Gene loci information

Transcript annotation

  • This transcript has been annotated as E3 ubiquitin-protein ligase CBL.

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 g8909 g8909.t1 TTS g8909.t1 33769407 33769407
chr_2 g8909 g8909.t1 isoform g8909.t1 33769632 33774497
chr_2 g8909 g8909.t1 exon g8909.t1.exon1 33769632 33769766
chr_2 g8909 g8909.t1 cds g8909.t1.CDS1 33769632 33769766
chr_2 g8909 g8909.t1 exon g8909.t1.exon2 33769958 33770079
chr_2 g8909 g8909.t1 cds g8909.t1.CDS2 33769958 33770079
chr_2 g8909 g8909.t1 exon g8909.t1.exon3 33770202 33770326
chr_2 g8909 g8909.t1 cds g8909.t1.CDS3 33770202 33770326
chr_2 g8909 g8909.t1 exon g8909.t1.exon4 33770391 33770651
chr_2 g8909 g8909.t1 cds g8909.t1.CDS4 33770391 33770651
chr_2 g8909 g8909.t1 exon g8909.t1.exon5 33770721 33770867
chr_2 g8909 g8909.t1 cds g8909.t1.CDS5 33770721 33770867
chr_2 g8909 g8909.t1 exon g8909.t1.exon6 33773986 33774497
chr_2 g8909 g8909.t1 cds g8909.t1.CDS6 33773986 33774497
chr_2 g8909 g8909.t1 TSS g8909.t1 33775390 33775390

Sequences

>g8909.t1 Gene=g8909 Length=1302
ATGATGAAAAATCTAACGTTTTTCTCAAAGATTCAATGCAAACTTACAGACTGCACTCAA
CAGAAGCTAATGACAGACAAGAAAACATTGGAGAAGACATGGAAGTTGATGGACAAAGTA
GTAAAGTTGTGTCAGCAAAGCAAGATGAATCTCAAAAACAGCCCGCCATTTATTCTTGAC
ATTTTGCCCGACACATATCAGCGCCTGCACTTAATCTATTCAAAATACGAAGACCAAATG
CACGTTTTACACAGTAATGAACACTTTACTGTATTTATAAATAATTTGATGCGAAAGTGC
AAGCAAGCAATCAAGCTTTTTAAAGAGGGTAAAATGCAGATGTTTGACGAGAATTCACAT
TATCGTCGCAATCTCACCAAACTCAGTCTAGTTTTCTCGCATATGTTGAGCGAGCTAAAA
GCCATTTTTCCCAATGGCACATTTGCCGGTGATCAATTTCGCATCACAAAAGCTGATGCA
GCCGAATTTTGGAAGACACGCTTTGGAAACAATACACTTGTGCCATGGAAAACTTTTCGA
GCACATCTTTCTGAAATTCATCCTATATCCAGTGGCCTCGAGGCTATGGCATTGAAAACG
ACTATCGATTTAACATGCAATGATTATATTTCAAATTTTGAATTTGATGTTTTCACAAGA
CTCTTTCAACCTTGGAATACATTGTTAAGAAATTGGCAAATTTTAGCTGTCACTCATCCT
GCATATGTAGCATTTCTCACTTATGATGAAGTCAAAGCTAGATTACAAAAATATATAAAT
AAGGCTGGTAGTTACGTATTTAGATTATCATGTACACGTTTAGGTCAGTGGGCAATTGGC
TATGTTACAGCGGATGGTGAAATTTTACAGACTATTCCGCAAAATAAATCATTATGTCAA
GCATTACTAGATGGATATAGAGAGGGATTTTATTTATATCCTGATGGTCGACCACACAAT
CCAGATTTGTCATTCGCTGTACAGAGTCCACTTGAAGATCACATAACGGTGACACAAGAA
CAATACGAGCTTTATTGTGAAATGGGAAGCACCTTTCAATTGTGTAAAATATGTGCGGAG
AATGACAAAGATATTCGCATTGAACCATGTGGACATTTGTTATGCACGCCATGTCTTACG
GCATGGCAAGTCGATTCGGAGGGTCAGGGTTGTCCATTTTGTAGAGCAGAAATTAAAGGA
ACTGAGCAAATAATTGTAGACGCATTCGATCCACAACGACAGTACAATCGAAATAGTAAG
CAGAAGGAGGAAGACCATGATGATGAAAATGAGGTATTGTAA

>g8909.t1 Gene=g8909 Length=433
MMKNLTFFSKIQCKLTDCTQQKLMTDKKTLEKTWKLMDKVVKLCQQSKMNLKNSPPFILD
ILPDTYQRLHLIYSKYEDQMHVLHSNEHFTVFINNLMRKCKQAIKLFKEGKMQMFDENSH
YRRNLTKLSLVFSHMLSELKAIFPNGTFAGDQFRITKADAAEFWKTRFGNNTLVPWKTFR
AHLSEIHPISSGLEAMALKTTIDLTCNDYISNFEFDVFTRLFQPWNTLLRNWQILAVTHP
AYVAFLTYDEVKARLQKYINKAGSYVFRLSCTRLGQWAIGYVTADGEILQTIPQNKSLCQ
ALLDGYREGFYLYPDGRPHNPDLSFAVQSPLEDHITVTQEQYELYCEMGSTFQLCKICAE
NDKDIRIEPCGHLLCTPCLTAWQVDSEGQGCPFCRAEIKGTEQIIVDAFDPQRQYNRNSK
QKEEDHDDENEVL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g8909.t1 CDD cd09920 SH2_Cbl-b_TKB 230 324 4.71344E-67
15 g8909.t1 CDD cd16709 RING-HC_Cbl-b 337 402 1.0277E-35
11 g8909.t1 Gene3D G3DSA:1.20.930.20 - 18 149 7.3E-58
12 g8909.t1 Gene3D G3DSA:1.10.238.10 - 150 238 2.6E-45
13 g8909.t1 Gene3D G3DSA:3.30.505.10 SHC Adaptor Protein 239 324 7.8E-47
14 g8909.t1 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 329 409 1.7E-20
5 g8909.t1 PANTHER PTHR23007:SF3 E3 UBIQUITIN-PROTEIN LIGASE CBL-B 23 417 2.1E-234
6 g8909.t1 PANTHER PTHR23007 CBL 23 417 2.1E-234
4 g8909.t1 Pfam PF02262 CBL proto-oncogene N-terminal domain 1 26 148 1.9E-53
3 g8909.t1 Pfam PF02761 CBL proto-oncogene N-terminus, EF hand-like domain 153 236 6.0E-40
1 g8909.t1 Pfam PF02762 CBL proto-oncogene N-terminus, SH2-like domain 238 323 6.7E-47
2 g8909.t1 Pfam PF14447 Prokaryotic RING finger family 4 355 402 1.6E-14
17 g8909.t1 ProSitePatterns PS00518 Zinc finger RING-type signature. 370 379 -
20 g8909.t1 ProSiteProfiles PS51506 Cbl-type phosphotyrosine-binding (Cbl-PTB) domain profile. 19 325 105.019
19 g8909.t1 ProSiteProfiles PS50089 Zinc finger RING-type profile. 355 395 12.711
18 g8909.t1 SMART SM00184 ring_2 355 394 5.5E-7
8 g8909.t1 SUPERFAMILY SSF47668 N-terminal domain of cbl (N-cbl) 23 151 6.28E-56
10 g8909.t1 SUPERFAMILY SSF47473 EF-hand 153 237 3.13E-36
9 g8909.t1 SUPERFAMILY SSF55550 SH2 domain 238 324 1.22E-45
7 g8909.t1 SUPERFAMILY SSF57850 RING/U-box 332 409 2.55E-39

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:0001784 phosphotyrosine residue binding MF
GO:0005509 calcium ion binding MF
GO:0007166 cell surface receptor signaling pathway BP
GO:0023051 regulation of signaling BP
GO:0004842 ubiquitin-protein transferase 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