Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative SH2B adapter protein 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_1 g12512 g12512.t9 TSS g12512.t9 24205445 24205445
chr_1 g12512 g12512.t9 isoform g12512.t9 24206064 24207580
chr_1 g12512 g12512.t9 exon g12512.t9.exon1 24206064 24206459
chr_1 g12512 g12512.t9 cds g12512.t9.CDS1 24206092 24206459
chr_1 g12512 g12512.t9 exon g12512.t9.exon2 24206530 24206597
chr_1 g12512 g12512.t9 cds g12512.t9.CDS2 24206530 24206597
chr_1 g12512 g12512.t9 exon g12512.t9.exon3 24206668 24206772
chr_1 g12512 g12512.t9 cds g12512.t9.CDS3 24206668 24206772
chr_1 g12512 g12512.t9 exon g12512.t9.exon4 24206831 24206920
chr_1 g12512 g12512.t9 cds g12512.t9.CDS4 24206831 24206920
chr_1 g12512 g12512.t9 exon g12512.t9.exon5 24206987 24207580
chr_1 g12512 g12512.t9 cds g12512.t9.CDS5 24206987 24207063
chr_1 g12512 g12512.t9 TTS g12512.t9 24207622 24207622

Sequences

>g12512.t9 Gene=g12512 Length=1253
TGTCATAGAAGCAAAAGACGCTGCAGACATGAAAAGTTGGCTTGCAACAATTCGATATTG
CATGAAAAGCACACCAACATCACAAATGCCGCCATCACTTCCACTCAACGATTCTTCCAA
TAATTCATGTCTACTGAATGAAGCAGCATCGACTAATGCCCAAGCGTCTTCATCCGCAGC
AGTGGGAGCAACAAGTGCGGCAGCCTCAGATACATTAAATAATAGCTTAAATAATAATAA
TACAAACACTAATAATAACAATGTAAATAGCACAAATAATAATAATCAGCCTGAAATTCC
TCCACGACGACCGGAGTCTTCAAGTCATTTTCATTTAGAGGAGGAAGATCTCTTACATGA
TTCTGACCTAACGGCGATGATGATGGAATATCCATGGTTTCATGGAACACTTGCTAGAAG
TGATGCTAGTGCAATGGTCCTTCATGGTGGAGTATCTAGTCATGGTGTTTTTCTCGTTCG
ACAAAGTGAAACTCGTAAAGGAGAATATGTGTTAACATTCAACTTCCAAGGACGTGCAAA
ACATTTACGAATGACATTAAATGACTTAGGCCAATGTCGTGTACAACATCTATGGTTTCC
AAGTATAACTGAAATGCTCGAGCATTTTAGACAAAATCCTATTCCGCTGGAACAAGGAGG
TGTTGCTGATGTGAGGCTTACCGAATACGTAATTGCAAACACACAATCATTAGCATCCCC
TCGACATGTGAGATAATATTATTACTACTACTACTTTACTTTAACTTTAGACATAACTTT
ATCGCGATGTATATATAAAAAAACATCTACGCAATGTTGCTGATTTATGTTCATGAAATT
CTTAGTTTATTTCTTATTATTATTTTTTTGTTATGTTGTTTCAATGGACTTTTTAATTAT
TAATTTCTTCATTTTTTAAGAGACTAAAACCCAGAGTTAGTAATTTAGAAAATTTAAAAA
TATAATGGTGGACAAAATTTAAAAAAAACATAATAATTAAAGAAAATGGAAGTGATTCTG
CTTTTCGGAAGTCATATGGAAGCGTTTTTCAAATTTTGATTGTAAAATATTTATAAACTT
TGTGTGATCACAATCTAATGATGAAATTTGCTCCTTGATCTCCTATTTGATTTACTTCTG
TTATTATAAATGTAATTTATAATAAAAATATGTGTATAGTTATTATGCTTTAGTTTAGTT
TAATGATAATCATAATTTATTCATTATGTAAAAAACAATAGAAATGATAATAT

>g12512.t9 Gene=g12512 Length=235
MKSWLATIRYCMKSTPTSQMPPSLPLNDSSNNSCLLNEAASTNAQASSSAAVGATSAAAS
DTLNNSLNNNNTNTNNNNVNSTNNNNQPEIPPRRPESSSHFHLEEEDLLHDSDLTAMMME
YPWFHGTLARSDASAMVLHGGVSSHGVFLVRQSETRKGEYVLTFNFQGRAKHLRMTLNDL
GQCRVQHLWFPSITEMLEHFRQNPIPLEQGGVADVRLTEYVIANTQSLASPRHVR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g12512.t9 CDD cd10346 SH2_SH2B_family 114 210 2.74566E-67
9 g12512.t9 Gene3D G3DSA:3.30.505.10 SHC Adaptor Protein 115 223 1.4E-29
12 g12512.t9 MobiDBLite mobidb-lite consensus disorder prediction 69 101 -
13 g12512.t9 MobiDBLite mobidb-lite consensus disorder prediction 69 93 -
2 g12512.t9 PANTHER PTHR10872 SH2B ADAPTER PROTEIN 1 227 6.4E-84
3 g12512.t9 PANTHER PTHR10872:SF2 LNK, ISOFORM D 1 227 6.4E-84
6 g12512.t9 PRINTS PR00401 SH2 domain signature 123 137 9.8E-10
5 g12512.t9 PRINTS PR00401 SH2 domain signature 145 155 9.8E-10
7 g12512.t9 PRINTS PR00401 SH2 domain signature 157 168 9.8E-10
4 g12512.t9 PRINTS PR00401 SH2 domain signature 189 203 9.8E-10
1 g12512.t9 Pfam PF00017 SH2 domain 123 200 4.6E-14
14 g12512.t9 ProSiteProfiles PS50001 Src homology 2 (SH2) domain profile. 123 221 17.478
11 g12512.t9 SMART SM00252 SH2_5 121 206 5.0E-21
8 g12512.t9 SUPERFAMILY SSF55550 SH2 domain 120 224 8.21E-25

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:0007165 signal transduction BP
GO:0035591 signaling adaptor 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