Gene loci information

Transcript annotation

  • This transcript has been annotated as eIF-2-alpha kinase GCN2.

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 g8209 g8209.t1 TTS g8209.t1 29063516 29063516
chr_2 g8209 g8209.t1 isoform g8209.t1 29064252 29069206
chr_2 g8209 g8209.t1 exon g8209.t1.exon1 29064252 29064381
chr_2 g8209 g8209.t1 cds g8209.t1.CDS1 29064252 29064381
chr_2 g8209 g8209.t1 exon g8209.t1.exon2 29064448 29065334
chr_2 g8209 g8209.t1 cds g8209.t1.CDS2 29064448 29065334
chr_2 g8209 g8209.t1 exon g8209.t1.exon3 29065403 29066728
chr_2 g8209 g8209.t1 cds g8209.t1.CDS3 29065403 29066728
chr_2 g8209 g8209.t1 exon g8209.t1.exon4 29066795 29068284
chr_2 g8209 g8209.t1 cds g8209.t1.CDS4 29066795 29068284
chr_2 g8209 g8209.t1 exon g8209.t1.exon5 29068433 29069087
chr_2 g8209 g8209.t1 cds g8209.t1.CDS5 29068433 29069087
chr_2 g8209 g8209.t1 exon g8209.t1.exon6 29069150 29069206
chr_2 g8209 g8209.t1 cds g8209.t1.CDS6 29069150 29069206
chr_2 g8209 g8209.t1 TSS g8209.t1 29069314 29069314

Sequences

>g8209.t1 Gene=g8209 Length=4545
ATGACAACTAAAGAAAGCTATAAAGACAGACAAGAAAATGAATTAGAAGTGTTGAAGTCA
ATATTTGGTGATGACGTTGTTGATTTGCGGAAGAAAGAGGAAAAATGGATGCCACTTGAT
TTAACAATAAAGCTTAAACCTCAGAGAGATTCAAAAATATCTCAGGCCTATTGTCATATT
GAACTTCATGTAATATGCCCGAAGAATTATCCAAAAGTTTGTCCCAAGCTTTCTTTAGAA
AATGCAAAAGGTTTAGCAAATTCTGATGTTGTTACACTCCTCAATCAAATCAATAAGGAG
GCATATGGTTTAAAAGGAGAAGTTATGATTTTCGAGATATGTCAATTTATTCAGTCATTT
TTGCATGAACGCAATGTGCCGCCTAAAGGTTCATTTTATGATGAAATGCTAGCTACAAAG
CAGAAAAGAGATCAAGATGAACTTACACAGCAAAAAGAAATAGAAGAAAAGAAACGACAA
CACATACAGGATGAAATTCTCAAGAGAAAAGAGCAATTGAGAAAAGAAAATCGAATACGA
AAAGGTACTACTACTGATAGTCCGTTACATCATATTTCTTCAGAAAGTTCCAATTCCGAT
TCTAAATTTGTCAACGAGATTTGTGATGAACATAACTGTTCGGAGAATCTCTATTTTCCA
AATGATGGTAGAAAGATATTAAAGGGGACATGTATAGGACATTCAATGAAAGGTTGCATA
AATTTTTCTGGTATAGACTTAACAAGTGGACGTCTTTTCTATATAACTGAATGGACAATA
AAATATTCTCTACTAGAATCGAAAAATCTTAAAGCAGATGAAGTAATTGAAAACATTGAA
AAAATGATGGCATGTCTTATTAAATTAAGACATAAATATTTAGTTGCTTATGATAGTGTT
TCATGTACAAAACGAAAGGATTCTATCATGGTTATCTTATTACAAGAATTTCTTTATGGA
ATATCAATTTGTAATATGTCTACTATTTGGAATTGGAGTGCTGAGTGTACTAGTAACATA
GCTAAATGTGTTCTCGAGGCTTTAGTATTTCTTCATAATAATGGTGTTTCTCATGGAAAT
TTATTGGATACAAGCGTTTTTATTGATGCTACTGGAAATATAAAAGTTAGTGATTATAGC
ATTGTCACTTATTTACAAGAGCTTACAACAGGTGTTCAAGCATCACTATCAGATCTCTAT
TCACTTGGATCATTTATCGAGTCACTTATGCCAACACCTCATTTTGAAATGAAAAGTTTT
ATTAATGAATGCAAAAGTGAAAGAACATTATCAGCTTCAGATTTACTTGAACATCCATTT
TTATATACTGCTCTTATAAATCATGACAACTCACAGTCACCACATGATAATAAAATTGTA
AGTTATCCACCACCTGTTGCTCAAAATTTTACAACACCTTATTGTATACCTCCACTTATT
TCTTCAAACAATTCGCGCCTTGAAACAGAATTTGAAATCATCAATTACATTGGAAGAGGA
GCATATGGTGATGTTTTGAAATGTAGAAATATTTTGGATAATAGGCAATATGCTATTAAG
CGAGTTCCACTTTCGTCAAACAATAAACAAATTTTTAAGAAAATGACACGTGAAGTAGAA
TTACTTTCAAGACTGAATCATGAAAATGTTGTGAGATATTTTAACAGTTGGATTGAAATT
CAATCAACAAAAATTCCAGCACTTTTAGGCTCGGATGATGAGTACTCTGAGAAGAGTCGT
AAAAAAAGTAGCATAATAAAAACCCATAGTCATAATAGATTAACAATACCAGATTATTCA
GATGAAGAAGATGATAATGATTCTCTTGGATTGGGTTGGAATACTTTCTCCGATGATTCA
AGCAATGAAGATTCTGATGACGGTATTGAATTTGTCGATTCTCGAGGAAATGCAGTTCAA
TATGAAAGTGATGATGATTGTATAAATGATGAAAAAGAAAAGGGTGGTAAAGGTAGCTCA
GGGAAAAAAGAGAAAGAAATTGTTCTTTATATCCAAATGGAATATTGTGAAAAGAGTACA
CTGCGTTTAGCTATTGATGCAAATTTATATCTGGATAAAGAACGTTATTGGAAATTATTT
AGAGAAATTGTTGAAGGGTTGTACCACATTCATCAGCAAGGGATGATTCATCGCGATCTA
AAATGCGAAAATATTTTCTTAGATTCTCGTGATCATATTAAGATTGCCGACTTTGGTCTT
GCTACCACTAACGTGCTTGCACTTCAAAATCGTATTGTTGAGGCTAATCAATCACTTAAA
GCTAATCAAATAAGTTATGGAGACTCTCATACTGGTCAAGTTGGAACTGCTTTATATGTT
GCCCCAGAATTATCAGGAAAAGCGTCAAGGTCAACATATAATCAAAAAGTCGATGTTTTC
TCCCTTGGGATTATTTTCTTTGAAATGATTACACCCCCATTAAAAACAGGAATGGAAAGA
ATTACAACGATTCTCAAATTGCGACAACCAGATATAATACTTCCGAAATATTTAGAAGAT
GATAATTATAAAAATGAAAAGCAAATTTTAAAATGGCTTTTAAATCACAATCCAAGTAGT
AGACCAACAAGCGAAGAACTTTTACAATCAGAACTTATGCCACCTGTAAAAATGGAAGCA
AATGAACTCCAAGATATGCTGCGACACGTTCTAGCTAATCCTCAAAGTAGAAGCTATAAA
CATCTCATTAACAAAATGATGCTTCAAGAATGTGATGATGTAATTCAATTTTGCTATCAT
CAACAAGTTTTGTTACAATCTCCATCAGTTTTTGAAAATGCCAAGAGTAAAATTGAAGAA
GTTTTTAGAAAACATGGGGCTATTGACATTCAAACGCCATTATTAACTCCTTATACGAAA
TCTGATCCTGAATATATAACAAGATTAATGACACATAGTGGATTAATAGTGACATTACCA
CATGACTTGAATACTTTATTTTTGCGATATGTGGCTGCTAATGGAATCAATTTATTAAGG
CGTTATTCAATTGGAAGAGTTTATCGCGAAAGAAAACTTTTTAACTCACATCCAAAACAA
AATTATGAAGTAGAATTTAATGTTGTAACACCTAATCGAGGGAACTTTCTTGTTGATGCA
GAACTTTGTGTTGTTGCACATGAAATAATAAGTGAATTTGATGTTTTAAAACAGAAAAAT
TTGAGTTTCGCCATCAATCATACTTCATTATTGCGTGCAATTTTTTTGTATTATTCCGTT
CCTACAAGTAAATACAAAAATATTTTAGCACTTACTGCTGATTATTTAGAGGGAAGAATC
AAGACAAAGTATCAATTACAAACTTCAATAACGTCACTAATTCCTGCAGTAAAATCAATC
AGTTCATTAATTGATACTTTACTAATAACAGACATACCAATTACAAATATTGCAAGTACA
AATCTCAAAGTATTGGTAAGAGGTCGTGGTGAAGCAGCTGCTTTGGCTAAAGGTGCATTA
CGTGAACTTGAAACTGTTATCAATTTGAGTCAAGCTATGGGGGTTACTACTCCAATAAAT
TTATATGTAAGTCTATCACTTAATCAAGATTGTTCACGAACAGGAAGCATTGTTTGGCAG
TTATTAGGAGATGGTCCAAAACCGGGAAAACAAATTGTTTTCGCACATGGGGGGAGATAT
GATTCAATAATAGAGGACTATAAAAAATTAATGCAAAAAGGAGCATCGTTAATTTCTCGA
GAGATATATTGTGCAGGTTTCACTTTTGCTATTGAGAAACTTGTAACAAGCTTAAATCAA
TTAAGTAACGCAATTACTTATCGTTCAACAGTTGATTTATTATTTTATGTAACTGGGACG
AGGCCACCATTAAAAGAAATATGTCATTTACTCAAATCCTTTTGGAATGCTGGTCATAAA
TGTTGTTATATTGAATCGCCTAATAATCAAGTAGATGAGGATGTTGCCAGAGATTTAGGT
GCAAATCATATTCTAGTCTTGGGTGAAGATGGTTGTTTGCGCATCAAAACATGGCAAATC
GATCGATATGATGAAAATACAGTTAGTAAGGCGGAAGCATTAAATTATCTGAAGAAAAAT
TTAAGTATGGATATTAACACATTGTCTATTGAGCAAAATTTTTCTACACGAAATAATTCA
TTGACAAATATTCCCATCGAAAATATAAATGCTGGCCTACCTTTTTTCGAAATCAATTTT
ATTACAAATGAAAAGATTACATCAAATAAAAAGAAACGTTTAGTAAATCAGATAGAGCAA
AAATTGTCAAGCGTTATGAAAAGATTTTCCAAACGTGAGACTTTTGTGATTTTTGTGGTT
GAACTTGATGCTCATCAAATACGATCATTAATTTCTTGCATCGATCCTGACCCAAAACAG
CAATCTCAAAATGATTTTGATGTCCTTCAAAAAATGCTCCCGAAGAATAAACAGAAGTAC
ATACAGGAAGTCTATGATGAAATTACTGATAAAATTGCACAAAATAAGAATATTATTGTA
GGGATGTTTGGAATCCAAGATTCCTACTATCGTATTATTCTTTAA

>g8209.t1 Gene=g8209 Length=1514
MTTKESYKDRQENELEVLKSIFGDDVVDLRKKEEKWMPLDLTIKLKPQRDSKISQAYCHI
ELHVICPKNYPKVCPKLSLENAKGLANSDVVTLLNQINKEAYGLKGEVMIFEICQFIQSF
LHERNVPPKGSFYDEMLATKQKRDQDELTQQKEIEEKKRQHIQDEILKRKEQLRKENRIR
KGTTTDSPLHHISSESSNSDSKFVNEICDEHNCSENLYFPNDGRKILKGTCIGHSMKGCI
NFSGIDLTSGRLFYITEWTIKYSLLESKNLKADEVIENIEKMMACLIKLRHKYLVAYDSV
SCTKRKDSIMVILLQEFLYGISICNMSTIWNWSAECTSNIAKCVLEALVFLHNNGVSHGN
LLDTSVFIDATGNIKVSDYSIVTYLQELTTGVQASLSDLYSLGSFIESLMPTPHFEMKSF
INECKSERTLSASDLLEHPFLYTALINHDNSQSPHDNKIVSYPPPVAQNFTTPYCIPPLI
SSNNSRLETEFEIINYIGRGAYGDVLKCRNILDNRQYAIKRVPLSSNNKQIFKKMTREVE
LLSRLNHENVVRYFNSWIEIQSTKIPALLGSDDEYSEKSRKKSSIIKTHSHNRLTIPDYS
DEEDDNDSLGLGWNTFSDDSSNEDSDDGIEFVDSRGNAVQYESDDDCINDEKEKGGKGSS
GKKEKEIVLYIQMEYCEKSTLRLAIDANLYLDKERYWKLFREIVEGLYHIHQQGMIHRDL
KCENIFLDSRDHIKIADFGLATTNVLALQNRIVEANQSLKANQISYGDSHTGQVGTALYV
APELSGKASRSTYNQKVDVFSLGIIFFEMITPPLKTGMERITTILKLRQPDIILPKYLED
DNYKNEKQILKWLLNHNPSSRPTSEELLQSELMPPVKMEANELQDMLRHVLANPQSRSYK
HLINKMMLQECDDVIQFCYHQQVLLQSPSVFENAKSKIEEVFRKHGAIDIQTPLLTPYTK
SDPEYITRLMTHSGLIVTLPHDLNTLFLRYVAANGINLLRRYSIGRVYRERKLFNSHPKQ
NYEVEFNVVTPNRGNFLVDAELCVVAHEIISEFDVLKQKNLSFAINHTSLLRAIFLYYSV
PTSKYKNILALTADYLEGRIKTKYQLQTSITSLIPAVKSISSLIDTLLITDIPITNIAST
NLKVLVRGRGEAAALAKGALRELETVINLSQAMGVTTPINLYVSLSLNQDCSRTGSIVWQ
LLGDGPKPGKQIVFAHGGRYDSIIEDYKKLMQKGASLISREIYCAGFTFAIEKLVTSLNQ
LSNAITYRSTVDLLFYVTGTRPPLKEICHLLKSFWNAGHKCCYIESPNNQVDEDVARDLG
ANHILVLGEDGCLRIKTWQIDRYDENTVSKAEALNYLKKNLSMDINTLSIEQNFSTRNNS
LTNIPIENINAGLPFFEINFITNEKITSNKKKRLVNQIEQKLSSVMKRFSKRETFVIFVV
ELDAHQIRSLISCIDPDPKQQSQNDFDVLQKMLPKNKQKYIQEVYDEITDKIAQNKNIIV
GMFGIQDSYYRIIL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
25 g8209.t1 CDD cd14046 STKc_EIF2AK4_GCN2_rpt2 485 871 2.56039E-115
21 g8209.t1 Coils Coil Coil 138 165 -
16 g8209.t1 Gene3D G3DSA:3.10.110.10 Ubiquitin Conjugating Enzyme 1 131 1.6E-36
19 g8209.t1 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 242 462 5.1E-11
18 g8209.t1 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 480 596 3.0E-28
20 g8209.t1 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 649 887 3.1E-48
17 g8209.t1 Gene3D G3DSA:3.30.930.10 Bira Bifunctional Protein; Domain 2 921 1264 3.6E-49
30 g8209.t1 MobiDBLite mobidb-lite consensus disorder prediction 173 197 -
7 g8209.t1 PANTHER PTHR11042 EUKARYOTIC TRANSLATION INITIATION FACTOR 2-ALPHA KINASE EIF2-ALPHA KINASE -RELATED 57 186 3.0E-219
11 g8209.t1 PANTHER PTHR11042:SF164 EIF-2-ALPHA KINASE GCN2 57 186 3.0E-219
6 g8209.t1 PANTHER PTHR11042 EUKARYOTIC TRANSLATION INITIATION FACTOR 2-ALPHA KINASE EIF2-ALPHA KINASE -RELATED 209 386 3.0E-219
10 g8209.t1 PANTHER PTHR11042:SF164 EIF-2-ALPHA KINASE GCN2 209 386 3.0E-219
5 g8209.t1 PANTHER PTHR11042 EUKARYOTIC TRANSLATION INITIATION FACTOR 2-ALPHA KINASE EIF2-ALPHA KINASE -RELATED 429 573 3.0E-219
9 g8209.t1 PANTHER PTHR11042:SF164 EIF-2-ALPHA KINASE GCN2 429 573 3.0E-219
4 g8209.t1 PANTHER PTHR11042 EUKARYOTIC TRANSLATION INITIATION FACTOR 2-ALPHA KINASE EIF2-ALPHA KINASE -RELATED 593 1380 3.0E-219
8 g8209.t1 PANTHER PTHR11042:SF164 EIF-2-ALPHA KINASE GCN2 593 1380 3.0E-219
24 g8209.t1 PIRSF PIRSF000660 STPK_GCN2 1 310 3.5E-19
23 g8209.t1 PIRSF PIRSF000660 STPK_GCN2 339 401 7.9E-5
22 g8209.t1 PIRSF PIRSF000660 STPK_GCN2 444 1272 1.2E-140
1 g8209.t1 Pfam PF05773 RWD domain 10 120 5.3E-22
2 g8209.t1 Pfam PF00069 Protein kinase domain 492 562 3.1E-13
3 g8209.t1 Pfam PF00069 Protein kinase domain 667 872 6.4E-37
29 g8209.t1 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 497 520 -
28 g8209.t1 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 715 727 -
31 g8209.t1 ProSiteProfiles PS50908 RWD domain profile. 13 124 22.8
32 g8209.t1 ProSiteProfiles PS50011 Protein kinase domain profile. 491 873 39.806
26 g8209.t1 SMART SM00591 RWD2001b 13 124 2.8E-25
27 g8209.t1 SMART SM00220 serkin_6 491 873 1.6E-48
13 g8209.t1 SUPERFAMILY SSF54495 UBC-like 3 130 1.07E-27
15 g8209.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 271 445 2.49E-16
14 g8209.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 490 908 4.15E-64
12 g8209.t1 SUPERFAMILY SSF55681 Class II aaRS and biotin synthetases 932 1252 8.39E-23

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:0005515 protein binding MF
GO:0010998 regulation of translational initiation by eIF2 alpha phosphorylation BP
GO:0004672 protein kinase activity MF
GO:0000077 DNA damage checkpoint signaling BP
GO:0006468 protein phosphorylation BP
GO:0004694 eukaryotic translation initiation factor 2alpha kinase 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