Gene loci information

Transcript annotation

  • This transcript has been annotated as Folylpolyglutamate synthase, mitochondrial.

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 g3367 g3367.t1 TSS g3367.t1 24882348 24882348
chr_3 g3367 g3367.t1 isoform g3367.t1 24882419 24888356
chr_3 g3367 g3367.t1 exon g3367.t1.exon1 24882419 24882508
chr_3 g3367 g3367.t1 cds g3367.t1.CDS1 24882419 24882508
chr_3 g3367 g3367.t1 exon g3367.t1.exon2 24882574 24883768
chr_3 g3367 g3367.t1 cds g3367.t1.CDS2 24882574 24883768
chr_3 g3367 g3367.t1 exon g3367.t1.exon3 24883822 24884085
chr_3 g3367 g3367.t1 cds g3367.t1.CDS3 24883822 24884085
chr_3 g3367 g3367.t1 exon g3367.t1.exon4 24884279 24884314
chr_3 g3367 g3367.t1 cds g3367.t1.CDS4 24884279 24884314
chr_3 g3367 g3367.t1 exon g3367.t1.exon5 24884413 24884520
chr_3 g3367 g3367.t1 cds g3367.t1.CDS5 24884413 24884520
chr_3 g3367 g3367.t1 exon g3367.t1.exon6 24884586 24884833
chr_3 g3367 g3367.t1 cds g3367.t1.CDS6 24884586 24884833
chr_3 g3367 g3367.t1 exon g3367.t1.exon7 24884896 24884970
chr_3 g3367 g3367.t1 cds g3367.t1.CDS7 24884896 24884970
chr_3 g3367 g3367.t1 exon g3367.t1.exon8 24886515 24888356
chr_3 g3367 g3367.t1 cds g3367.t1.CDS8 24886515 24888356
chr_3 g3367 g3367.t1 TTS g3367.t1 NA NA

Sequences

>g3367.t1 Gene=g3367 Length=3858
ATGATTAAATCATTAAATAACATCAAAAGGCCAATTGTAAAATTAGGTTTTCGATCTATA
TCAACAAATACAAACAAGAGAACTTTTGAGGATGCTATTGTCGCGCTCAATTCTTTACAA
ACAAATTCTGTCGCATTAAATCTGTCAATTCAGATGAAAAGACAACAAAAACATGACGAG
GCAAACTTTAATCTTCGCGATACTGAAAAATATTTAGAGAGAATCGAAGGTTTCAATCTA
AAGCAGTTAGATAAGTTATCAGTAATACATGTAAGTGGCAGTAAAGGCAAAGGATCAGTA
TGTACGTACACTGATGCAATTCTAAGAGAATATAATGTGAAAACTGGTCTCTTTACATCA
CCTCATCTTATGTCGGTGACTGAAAGAATTAAATTGATGGGTTTATCAATAAGCAAGAGC
ATGTTCAATGAGTATTTTTGGCAAGTTTATGATGCTCTTCAAGCTAAAAAGAGTAATGAT
GCAGACTTGCCATCATATTTCAAGTTCCTACAAGTTATGGCTTTCTATGTGTTTGTTAAA
GAAAAAGTCGATGTTGCTATAATTGAAGTTGGTATCGGAGGACAGTTTGATTCAACTAAT
ATTCTAAGAAATACAGAAATTGTAGGAATCACAGCATTGCAATTAGAGCATACTCAATTA
TTGGGCAATACTCTGGAAGAGATTGCATGGCAAAAAGCAGGCATTATTAAAAAGAACTCT
TATGTTTACGCTATGAATCAGCCTATTCAATGCATTAATGTGATTGAAAATAGATTTGAT
GAGATTGGTGGCAAAAGGTTATCTTTCATACCACCCTTCGATTATTACACATTTAATGAA
TGTCATATACCAGATTTTTCTCGGACTTCTGAAGTTAATCGGTCAAATTTTTCACTTGCA
TCACAATTAAGTGCAAGATGGTTAAGAAACAGACATAAATTATCAGAGGAGCATTTTTGT
GACAATTTGTTAAAAATCATTGATAAGAAATTTGTTGATGCATACGAGAAATGTCATTTT
GATGGACGATTTCAAAGAATTGAAGATGATGGCATAACATATTTTCTTGATGGAGCACAT
ACGATTGATAGCATGAAAATCTGTTCAGAGTGGTTTGCTAAGCAAATTAATGATGGTAAT
CGTGAACAATTGAATGTGCTTATTTTTAATGTAACTGGTGATCGAGATTCTGAGTTAATA
TTAGAGCAATTACATTCCATTAAATTTAATTTAGTATGCTTTAGTACTAATATACCTGAC
AGTGATTCATACAATGAGCAAAGCGAAAATTTTACGGGTATCTTGAAAAACACACAGCTC
GAAAGATGTATGAGACATAAAATTATTTGGTCAAAATATAAAGACAATACTCAAATTATG
GTGTTTTCAACAATTCAATCCGTCATAAAATACATTCGTAACTTGAGAGAAAATAATACT
GCACACATCAACGCTCTTTTTACTGGATCACTTCATTTAGTTGGAGGATCATTGAAGATA
CTAAATGATATTGTACATGAACATAAAGAAAGACAAAGTCTATCATCAAGACAAGCTTTA
AGAAGATTAATGGCAGAATATAAACAACTAACACTTAATGCACCAGAAGGAATAATTGCA
GGACCTATATCAGAAGAAAACTTTTTCGAATGGGAAGCATTAATAAGCGGGCCATCAGAT
ACAATTTTTGAAGGTGGTTTATTTCCTGCTAAACTGGTCTTTCCAACTGATTATCCGCTA
AATCCTCCGAAAATGAGCTTCTTATGCGAAATGTTTCATCCAAATATATTCCCTGATGGA
CGAGTATGCATTTCAATTTTACATAGTCCCGGTGATGATCCACTCGGTTATGAGTCGTCA
TCTGAGAGATGGAGTCCTGTTCAATCTGTAGAAAAAATTCTATTATCTGTGGTTTCAATG
CTTGCTGAACCTAATAATGAGTCTCCAGCAAACGTAGATGCTAGTAAAATGTGGCGAGAA
AATAGAGAAGAGTTCAATAGAATTGCACAAAGGATATCGAATTCGGGATTGTTACAGACA
TATTTCCTCGCTCTTCAAACATTTCAATATATTCCTTCTGTTCTAAATCCTGCTGATATA
TGTACAAAGTTTAAAAAATTTGATTTTGGCGACATAAATTCACCTTGGTTTGTGGGCGCG
GAATTTTTTAAATCAAGTCAAGATGAATGGCCGAAAATTCCGGAAAAGTTGCTTAAAGAC
AATAGCAACTTGACTTATAACGTGTATCTACAGAAACTTAATTATTCCACACACGTATTA
CCACCTAAAGAATTTGATAACTGTATTGAGAAGTTGAGTGCATCAATTCAAGCATCATGG
AGTAAATTAAGACGAGCTATTGCTCGAGCATTGAAATTGTTCATGGATGGGTTTATACCA
ATAATAAAAGCAAAACAGCTACATGAAAAAAGTGCGCTAGATGAAATAAAAAATTTAAAT
CATCATTTTAAAGTTCTGTCACCATCTGACTTTGAACGGGCAGAACATTTCATATTCAGG
AAGATACAAAGAGAATCATTTCCTGAAGAATACAATGCTCTAATGAAGAATAAACAAGTG
AAGGATCGTGAATTCCAACGATTAAATGTGTTTATTGACCCACAAGGCCTAATGAGAATA
AATTCAAGAGCGAATCTTAACGATTTGAATTTCCCACAACAATTTGCACCTGTTCTCCCC
AGAAAAAGCGAGTTAGTTTCCGCTTTTCTGAGTTTTTACCACATCAAATATGATCATATC
GCATTGGAAAGTCAAATAGCAGAAATAAGAACACGATGCTGGATTCCGAAACTTAGACAA
TCATTAAAAACTGTCAAATCAAAATGCAATGAATGTAAGATTCGAGAACCAAAAATGTAT
GAGCCATCAATGGCACCTCTTCCTGTTTATCGCACTAATCCAACTCAGCAGCCATTTGAG
GTTGTTGCTTTAGATTGTTTTGGCCCATATATGGTCAAGTGCAATGGGAGATTTAAAAAG
ATATGGATCTTAATATTTACATGTACACTTACAAGATTCGTTCATCTACACATACTCGAG
TCTCTTGAATCGCTTCGAGTTTTAGAAGCAATTGTTCTTTTCTGGTCAGCTCATGGTCCA
ATCGCAAAATTCGTAAGCGACAATGGATTAAATTTCGTAGGAACTGCAAGAACATTAAGA
GAAGATTTTGAAGATGCTCAAATCTTTTTAACGAAGCAACACGAATTGTTAGCAACCAAA
ATTTCGGAAAAATATGAAATTGATTGGGAATTTATCCCGCCATACTCACCATGGATGGGT
GGAGTGTATGAGAGACTAATCAAGGAATGTAAACGAGCTCTTTATGAAATATTGAATAAG
AGAAAGATAGAGAAAATAGAATTAAATATTGCTATTGCAGAAGTAAGTCACAGATTAAAT
TTACGACCGCTTACACATAACTCTATCTCAGCTGATGATGATGTAGTGCTAACACCTCAT
CATTTGGCCAAATTTAAACCAGGATGGCCATTGCTACCTGGAATTCATAAAGGTACTTAC
GCAAAAGTGAATGATAAAGATATGTATCGTAAGGGAAGAGTTCTAGCTGATCAAATTATG
GCAAAATTTACTTCAAACTTCCTGCCTGAATACACTAGGCGATCAAAATGGTTCAAAGGC
AAACAAGATGCGAAAACAGATGATTTAGTATTAATCATTGAGCCAAATAATACAAGACAA
GAATTTAGTCGAGGCCGCATTGTCAAACTGCACAATGGCAAAGATGGACGAGGGCGCAAA
GCTGATGTGCTCTTAGCTGATGGCAGAATAAAATTATGTTCTGTCAGAAATCTTGCTAAA
CTCGACATTTCTATGTGA

>g3367.t1 Gene=g3367 Length=1285
MIKSLNNIKRPIVKLGFRSISTNTNKRTFEDAIVALNSLQTNSVALNLSIQMKRQQKHDE
ANFNLRDTEKYLERIEGFNLKQLDKLSVIHVSGSKGKGSVCTYTDAILREYNVKTGLFTS
PHLMSVTERIKLMGLSISKSMFNEYFWQVYDALQAKKSNDADLPSYFKFLQVMAFYVFVK
EKVDVAIIEVGIGGQFDSTNILRNTEIVGITALQLEHTQLLGNTLEEIAWQKAGIIKKNS
YVYAMNQPIQCINVIENRFDEIGGKRLSFIPPFDYYTFNECHIPDFSRTSEVNRSNFSLA
SQLSARWLRNRHKLSEEHFCDNLLKIIDKKFVDAYEKCHFDGRFQRIEDDGITYFLDGAH
TIDSMKICSEWFAKQINDGNREQLNVLIFNVTGDRDSELILEQLHSIKFNLVCFSTNIPD
SDSYNEQSENFTGILKNTQLERCMRHKIIWSKYKDNTQIMVFSTIQSVIKYIRNLRENNT
AHINALFTGSLHLVGGSLKILNDIVHEHKERQSLSSRQALRRLMAEYKQLTLNAPEGIIA
GPISEENFFEWEALISGPSDTIFEGGLFPAKLVFPTDYPLNPPKMSFLCEMFHPNIFPDG
RVCISILHSPGDDPLGYESSSERWSPVQSVEKILLSVVSMLAEPNNESPANVDASKMWRE
NREEFNRIAQRISNSGLLQTYFLALQTFQYIPSVLNPADICTKFKKFDFGDINSPWFVGA
EFFKSSQDEWPKIPEKLLKDNSNLTYNVYLQKLNYSTHVLPPKEFDNCIEKLSASIQASW
SKLRRAIARALKLFMDGFIPIIKAKQLHEKSALDEIKNLNHHFKVLSPSDFERAEHFIFR
KIQRESFPEEYNALMKNKQVKDREFQRLNVFIDPQGLMRINSRANLNDLNFPQQFAPVLP
RKSELVSAFLSFYHIKYDHIALESQIAEIRTRCWIPKLRQSLKTVKSKCNECKIREPKMY
EPSMAPLPVYRTNPTQQPFEVVALDCFGPYMVKCNGRFKKIWILIFTCTLTRFVHLHILE
SLESLRVLEAIVLFWSAHGPIAKFVSDNGLNFVGTARTLREDFEDAQIFLTKQHELLATK
ISEKYEIDWEFIPPYSPWMGGVYERLIKECKRALYEILNKRKIEKIELNIAIAEVSHRLN
LRPLTHNSISADDDVVLTPHHLAKFKPGWPLLPGIHKGTYAKVNDKDMYRKGRVLADQIM
AKFTSNFLPEYTRRSKWFKGKQDAKTDDLVLIIEPNNTRQEFSRGRIVKLHNGKDGRGRK
ADVLLADGRIKLCSVRNLAKLDISM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g3367.t1 CDD cd00195 UBCc 521 671 7.88724E-57
9 g3367.t1 Gene3D G3DSA:3.40.1190.10 - 37 326 2.7E-75
12 g3367.t1 Gene3D G3DSA:3.90.190.20 - 342 510 1.1E-18
10 g3367.t1 Gene3D G3DSA:3.10.110.10 Ubiquitin Conjugating Enzyme 516 677 7.9E-68
11 g3367.t1 Gene3D G3DSA:3.30.420.10 - 968 1150 2.2E-12
3 g3367.t1 PANTHER PTHR11136:SF5 FOLYLPOLYGLUTAMATE SYNTHASE, MITOCHONDRIAL 21 501 5.7E-129
4 g3367.t1 PANTHER PTHR11136 FOLYLPOLYGLUTAMATE SYNTHASE-RELATED 21 501 5.7E-129
2 g3367.t1 Pfam PF00179 Ubiquitin-conjugating enzyme 522 671 1.3E-46
1 g3367.t1 Pfam PF18701 Family of unknown function (DUF5641) 1189 1271 3.2E-13
15 g3367.t1 ProSitePatterns PS01012 Folylpolyglutamate synthase signature 2. 187 202 -
14 g3367.t1 ProSitePatterns PS00183 Ubiquitin-conjugating enzymes active site. 592 607 -
18 g3367.t1 ProSiteProfiles PS50127 Ubiquitin-conjugating enzymes family profile. 521 667 40.961
19 g3367.t1 ProSiteProfiles PS50994 Integrase catalytic domain profile. 974 1167 13.543
16 g3367.t1 SMART SM00212 ubc_7 521 678 3.4E-64
8 g3367.t1 SUPERFAMILY SSF53623 MurD-like peptide ligases, catalytic domain 61 306 3.36E-64
6 g3367.t1 SUPERFAMILY SSF53244 MurD-like peptide ligases, peptide-binding domain 342 510 1.21E-15
5 g3367.t1 SUPERFAMILY SSF54495 UBC-like 517 671 1.59E-54
7 g3367.t1 SUPERFAMILY SSF53098 Ribonuclease H-like 975 1147 9.67E-19
17 g3367.t1 TIGRFAM TIGR01499 folC: bifunctional protein FolC 68 500 1.9E-89

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:0015074 DNA integration BP
GO:0004326 tetrahydrofolylpolyglutamate synthase activity MF
GO:0009058 biosynthetic process BP
GO:0005524 ATP binding MF
GO:0016874 ligase activity MF
GO:0009396 folic acid-containing compound biosynthetic process BP
GO:0003676 nucleic acid binding 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