Gene loci information

Transcript annotation

  • This transcript has been annotated as AFG3-like protein 2.

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 g6701 g6701.t8 TSS g6701.t8 18110476 18110476
chr_2 g6701 g6701.t8 isoform g6701.t8 18110551 18113220
chr_2 g6701 g6701.t8 exon g6701.t8.exon1 18110551 18110646
chr_2 g6701 g6701.t8 exon g6701.t8.exon2 18110719 18111816
chr_2 g6701 g6701.t8 cds g6701.t8.CDS1 18111720 18111816
chr_2 g6701 g6701.t8 exon g6701.t8.exon3 18111881 18113220
chr_2 g6701 g6701.t8 cds g6701.t8.CDS2 18111881 18113220
chr_2 g6701 g6701.t8 TTS g6701.t8 18113191 18113191

Sequences

>g6701.t8 Gene=g6701 Length=2534
ATGGCTTATAGATTAATAACAACAACTTGTAATAAACAATTGGAAAGAACTCTTCTAAGT
TCTATTAAAAGTCGCCATTTATCAGTTAATTTGAAATCAAAACATGATTTAGCATTTATA
ACAAGAAATAGTGACAAACCTTCTATTCTTGAAATATTTTTAAATGAATTGAGAATATTA
ACATCAAGCGATGGTCCAAAAGATAAATTCTTCAAACCTCCAAAATCAACATCAAATTCA
CAGCCATCATCGTCTGAATCAAACGAAAATCCGCCACAAAAACCCACTAAACCTTCAACT
TCTTCAACAAACAATAGCAATAATAAATCACCACCTGATTGGAATTTAGGAATGTTTTCT
CCTAATCCATCTGCAGGTCCTAAAAATAATAGCGGCAGTTCTCAAGGAAGGCCTATCGGA
GGTGGTGATCCTAATCCAGAACAAAATAAAATGCTATTCTATGGTGCACTTGGATTTGCT
GCAGTAATTATTGCATTGACATACTTTGAAATGGGTTATAAGGAAATTTCATGGAGAGAT
TTCATAAATAAGTAAATTTTCTCTTTTCCCATATCCTTAAAAACTTTAGCATGTTTTATT
TTTTCAGTTATCTAGGTCGTGGTGTTGTAGAGCGATTAGAAGTCATCAACAAAAAATGGG
TTCGAGTTAAATTAATGCCTGGAAATGTTAGTGATGGTGTATTATGGTTTAATATTGGTA
GCGTGGATTCTTTCGAACGAAATTTAGAGAATGCACAAGCTGATCTCAATATAGAACCGG
CAAATTATATTCCAGTTATATATAAATCTGAAATTGAAGCCGCTAATTTAACAGGGCTTT
TGCCGACTCTTCTCATTATTGGTTTCTTAATATATATGATGCGTCGTTCCGCTGATATGA
TGGGTGGAGGAAGAGGCAGAAAAGGAGGTGGTCTTTTCGGCGGAGTAATGCAATCAACTG
CAAGATTAATTAATCCTAATGAAATCGGAGTCAAATTTACGTAAGTATTTCTTAAAGAAA
ATCTATAATAGAATATCTAATTTCTTAATTATTATTTCAGTGATGTTGCTGGATGTGAAG
AAGCTAAGATTGAGATCATGGAATTTGTAAATTTTTTGAAAAATCCTCAACAATACATTG
ACTTGGGTGCAAAAATTCCAAAAGGTGCTTTGTTAACCGGACCACCTGGCACAGGTAAAA
CTTTGTTGGCAAAAGCAACTGCAGGCGAGGCAAATGTTCCATTCATCACTGTTTCTGGTA
GTGAATTTTTAGAAATGTTTGTCGGTGTCGGTCCATCACGAGTTCGTGATATGTTTGCTA
TGGCACGAAAGCAAGCTCCATGTATACTTTTTATTGATGAGATTGATGCAGTTGGTAGAA
AGCGTGGTGGCAAATCATTCGGAGGTCACTCAGAACAAGAAAACACGTTAAATCAGCTTT
TAGTAGAGATGGATGGATTTAATACAACAACAAATGTCGTTGTTTTAGCTGCTACAAATC
GCTTAGACATATTAGATAAGGCATTGCTTAGACCAGGCAGATTCGATCGTCAAATATTTG
TTCCTGCGCCTGATATCAAAGGTCGTGCATCAATTTTCAAAGTACATTTGGCTAATCTTA
AAACAGATTTAGATAAAGTTGAACTTGCACGAAAAATGGCTGCATTAACTCCTGGTTTCA
CTGGTGCTGATATTGCTAATGTTTGTAATGAGGCAGCTTTGATCGCTGCACGCGATTTGA
ATACATCTATCGTTCTAAAGCACTTTGAACAAGCTATTGAACGAGTTATTGCTGGCATGG
AGAAAAAAACAAATGTTCTTGCTCCCGACGAAAAGAGAACTGTAGCATTTCACGAGTCAG
GTCATGCTGTATGTGGTTGGTTTCTTGAACATTCTGATCCGTTACTTAAAGTTTCTATTA
TTCCACGTGGAAAAGGTCTTGGGTATGCACAATATCTTCCAAAGGATCAATATCTATTGT
CCAAAGAGCAGCTCTACGATAGAATGTGTATGACACTTGGTGGACGCGTTGCAGAAGAAA
TATTTTTTGGAAGAATCACTACAGGAGCTCAGGATGATTTGAAAAAAGTTACCGAAAGTG
CATACTCACAAATTGTGAGATTTGGTATGAATGAGAAAGTAGGAAAAGTAAGTTTTGACA
TGTCGCAACCTGGTGATCCTATGTTTAGTAAGCCTTATTCTGAACAAACGGCACAACTTA
TTGACGAAGAAGCTCGTGCAATGATAAATGAGGCTCATAAAAGAACAACAGAGTTATTAT
TGAAACATAAAGATGATGTTCAAAAGGTAGCAGAGCGTTTATTGAAAAATGAAGTTCTCA
GTCGTGATGATATGATAGAATTACTTGGCAAACGACCATTTGCTGAAAAATCAACATATG
AGGAGTTTGTAGAAGGTACTGGTTCATTTGAAGAAGATACAGCACTTCCATCGGGACTTT
CAAGTTGGAATAAAGAGAGAGAGAAAAAAGAAGAAAGTGAAAATGAAAAAAAAGATGAAA
AACAAGAGAAATGA

>g6701.t8 Gene=g6701 Length=478
MEFVNFLKNPQQYIDLGAKIPKGALLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM
FVGVGPSRVRDMFAMARKQAPCILFIDEIDAVGRKRGGKSFGGHSEQENTLNQLLVEMDG
FNTTTNVVVLAATNRLDILDKALLRPGRFDRQIFVPAPDIKGRASIFKVHLANLKTDLDK
VELARKMAALTPGFTGADIANVCNEAALIAARDLNTSIVLKHFEQAIERVIAGMEKKTNV
LAPDEKRTVAFHESGHAVCGWFLEHSDPLLKVSIIPRGKGLGYAQYLPKDQYLLSKEQLY
DRMCMTLGGRVAEEIFFGRITTGAQDDLKKVTESAYSQIVRFGMNEKVGKVSFDMSQPGD
PMFSKPYSEQTAQLIDEEARAMINEAHKRTTELLLKHKDDVQKVAERLLKNEVLSRDDMI
ELLGKRPFAEKSTYEEFVEGTGSFEEDTALPSGLSSWNKEREKKEESENEKKDEKQEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g6701.t8 CDD cd00009 AAA 21 156 9.06348E-28
11 g6701.t8 Coils Coil Coil 454 478 -
8 g6701.t8 Gene3D G3DSA:3.40.50.300 - 1 157 1.4E-59
9 g6701.t8 Gene3D G3DSA:1.10.8.60 - 158 234 1.9E-27
10 g6701.t8 Gene3D G3DSA:1.20.58.760 - 235 433 4.3E-68
16 g6701.t8 MobiDBLite mobidb-lite consensus disorder prediction 439 478 -
15 g6701.t8 MobiDBLite mobidb-lite consensus disorder prediction 457 478 -
4 g6701.t8 PANTHER PTHR43655 ATP-DEPENDENT PROTEASE 1 473 3.7E-270
5 g6701.t8 PANTHER PTHR43655:SF7 AFG3-LIKE PROTEIN 1 1 473 3.7E-270
1 g6701.t8 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 25 156 1.3E-43
2 g6701.t8 Pfam PF17862 AAA+ lid domain 187 224 4.7E-13
3 g6701.t8 Pfam PF01434 Peptidase family M41 240 421 1.8E-65
13 g6701.t8 ProSitePatterns PS00674 AAA-protein family signature. 127 145 -
14 g6701.t8 SMART SM00382 AAA_5 20 159 2.7E-23
7 g6701.t8 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 5 250 2.79E-63
6 g6701.t8 SUPERFAMILY SSF140990 FtsH protease domain-like 240 431 1.05E-66
17 g6701.t8 TIGRFAM TIGR01241 FtsH_fam: ATP-dependent metallopeptidase HflB 1 423 1.6E-187

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:0016020 membrane CC
GO:0006508 proteolysis BP
GO:0005524 ATP binding MF
GO:0004222 metalloendopeptidase activity MF
GO:0004176 ATP-dependent peptidase activity MF
GO:0016887 ATP hydrolysis activity MF

KEGG

Orthology

Pathway

This gene does not belong to any 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