General information for g3711.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tyrosine-protein kinase Fer.
Parent gene
- The parent gene g3711 is located on chr_3: 27583486..27584122 (- strand)
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.t1 | TTS | g3711.t1 | 27578150 | 27578150 |
| chr_3 | g3711 | g3711.t1 | isoform | g3711.t1 | 27578196 | 27583675 |
| chr_3 | g3711 | g3711.t1 | exon | g3711.t1.exon1 | 27578196 | 27578515 |
| chr_3 | g3711 | g3711.t1 | cds | g3711.t1.CDS1 | 27578196 | 27578515 |
| chr_3 | g3711 | g3711.t1 | exon | g3711.t1.exon2 | 27578581 | 27578652 |
| chr_3 | g3711 | g3711.t1 | cds | g3711.t1.CDS2 | 27578581 | 27578652 |
| chr_3 | g3711 | g3711.t1 | exon | g3711.t1.exon3 | 27578866 | 27579400 |
| chr_3 | g3711 | g3711.t1 | cds | g3711.t1.CDS3 | 27578866 | 27579400 |
| chr_3 | g3711 | g3711.t1 | exon | g3711.t1.exon4 | 27579462 | 27579659 |
| chr_3 | g3711 | g3711.t1 | cds | g3711.t1.CDS4 | 27579462 | 27579659 |
| chr_3 | g3711 | g3711.t1 | exon | g3711.t1.exon5 | 27580048 | 27580209 |
| chr_3 | g3711 | g3711.t1 | cds | g3711.t1.CDS5 | 27580048 | 27580209 |
| chr_3 | g3711 | g3711.t1 | exon | g3711.t1.exon6 | 27580298 | 27580457 |
| chr_3 | g3711 | g3711.t1 | cds | g3711.t1.CDS6 | 27580298 | 27580457 |
| chr_3 | g3711 | g3711.t1 | exon | g3711.t1.exon7 | 27580516 | 27580929 |
| chr_3 | g3711 | g3711.t1 | cds | g3711.t1.CDS7 | 27580516 | 27580929 |
| chr_3 | g3711 | g3711.t1 | exon | g3711.t1.exon8 | 27580996 | 27581191 |
| chr_3 | g3711 | g3711.t1 | cds | g3711.t1.CDS8 | 27580996 | 27581191 |
| chr_3 | g3711 | g3711.t1 | exon | g3711.t1.exon9 | 27581246 | 27581342 |
| chr_3 | g3711 | g3711.t1 | cds | g3711.t1.CDS9 | 27581246 | 27581342 |
| chr_3 | g3711 | g3711.t1 | exon | g3711.t1.exon10 | 27581458 | 27581648 |
| chr_3 | g3711 | g3711.t1 | cds | g3711.t1.CDS10 | 27581458 | 27581648 |
| chr_3 | g3711 | g3711.t1 | exon | g3711.t1.exon11 | 27583486 | 27583675 |
| chr_3 | g3711 | g3711.t1 | cds | g3711.t1.CDS11 | 27583486 | 27583675 |
| chr_3 | g3711 | g3711.t1 | TSS | g3711.t1 | 27584122 | 27584122 |
Sequences
>g3711.t1 Gene=g3711 Length=2535
ATGGGACTCTCAACACAGGGAAAGAACATTCACGATGTAATAACTGCACGACATGAGTCC
GAAATTCGTCTCATCGAAGTTATGCGTAAATGTTTATTACTAAAAGTAAAGTGCGATCGT
GATTATGCGTCTTCAATCCAGAGTGTTTCCGTCGTTGGTCTCAAAATTGATCGAATAGAC
GATCTAAATGGAAGTCAAATTTTCAAAACATGGAAGCGATTTATGGAAGAATTAGAAAAT
CAATCTAAGTTGATTCGCAAGAAAATGGAATGTTTAGAGAACATTTGCATCGATCGAATA
TCAAATATTTTAGTTGAAAAAAGAAAAATAAAGAAGCAATGTCAAGACGATCATGAAAAA
ATTGCGTCAAGACTATTCCAGTTTACCGATGAAGTTGCAAAAAAGAAGACTGAGTACAAT
AAGCAACTAGAATATTACAAACAAATGAGATTACGCTTCGAAGAACATTACATTAAATCT
GGTAGAGCAGGTCGGAAGTTAGATGATGTGAGAGAAAAGTACCAAAAGGCATGTAGAAAA
TTGCATTTGATTCACAATGAATATGTATTACTGTTACACGAAGCGACTGAAGTTGAAAAA
GATTATAGAACCGACCTCTTTCCTACTTTCTTATCAAATCAAGAAGCTCTCCATGAACAA
TTTAATGAAAATTGGAATAGTATATTAGTAGATATTGCAAAACTACTCGATCTATCATCA
GCTGATGAATTTTTGAAAACACAAGAACAATTAAGTAATGGTTTGAAGGGTTCAATATCA
AAAGATGAGTATAATGACATATTGGAAAAATATAAAGCATCACCGATAGTCTTTCATTTT
GATGAAAACTTAATAAATGACAATGTTGGAAAATTATTGCCTAATCAATTAGCTGTAGAT
AACTTAACAATCGATTGGCTAAAACAAAAAATGCTAGAGCTTGAACAATCAATGAAAGAA
TGCCAAGAAGAACAGCAAAAGCTCAAGCAAAGCAATAGCAGTGAACAGTTGACACTAAAT
AATTTACTCAACAAGAGTCTTGTGAATATTGAAGGTCAAAATCATAGTTCTCAAATAGTT
GATTTAAAATTAAAATCCTTAAAGAATGAAGAGCGCCAAATGTTTAAAGTACTGGAAATT
ATCAAATCATCGTTGAATGAAGTTTCATTAAATGAATTACCAAGTGGTTGTGATGATGAT
TTACCATCAGTTGTTGTTGAAAATGATGAGAAATATAGAAATAGTACTATGTCATTTGCT
TTCTTAAACAAAAATGAAGATTTTATGACCCTCATTAAAACTCCATTTAAAAAGAAAAGG
AAAACATTTGCGAGTGATGAAAAAATAAGTAAATCAGGCTCGCAAACGCCTATTAGTCTT
CGCGCAAGATCTACTCGTTCAGTCTCATTGCTTACAGTTTCACCGACTCAGCCCTTATAT
CTTGAACCATGGTTTCATGGTGTGCTACCAAGAGAAGAAGTTGTACGATTATTACGAAAT
GAAGGTGATTTTTTGGTACGCGAAACAACTAGAAACGATGAAACTCAAATTGTATTGAGT
GTCTGTTGGAATGGACATAAACATTTTATTGTGCAAACGACTGCTGATAACCATTATCGA
TTTGAAGGTCCATCATTTGCGAATATTCAAGAATTAATTCTTCATCAGTATCAATCGGGT
CTTGTAGTGACTAATCGTTCAGGTGCAATACTTAAAAACGCAATTTTTAGGGAAAAATGG
GAACTATCAAATGATGATGTGCTTTTGGTTGAGAAAATCGGCAGAGGAAATTTTGGTGAT
GTTTATAAAGCAAAGCTTAAAAATACGAAACAGGAAGTTGCGGTTAAAACTTGTAAAATG
ACATTACCTGAAGAACAAAAAAAGAAGTTTTTGCAAGAAGGAAGAATATTAAAGCAATAT
GATCATCCAAATATTGTAAAATTGATAGGCATTTGTGTACAAAAACAACCAATTATGATT
GTTATGGAATTGGTAGAAGGAGGAAGTCTTTTGATGTTTCTTCGGAAAAATGCACAAATA
TTAGAATTAAAACAGATGCTACGAATGTGCAGTGACATTTCTGCTGGCATGCAATATTTA
GAATCAAAAAATTGCATTCATCGAGATTTAGCTGCTAGAAATTGTCTCATTGGTTCTGAA
AATATTGTAAAAATTTCTGACTTTGGCATGTCAAGAGAAGAAGAAGAGTATATTGTCTCT
GATGGTATGAAGCAGATACCTATCAAGTGGACAGCACCAGAAGCTTTAAATTGGGGCAAA
TATAATTCACTCACCGATGTATGGAGCTATGGAATTTTAATGTTTGAAATATTCTCAAAA
GGTGCAACTCCTTATTCAGGGATGTCGAATTCTAAAGCAAGAGAGAAGATTGAAGAAGGA
TATAGACTGCCAGCACCAGAAGGTACACCAATCAAAGTTTATGAGCTTATGTTAAAATGT
TGGAGTATAGAGCCTATAGATAGACCTCATTTTAATGAAATTCATAATGAAATTACACAT
CTATTAAATCAGTAA
>g3711.t1 Gene=g3711 Length=844
MGLSTQGKNIHDVITARHESEIRLIEVMRKCLLLKVKCDRDYASSIQSVSVVGLKIDRID
DLNGSQIFKTWKRFMEELENQSKLIRKKMECLENICIDRISNILVEKRKIKKQCQDDHEK
IASRLFQFTDEVAKKKTEYNKQLEYYKQMRLRFEEHYIKSGRAGRKLDDVREKYQKACRK
LHLIHNEYVLLLHEATEVEKDYRTDLFPTFLSNQEALHEQFNENWNSILVDIAKLLDLSS
ADEFLKTQEQLSNGLKGSISKDEYNDILEKYKASPIVFHFDENLINDNVGKLLPNQLAVD
NLTIDWLKQKMLELEQSMKECQEEQQKLKQSNSSEQLTLNNLLNKSLVNIEGQNHSSQIV
DLKLKSLKNEERQMFKVLEIIKSSLNEVSLNELPSGCDDDLPSVVVENDEKYRNSTMSFA
FLNKNEDFMTLIKTPFKKKRKTFASDEKISKSGSQTPISLRARSTRSVSLLTVSPTQPLY
LEPWFHGVLPREEVVRLLRNEGDFLVRETTRNDETQIVLSVCWNGHKHFIVQTTADNHYR
FEGPSFANIQELILHQYQSGLVVTNRSGAILKNAIFREKWELSNDDVLLVEKIGRGNFGD
VYKAKLKNTKQEVAVKTCKMTLPEEQKKKFLQEGRILKQYDHPNIVKLIGICVQKQPIMI
VMELVEGGSLLMFLRKNAQILELKQMLRMCSDISAGMQYLESKNCIHRDLAARNCLIGSE
NIVKISDFGMSREEEEYIVSDGMKQIPIKWTAPEALNWGKYNSLTDVWSYGILMFEIFSK
GATPYSGMSNSKAREKIEEGYRLPAPEGTPIKVYELMLKCWSIEPIDRPHFNEIHNEITH
LLNQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g3711.t1 | CDD | cd07657 | F-BAR_Fes_Fer | 6 | 238 | 3.8702E-84 |
| 19 | g3711.t1 | CDD | cd10361 | SH2_Fps_family | 477 | 563 | 7.14577E-27 |
| 17 | g3711.t1 | Coils | Coil | Coil | 75 | 95 | - |
| 16 | g3711.t1 | Coils | Coil | Coil | 304 | 334 | - |
| 15 | g3711.t1 | Gene3D | G3DSA:1.20.1270.60 | Arfaptin | 2 | 273 | 5.4E-36 |
| 14 | g3711.t1 | Gene3D | G3DSA:3.30.505.10 | SHC Adaptor Protein | 472 | 581 | 8.1E-26 |
| 13 | g3711.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 582 | 844 | 4.3E-86 |
| 3 | g3711.t1 | PANTHER | PTHR24418:SF418 | TYROSINE-PROTEIN KINASE FER | 64 | 839 | 2.9E-249 |
| 4 | g3711.t1 | PANTHER | PTHR24418 | TYROSINE-PROTEIN KINASE | 64 | 839 | 2.9E-249 |
| 18 | g3711.t1 | PIRSF | PIRSF000632 | TyrPK_fps | 1 | 844 | 9.5E-217 |
| 8 | g3711.t1 | PRINTS | PR00109 | Tyrosine kinase catalytic domain signature | 662 | 675 | 1.9E-31 |
| 7 | g3711.t1 | PRINTS | PR00109 | Tyrosine kinase catalytic domain signature | 699 | 717 | 1.9E-31 |
| 5 | g3711.t1 | PRINTS | PR00109 | Tyrosine kinase catalytic domain signature | 746 | 756 | 1.9E-31 |
| 9 | g3711.t1 | PRINTS | PR00109 | Tyrosine kinase catalytic domain signature | 765 | 787 | 1.9E-31 |
| 6 | g3711.t1 | PRINTS | PR00109 | Tyrosine kinase catalytic domain signature | 809 | 831 | 1.9E-31 |
| 1 | g3711.t1 | Pfam | PF00017 | SH2 domain | 484 | 555 | 1.6E-14 |
| 2 | g3711.t1 | Pfam | PF07714 | Protein tyrosine and serine/threonine kinase | 589 | 837 | 2.4E-96 |
| 25 | g3711.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 593 | 616 | - |
| 24 | g3711.t1 | ProSitePatterns | PS00109 | Tyrosine protein kinases specific active-site signature. | 705 | 717 | - |
| 26 | g3711.t1 | ProSiteProfiles | PS51741 | F-BAR domain profile. | 1 | 263 | 20.359 |
| 27 | g3711.t1 | ProSiteProfiles | PS50001 | Src homology 2 (SH2) domain profile. | 484 | 575 | 13.697 |
| 28 | g3711.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 587 | 838 | 40.047 |
| 22 | g3711.t1 | SMART | SM00055 | fch_2 | 1 | 92 | 0.0083 |
| 23 | g3711.t1 | SMART | SM00252 | SH2_5 | 482 | 562 | 4.3E-23 |
| 21 | g3711.t1 | SMART | SM00219 | tyrkin_6 | 587 | 838 | 4.2E-133 |
| 10 | g3711.t1 | SUPERFAMILY | SSF103657 | BAR/IMD domain-like | 11 | 236 | 1.12E-20 |
| 12 | g3711.t1 | SUPERFAMILY | SSF55550 | SH2 domain | 461 | 604 | 3.1E-24 |
| 11 | g3711.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 576 | 839 | 1.78E-80 |
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 |
| GO:0018108 | peptidyl-tyrosine phosphorylation | BP |
KEGG
Orthology
- This transcript has been annotated with K08889 (tyrosine-protein kinase Fer)
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.
