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.t9 TSS g6701.t9 18110476 18110476
chr_2 g6701 g6701.t9 isoform g6701.t9 18110551 18113220
chr_2 g6701 g6701.t9 exon g6701.t9.exon1 18110551 18111173
chr_2 g6701 g6701.t9 exon g6701.t9.exon2 18111230 18111622
chr_2 g6701 g6701.t9 exon g6701.t9.exon3 18111683 18111802
chr_2 g6701 g6701.t9 exon g6701.t9.exon4 18111881 18113220
chr_2 g6701 g6701.t9 cds g6701.t9.CDS1 18111961 18113220
chr_2 g6701 g6701.t9 TTS g6701.t9 18113191 18113191

Sequences

>g6701.t9 Gene=g6701 Length=2476
ATGGCTTATAGATTAATAACAACAACTTGTAATAAACAATTGGAAAGAACTCTTCTAAGT
TCTATTAAAAGTCGCCATTTATCAGTTAATTTGAAAGTAAGGTTTTAATAATTAGAGCAA
AAGTTTTTAGTAAAATTTCACAATCATTTCATTTTTTTACTACTGTAGTCAAAACATGAT
TTAGCATTTATAACAAGAAATAGTGACAAACCTTCTATTCTTGAAATATTTTTAAATGAA
TTGAGAATATTAACATCAAGCGATGGTCCAAAAGATAAATTCTTCAAACCTCCAAAATCA
ACATCAAATTCACAGCCATCATCGTCTGAATCAAACGAAAATCCGCCACAAAAACCCACT
AAACCTTCAACTTCTTCAACAAACAATAGCAATAATAAATCACCACCTGATTGGAATTTA
GGAATGTTTTCTCCTAATCCATCTGCAGGTCCTAAAAATAATAGCGGCAGTTCTCAAGGA
AGGCCTATCGGAGGTGGTGATCCTAATCCAGAACAAAATAAAATGCTATTCTATGGTGCA
CTTGGATTTGCTGCAGTAATTATTGCATTGACATACTTTGAAATGGGTTATAAGGAAATT
TCATGGAGAGATTTCATAAATAATTATCTAGGTCGTGGTGTTGTAGAGCGATTAGAAGTC
ATCAACAAAAAATGGGTTCGAGTTAAATTAATGCCTGGAAATGTTAGTGATGGTGTATTA
TGGTTTAATATTGGTAGCGTGGATTCTTTCGAACGAAATTTAGAGAATGCACAAGCTGAT
CTCAATATAGAACCGGCAAATTATATTCCAGTTATATATAAATCTGAAATTGAAGCCGCT
AATTTAACAGGGCTTTTGCCGACTCTTCTCATTATTGGTTTCTTAATATATATGATGCGT
CGTTCCGCTGATATGATGGGTGGAGGAAGAGGCAGAAAAGGAGGTGGTCTTTTCGGCGGA
GTAATGCAATCAACTGCAAGATTAATTAATCCTAATGAAATCGGAGTCAAATTTACTGAT
GTTGCTGGATGTGAAGAAGCTAAGATTGAGATCATGGAATTTGTAAATTTTTTGAAAAAT
CCTCAACAATACATTGACTTGGGTGCAAAAATTCCAAAAGGTGCTTTGTTAACCGGGTAA
AACTTTGTTGGCAAAAGCAACTGCAGGCGAGGCAAATGTTCCATTCATCACTGTTTCTGG
TAGTGAATTTTTAGAAATGTTTGTCGGTGTCGGTCCATCACGAGTTCGTGATATGTTTGC
TATGGCACGAAAGCAAGCTCCATGTATACTTTTTATTGATGAGATTGATGCAGTTGGTAG
AAAGCGTGGTGGCAAATCATTCGGAGGTCACTCAGAACAAGAAAACACGTTAAATCAGCT
TTTAGTAGAGATGGATGGATTTAATACAACAACAAATGTCGTTGTTTTAGCTGCTACAAA
TCGCTTAGACATATTAGATAAGGCATTGCTTAGACCAGGCAGATTCGATCGTCAAATATT
TGTTCCTGCGCCTGATATCAAAGGTCGTGCATCAATTTTCAAAGTACATTTGGCTAATCT
TAAAACAGATTTAGATAAAGTTGAACTTGCACGAAAAATGGCTGCATTAACTCCTGGTTT
CACTGGTGCTGATATTGCTAATGTTTGTAATGAGGCAGCTTTGATCGCTGCACGCGATTT
GAATACATCTATCGTTCTAAAGCACTTTGAACAAGCTATTGAACGAGTTATTGCTGGCAT
GGAGAAAAAAACAAATGTTCTTGCTCCCGACGAAAAGAGAACTGTAGCATTTCACGAGTC
AGGTCATGCTGTATGTGGTTGGTTTCTTGAACATTCTGATCCGTTACTTAAAGTTTCTAT
TATTCCACGTGGAAAAGGTCTTGGGTATGCACAATATCTTCCAAAGGATCAATATCTATT
GTCCAAAGAGCAGCTCTACGATAGAATGTGTATGACACTTGGTGGACGCGTTGCAGAAGA
AATATTTTTTGGAAGAATCACTACAGGAGCTCAGGATGATTTGAAAAAAGTTACCGAAAG
TGCATACTCACAAATTGTGAGATTTGGTATGAATGAGAAAGTAGGAAAAGTAAGTTTTGA
CATGTCGCAACCTGGTGATCCTATGTTTAGTAAGCCTTATTCTGAACAAACGGCACAACT
TATTGACGAAGAAGCTCGTGCAATGATAAATGAGGCTCATAAAAGAACAACAGAGTTATT
ATTGAAACATAAAGATGATGTTCAAAAGGTAGCAGAGCGTTTATTGAAAAATGAAGTTCT
CAGTCGTGATGATATGATAGAATTACTTGGCAAACGACCATTTGCTGAAAAATCAACATA
TGAGGAGTTTGTAGAAGGTACTGGTTCATTTGAAGAAGATACAGCACTTCCATCGGGACT
TTCAAGTTGGAATAAAGAGAGAGAGAAAAAAGAAGAAAGTGAAAATGAAAAAAAAGATGA
AAAACAAGAGAAATGA

>g6701.t9 Gene=g6701 Length=419
MFVGVGPSRVRDMFAMARKQAPCILFIDEIDAVGRKRGGKSFGGHSEQENTLNQLLVEMD
GFNTTTNVVVLAATNRLDILDKALLRPGRFDRQIFVPAPDIKGRASIFKVHLANLKTDLD
KVELARKMAALTPGFTGADIANVCNEAALIAARDLNTSIVLKHFEQAIERVIAGMEKKTN
VLAPDEKRTVAFHESGHAVCGWFLEHSDPLLKVSIIPRGKGLGYAQYLPKDQYLLSKEQL
YDRMCMTLGGRVAEEIFFGRITTGAQDDLKKVTESAYSQIVRFGMNEKVGKVSFDMSQPG
DPMFSKPYSEQTAQLIDEEARAMINEAHKRTTELLLKHKDDVQKVAERLLKNEVLSRDDM
IELLGKRPFAEKSTYEEFVEGTGSFEEDTALPSGLSSWNKEREKKEESENEKKDEKQEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g6701.t9 CDD cd00009 AAA 5 97 1.79846E-12
11 g6701.t9 Coils Coil Coil 395 419 -
8 g6701.t9 Gene3D G3DSA:3.40.50.300 - 1 98 3.2E-33
9 g6701.t9 Gene3D G3DSA:1.10.8.60 - 99 175 1.6E-27
10 g6701.t9 Gene3D G3DSA:1.20.58.760 - 176 374 3.2E-68
14 g6701.t9 MobiDBLite mobidb-lite consensus disorder prediction 380 419 -
15 g6701.t9 MobiDBLite mobidb-lite consensus disorder prediction 398 419 -
4 g6701.t9 PANTHER PTHR43655 ATP-DEPENDENT PROTEASE 1 414 2.1E-227
5 g6701.t9 PANTHER PTHR43655:SF7 AFG3-LIKE PROTEIN 1 1 414 2.1E-227
1 g6701.t9 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 2 97 4.7E-26
2 g6701.t9 Pfam PF17862 AAA+ lid domain 128 165 3.9E-13
3 g6701.t9 Pfam PF01434 Peptidase family M41 181 362 1.3E-65
13 g6701.t9 ProSitePatterns PS00674 AAA-protein family signature. 68 86 -
7 g6701.t9 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 2 191 4.25E-40
6 g6701.t9 SUPERFAMILY SSF140990 FtsH protease domain-like 181 372 7.72E-67
16 g6701.t9 TIGRFAM TIGR01241 FtsH_fam: ATP-dependent metallopeptidase HflB 1 364 8.6E-151

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

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