Gene loci information

Transcript annotation

  • This transcript has been annotated as STE20-related kinase adapter protein alpha.

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 g12279 g12279.t1 TSS g12279.t1 22118119 22118119
chr_1 g12279 g12279.t1 isoform g12279.t1 22118851 22119987
chr_1 g12279 g12279.t1 exon g12279.t1.exon1 22118851 22119221
chr_1 g12279 g12279.t1 cds g12279.t1.CDS1 22118851 22119221
chr_1 g12279 g12279.t1 exon g12279.t1.exon2 22119279 22119987
chr_1 g12279 g12279.t1 cds g12279.t1.CDS2 22119279 22119987
chr_1 g12279 g12279.t1 TTS g12279.t1 22120048 22120048

Sequences

>g12279.t1 Gene=g12279 Length=1080
ATGTTTAGTGATTATGAAGTACGATCGAATTTCAGTAAATCAGTATGTCTTGCTCTTAAT
AAACCGATGGGAAAATATGTTGCACTAAAACGTATTTCGGCCGACAAATATTTTGATGAG
GATTTTAGAAAAATTTGTGATGAAATTACATTAATTAAAGATTTACAACATAAAAACATT
ATCAAAATTCATGCCGTATTTGTAAAAAATTTTGATTTGTGTGTTGTCTACCCATTCTTT
TGCTTCGGAAGTTGTAAAGAAGCAATTAAAAATTTCTTTTTTACTGGATTTCCTGAAATT
ATTTCTGCGCTTATACTAAAAGACGTCCTATTTGCCATCGATTATCTTCATTCGAGAGGA
ATAATTCATCGCGGTATACGAGCATCTCATATTTTATTGAATCAATCAAGAGCAGTTCTC
ACAGGATTTCGTGACGCAACATCTCTTATTAGAAATGGAGAAAGAATAAAAATTTTACAT
GCACTTCCACTAAACTCAGCAAAGTCTATTAATTGGTTTGCACCTGAGTTATTAGAGCAG
AATCTTTTGGGATATAGTGAAAAGTCAGATATTTATAGTTTAGGAATTACAACCTGTGAA
TTGGCAAATGGTATAGCACCTTTTGCAGATTTACCAACTACACTCATGTTAACTGAAAAA
ATTAGAGGAAATCAACCCTCACTCCTCGATTGTTCAACATTTCCATCAGAAGAGATAATT
TTTCAAGCAATGGACTCAGGCATTGGAATTGGTGAAGCATGGGCAGCAGACAATACAAGA
CAAGTTTATTCTAAGCGTAAATTCTCTGATCCTTTTCATAAATTTGCTGAAGAATGCATG
GCACGATATCCCGACAACAGACCAAGCGCCAATCAACTTTTAACTCAACATTCCTTTTTC
AAACAAACTCGACACACAAATCTCGAAGAACAACTTAGAATCATACTTGAACCAGTGGAT
CTCCATAAATTAAGCTTGGAAAATATTGCGGCAAATAAAAATAATAGTGACAGTGAAAAC
GATTTGATTCAAGAAATTGCATCGTTACAATTAAATCAAGATTCAGAATGGGATTTTTAA

>g12279.t1 Gene=g12279 Length=359
MFSDYEVRSNFSKSVCLALNKPMGKYVALKRISADKYFDEDFRKICDEITLIKDLQHKNI
IKIHAVFVKNFDLCVVYPFFCFGSCKEAIKNFFFTGFPEIISALILKDVLFAIDYLHSRG
IIHRGIRASHILLNQSRAVLTGFRDATSLIRNGERIKILHALPLNSAKSINWFAPELLEQ
NLLGYSEKSDIYSLGITTCELANGIAPFADLPTTLMLTEKIRGNQPSLLDCSTFPSEEII
FQAMDSGIGIGEAWAADNTRQVYSKRKFSDPFHKFAEECMARYPDNRPSANQLLTQHSFF
KQTRHTNLEEQLRIILEPVDLHKLSLENIAANKNNSDSENDLIQEIASLQLNQDSEWDF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g12279.t1 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 4 82 0.000
2 g12279.t1 PANTHER PTHR45832 - 6 324 0.000
3 g12279.t1 PANTHER PTHR45832:SF15 SERINE/THREONINE-PROTEIN KINASE STE20-LIKE-RELATED 6 324 0.000
1 g12279.t1 Pfam PF00069 Protein kinase domain 14 299 0.000
6 g12279.t1 ProSiteProfiles PS50011 Protein kinase domain profile. 1 300 30.167
4 g12279.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 13 329 0.000

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:0005524 ATP binding MF
GO:0004672 protein kinase activity MF
GO:0006468 protein phosphorylation BP

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