.t3 Gene3D G3DSA:2.10.60.10 CD59 2 73 3.9E-8
8 g5950.t3 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 133 246 2.7E-49
9 g5950.t3 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 247 469 1.4E-57
4 g5950.t3 PANTHER PTHR23255 TRANSFORMING GROWTH FACTOR-BETA RECEPTOR TYPE I AND II 9 467 2.2E-191
5 g5950.t3 PANTHER PTHR23255:SF68 RECEPTOR PROTEIN SERINE/THREONINE KINASE 9 467 2.2E-191
3 g5950.t3 Pfam PF01064 Activin types I and II receptor domain 14 58 8.7E-6
1 g5950.t3 Pfam PF08515 Transforming growth factor beta type I GS-motif 144 165 2.4E-11
2 g5950.t3 Pfam PF00069 Protein kinase domain 169 458 8.4E-37
11 g5950.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 83 -
12 g5950.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 84 111 -
10 g5950.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 112 472 -
15 g5950.t3 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 173 194 -
14 g5950.t3 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 291 303 -
18 g5950.t3 ProSiteProfiles PS51256 GS domain profile. 136 166 15.349
19 g5950.t3 ProSiteProfiles PS50011 Protein kinase domain profile. 167 463 36.414
16 g5950.t3 SMART SM00467 GS_4 139 167 2.1E-12
17 g5950.t3 SMART SM00220 serkin_6 167 464 2.2E-28
6 g5950.t3 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 153 460 3.51E-66
13 g5950.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 89 111 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5950/g5950.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5950.t3.fa.iupred3.txt does not exist

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

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