Gene loci information

Transcript annotation

  • This transcript has been annotated as Tyrosine-protein kinase Fer.

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_3 g3711 g3711.t3 TTS g3711.t3 27578150 27578150
chr_3 g3711 g3711.t3 isoform g3711.t3 27578196 27579659
chr_3 g3711 g3711.t3 exon g3711.t3.exon1 27578196 27578515
chr_3 g3711 g3711.t3 cds g3711.t3.CDS1 27578196 27578515
chr_3 g3711 g3711.t3 exon g3711.t3.exon2 27578581 27578652
chr_3 g3711 g3711.t3 cds g3711.t3.CDS2 27578581 27578652
chr_3 g3711 g3711.t3 exon g3711.t3.exon3 27578866 27579400
chr_3 g3711 g3711.t3 cds g3711.t3.CDS3 27578866 27579151
chr_3 g3711 g3711.t3 exon g3711.t3.exon4 27579462 27579659
chr_3 g3711 g3711.t3 TSS g3711.t3 NA NA

Sequences

>g3711.t3 Gene=g3711 Length=1125
CTTACAGTTTCACCGACTCAGCCCTTATATCTTGAACCATGGTTTCATGGTGTGCTACCA
AGAGAAGAAGTTGTACGATTATTACGAAATGAAGGTGATTTTTTGGTACGCGAAACAACT
AGAAACGATGAAACTCAAATTGTATTGAGTGTCTGTTGGAATGGACATAAACATTTTATT
GTGCAAACGACTGCTGATAACCATTATCGATTTGAAGGTCCATCATTTGCGAATATTCAA
GAATTAATTCTTCATCAGTATCAATCGGGTCTTGTAGTGACTAATCGTTCAGGTGCAATA
CTTAAAAACGCAATTTTTAGGGAAAAATGGGAACTATCAAATGATGATGTGCTTTTGGTT
GAGAAAATCGGCAGAGGAAATTTTGGTGATGTTTATAAAGCAAAGCTTAAAAATACGAAA
CAGGAAGTTGCGGTTAAAACTTGTAAAATGACATTACCTGAAGAACAAAAAAAGAAGTTT
TTGCAAGAAGGAAGAATATTAAAGCAATATGATCATCCAAATATTGTAAAATTGATAGGC
ATTTGTGTACAAAAACAACCAATTATGATTGTTATGGAATTGGTAGAAGGAGGAAGTCTT
TTGATGTTTCTTCGGAAAAATGCACAAATATTAGAATTAAAACAGATGCTACGAATGTGC
AGTGACATTTCTGCTGGCATGCAATATTTAGAATCAAAAAATTGCATTCATCGAGATTTA
GCTGCTAGAAATTGTCTCATTGGTTCTGAAAATATTGTAAAAATTTCTGACTTTGGCATG
TCAAGAGAAGAAGAAGAGTATATTGTCTCTGATGGTATGAAGCAGATACCTATCAAGTGG
ACAGCACCAGAAGCTTTAAATTGGGGCAAATATAATTCACTCACCGATGTATGGAGCTAT
GGAATTTTAATGTTTGAAATATTCTCAAAAGGTGCAACTCCTTATTCAGGGATGTCGAAT
TCTAAAGCAAGAGAGAAGATTGAAGAAGGATATAGACTGCCAGCACCAGAAGGTACACCA
ATCAAAGTTTATGAGCTTATGTTAAAATGTTGGAGTATAGAGCCTATAGATAGACCTCAT
TTTAATGAAATTCATAATGAAATTACACATCTATTAAATCAGTAA

>g3711.t3 Gene=g3711 Length=225
MTLPEEQKKKFLQEGRILKQYDHPNIVKLIGICVQKQPIMIVMELVEGGSLLMFLRKNAQ
ILELKQMLRMCSDISAGMQYLESKNCIHRDLAARNCLIGSENIVKISDFGMSREEEEYIV
SDGMKQIPIKWTAPEALNWGKYNSLTDVWSYGILMFEIFSKGATPYSGMSNSKAREKIEE
GYRLPAPEGTPIKVYELMLKCWSIEPIDRPHFNEIHNEITHLLNQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g3711.t3 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 2 225 5.3E-75
2 g3711.t3 PANTHER PTHR24418:SF418 TYROSINE-PROTEIN KINASE FER 1 220 2.1E-126
3 g3711.t3 PANTHER PTHR24418 TYROSINE-PROTEIN KINASE 1 220 2.1E-126
11 g3711.t3 PIRSF PIRSF000654 ILK 1 225 8.2E-44
8 g3711.t3 PRINTS PR00109 Tyrosine kinase catalytic domain signature 43 56 6.5E-34
6 g3711.t3 PRINTS PR00109 Tyrosine kinase catalytic domain signature 80 98 6.5E-34
5 g3711.t3 PRINTS PR00109 Tyrosine kinase catalytic domain signature 127 137 6.5E-34
7 g3711.t3 PRINTS PR00109 Tyrosine kinase catalytic domain signature 146 168 6.5E-34
4 g3711.t3 PRINTS PR00109 Tyrosine kinase catalytic domain signature 190 212 6.5E-34
1 g3711.t3 Pfam PF07714 Protein tyrosine and serine/threonine kinase 5 218 5.4E-86
12 g3711.t3 ProSitePatterns PS00109 Tyrosine protein kinases specific active-site signature. 86 98 -
14 g3711.t3 ProSiteProfiles PS50011 Protein kinase domain profile. 1 219 33.036
13 g3711.t3 SMART SM00219 tyrkin_6 2 219 2.0E-103
9 g3711.t3 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 5 220 5.06E-67

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:0004713 protein tyrosine kinase activity MF
GO:0005524 ATP binding MF
GO:0004672 protein kinase activity MF
GO:0006468 protein phosphorylation BP

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