General information for g10044.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as F-box/WD repeat-containing protein 7.
Parent gene
- The parent gene g10044 is located on chr_1: 7020603..7021774 (+ 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_1 | g10044 | g10044.t1 | isoform | g10044.t1 | 7017750 | 7021301 |
| chr_1 | g10044 | g10044.t1 | exon | g10044.t1.exon1 | 7017750 | 7020160 |
| chr_1 | g10044 | g10044.t1 | cds | g10044.t1.CDS1 | 7017750 | 7020160 |
| chr_1 | g10044 | g10044.t1 | exon | g10044.t1.exon2 | 7020378 | 7020603 |
| chr_1 | g10044 | g10044.t1 | cds | g10044.t1.CDS2 | 7020378 | 7020603 |
| chr_1 | g10044 | g10044.t1 | exon | g10044.t1.exon3 | 7020669 | 7020879 |
| chr_1 | g10044 | g10044.t1 | cds | g10044.t1.CDS3 | 7020669 | 7020879 |
| chr_1 | g10044 | g10044.t1 | exon | g10044.t1.exon4 | 7020950 | 7021121 |
| chr_1 | g10044 | g10044.t1 | cds | g10044.t1.CDS4 | 7020950 | 7021121 |
| chr_1 | g10044 | g10044.t1 | exon | g10044.t1.exon5 | 7021190 | 7021301 |
| chr_1 | g10044 | g10044.t1 | cds | g10044.t1.CDS5 | 7021190 | 7021301 |
| chr_1 | g10044 | g10044.t1 | TTS | g10044.t1 | 7022219 | 7022219 |
| chr_1 | g10044 | g10044.t1 | TSS | g10044.t1 | NA | NA |
Sequences
>g10044.t1 Gene=g10044 Length=3132
ATGGCTGATGATGAATGTGCAATCAAAAATAAAATCACATCAGATGACACATTTTATCAT
CATCAAAGAAATATTGTAGTTGATGAGATTGTATATGATGATGAAAATACTGGAACAGAA
ATTACTATCACACAAGCTACTATCGTCGATAGTACTGGCTCAATTCAACTTGAGACACCA
ATGGAAACTAGTGTAGTGTCTCTGATAGCTGAAACTTCCAATAATATTGTTAAACCAAAA
CGCTTAAGTGATGAATTTTCATCATTGGATGAAGAAACTGACGACATTGAGGACGAAGAG
AAAATGAATGATGAGTCAACAAAGTGCGATGATGTTGCTTGTTGTAGCAAATCAAGTTCT
ATTATTGAACGTGAACAAGATGAAATGGATGAAAATTCACTTAATCCACCATTCTTAAGT
GATAAGGCCGATACATCGTCGTGCATAAGTTTGTGCTTCAGCAATAGTAGCAACAATATT
TTTGTGCAATCAATTGATGATGCAATTGAACGTGCGGATTTTGAGAATGAACAAAAGCTG
ACAGGTGGTATAATTATTCGAGCATCATCGCTGACAGGAGACGAGGATAGACTGAATTTT
GATTTGATTAATAACTCTAGAAGATCTGCAAACAATAATAATAGTAATAATAGTAGTAGG
AGTAGTAATAATAGTAATAGTGAAGATATTGGTACTAATGAAACATTGGTACAACAAAAT
CAAGATAATGACGATGAGGATGAGGATGAAGAAGAGGAAGACGAATTAGTAGATGATGAT
AATAATGAAAAAAATGAAACTTCAAACACTCATCGTAAAGAAATTACATCAACACCAACA
AGTAGCCGCTGTAATATAAATGATATGAAAAGCAAAAGTACAATTCGTTCGACATCAAGT
GCAAAGCAAAAATTATCTGATAAATATTTAAGTATAATAAAGAATGTCGCCAGTGCTTCA
TCAATGACTGATTACGATGATAATGGTGAATCTTCAAAGTCAATAAGCGTCAATAAAAGT
AGCATTAGTGGATCACAGCATTCCAGTCGTAATGTCAAAATCAGTCTATTTGACGATGAA
CCTTCGACATCATCTGGTAGTCGTAATTTGCATCATCGTCACAATCATCATTTACATGTA
AAGGACGAAGACGATCCAATTGATTGTCTGAAATTAAATGACGATTATATGGACAACAAT
ACAAACCATGATTTAAGTGACGAATTGGACCCAGAAGATACATGGGCTGATTGTGAAGAA
GGCTCCGACTGTGAAGAAATTTGCACCTGTCGAAATGACGATGAAGATGATGAGTATGGT
GTGTGCAGTAGTAGCAGTGAAGATGAACTTCCATCACGAGATGTGGATTTATCAAGTTAT
ACACAACTTGATCCAATTTCTGATGATATTCTTCAAGATGGTGGTTGCGATGGAACCCCA
AAGATTCAACGAAAACGCAAGCTCACTGAGCAATCAATGATTCATGTTACTGCCGAAAGT
CCAATTGCTCTTGGCGGCAATCGTAAGCGCCTTGCATTAGATTCAATTTCATCCCCGCAT
TCTAGCATCATTTCACCAATTGTTACAAGTCAAAATCTTGCCACACCTAAATCTTCAACA
AGTCATCTCAGTGATAAACGAACACCACGATTGATTCCAACAAAAGACAATCCACCACCT
GATTTAATGGATTGGTTGCTTACTTTCCAACGTTGGACAAATGCTGAACGTCTTGTCGCT
ATTGATAAATTGATTGAACAATGCGAACCAACTCAAGTTCGTTTTATGATGAAAGTCATC
GAACCGCAATTTCAACGTGATTTTATTTCTCTACTGCCTAAAGAACTCGCTCTTCATGTG
CTCTCATATCTAGAGCCTAAAGATTTGCTTCGTGCTGCACAAACATGCCGCAGTTGGCGT
TTTTTGGCTGATGATAATCTCTTATGGAAAGAAAAATGCAGACAATCTGGAATTATATCA
GATACATGTCCTGATAAGCCAAAACGTGGAAGAACAGGTAATATGCCCAAAATTTCATCA
CCTTGGAAGGCAGCATATATGCGACATCACACAATAGAAATGAATTGGCGTTCAAACCCA
ATTAGAACACCGAAAATTCTCAATGGTCATGATGATCATGTAATTACTTGCTTGCAATTT
AGTGGAAATCGTATTGTCTCAGGATCAGATGATAATACACTTAAAGTATGGTCAGCCGTG
ACTGGAAAGTGCCTTCGCACGTTAGTGGGTCACACAGGAGGTGTGTGGAGCTCACAAATG
TCAGGAAATCTTATAATAAGTGGTAGCACAGATCGTACGCTAAAAGTATGGGATGCTGAA
TCTGGAATTTGTAAACATACGCTTTATGGACACACTTCAACAGTTCGTTGCATGCATTTA
CATGGAAATAAAGTTGTTAGTGGTAGTCGAGACGCAACACTTCGCGTGTGGGATATTAAT
GATGGAACGTGTTTGCACATTCTTGTTGGACATTTAGCTGCGGTAAGGTGTGTGCAATAT
GATGGAAAATTAGTAGTATCAGGCGCCTATGACTATCAAGTCAAAGTATGGAATCCAGAA
AGACAAGAATGTATTCATACATTACAAGGTCATACTAATCGAGTGTATTCACTTCAGTTT
GATGGTGTCCATGTCGTATCAGGCTCACTTGATACATCGATTAGAGTTTGGGATGCAGAA
ACTGGCGCTCTGAAGCATACGCTAATGGGTCATCAATCACTTACATCGGGTATGGAGCTA
AAAAATAATATATTAGTTAGTGGAAATGCTGATTCAACTGTCAAAGTTTGGGATATCATA
ACAGGACAATGCTTAGCCACACTTGCTGGTCGCAATAAACATCATTCTGCTGTAACGTGT
CTTCAATTTAATAATCGCTTTGTCATTACAAGCTCAGATGATGGAACAGTTAAATTATGG
GATGTCAAAACTGGTGAATTTATTCGAAACCTTGTCGCTTTAGATAGTGGAGGTTCAGGG
GGAGTTGTCTGGCGCATACGAGCAAACGATACAAAATTAATATGTGCTGTCGGCTCACGC
AATGGAACAGAAGAAACTAAATTAATGGTCCTAGATTTTGACATCGAAGGAGCTTGTTCA
AAATGCTCATAG
>g10044.t1 Gene=g10044 Length=1043
MADDECAIKNKITSDDTFYHHQRNIVVDEIVYDDENTGTEITITQATIVDSTGSIQLETP
METSVVSLIAETSNNIVKPKRLSDEFSSLDEETDDIEDEEKMNDESTKCDDVACCSKSSS
IIEREQDEMDENSLNPPFLSDKADTSSCISLCFSNSSNNIFVQSIDDAIERADFENEQKL
TGGIIIRASSLTGDEDRLNFDLINNSRRSANNNNSNNSSRSSNNSNSEDIGTNETLVQQN
QDNDDEDEDEEEEDELVDDDNNEKNETSNTHRKEITSTPTSSRCNINDMKSKSTIRSTSS
AKQKLSDKYLSIIKNVASASSMTDYDDNGESSKSISVNKSSISGSQHSSRNVKISLFDDE
PSTSSGSRNLHHRHNHHLHVKDEDDPIDCLKLNDDYMDNNTNHDLSDELDPEDTWADCEE
GSDCEEICTCRNDDEDDEYGVCSSSSEDELPSRDVDLSSYTQLDPISDDILQDGGCDGTP
KIQRKRKLTEQSMIHVTAESPIALGGNRKRLALDSISSPHSSIISPIVTSQNLATPKSST
SHLSDKRTPRLIPTKDNPPPDLMDWLLTFQRWTNAERLVAIDKLIEQCEPTQVRFMMKVI
EPQFQRDFISLLPKELALHVLSYLEPKDLLRAAQTCRSWRFLADDNLLWKEKCRQSGIIS
DTCPDKPKRGRTGNMPKISSPWKAAYMRHHTIEMNWRSNPIRTPKILNGHDDHVITCLQF
SGNRIVSGSDDNTLKVWSAVTGKCLRTLVGHTGGVWSSQMSGNLIISGSTDRTLKVWDAE
SGICKHTLYGHTSTVRCMHLHGNKVVSGSRDATLRVWDINDGTCLHILVGHLAAVRCVQY
DGKLVVSGAYDYQVKVWNPERQECIHTLQGHTNRVYSLQFDGVHVVSGSLDTSIRVWDAE
TGALKHTLMGHQSLTSGMELKNNILVSGNADSTVKVWDIITGQCLATLAGRNKHHSAVTC
LQFNNRFVITSSDDGTVKLWDVKTGEFIRNLVALDSGGSGGVVWRIRANDTKLICAVGSR
NGTEETKLMVLDFDIEGACSKCS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g10044.t1 | CDD | cd00200 | WD40 | 705 | 981 | 9.63883E-83 |
| 16 | g10044.t1 | Gene3D | G3DSA:1.20.1280.50 | - | 591 | 698 | 1.8E-30 |
| 15 | g10044.t1 | Gene3D | G3DSA:2.130.10.10 | - | 700 | 1038 | 2.1E-121 |
| 34 | g10044.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 209 | 304 | - |
| 35 | g10044.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 209 | 239 | - |
| 32 | g10044.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 240 | 261 | - |
| 33 | g10044.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 272 | 304 | - |
| 8 | g10044.t1 | PANTHER | PTHR19849 | PHOSPHOLIPASE A-2-ACTIVATING PROTEIN | 561 | 1035 | 3.6E-228 |
| 9 | g10044.t1 | PANTHER | PTHR19849:SF1 | F-BOX/WD REPEAT-CONTAINING PROTEIN 7 | 561 | 1035 | 3.6E-228 |
| 11 | g10044.t1 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 805 | 819 | 1.2E-8 |
| 12 | g10044.t1 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 925 | 939 | 1.2E-8 |
| 10 | g10044.t1 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 968 | 982 | 1.2E-8 |
| 1 | g10044.t1 | Pfam | PF12937 | F-box-like | 610 | 654 | 4.2E-14 |
| 4 | g10044.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 705 | 738 | 5.5E-6 |
| 3 | g10044.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 742 | 778 | 1.2E-5 |
| 6 | g10044.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 784 | 818 | 6.4E-5 |
| 2 | g10044.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 822 | 858 | 4.4E-6 |
| 5 | g10044.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 863 | 898 | 1.3E-6 |
| 7 | g10044.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 942 | 981 | 1.9E-6 |
| 30 | g10044.t1 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 765 | 779 | - |
| 29 | g10044.t1 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 805 | 819 | - |
| 28 | g10044.t1 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 885 | 899 | - |
| 31 | g10044.t1 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 925 | 939 | - |
| 27 | g10044.t1 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 968 | 982 | - |
| 44 | g10044.t1 | ProSiteProfiles | PS50181 | F-box domain profile. | 606 | 652 | 13.975 |
| 36 | g10044.t1 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 707 | 990 | 64.593 |
| 38 | g10044.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 707 | 747 | 10.341 |
| 39 | g10044.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 748 | 787 | 12.146 |
| 37 | g10044.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 788 | 827 | 13.349 |
| 41 | g10044.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 828 | 867 | 11.244 |
| 43 | g10044.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 868 | 907 | 13.817 |
| 42 | g10044.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 908 | 947 | 12.346 |
| 40 | g10044.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 951 | 990 | 14.051 |
| 26 | g10044.t1 | SMART | SM00256 | fbox_2 | 612 | 652 | 1.6E-11 |
| 20 | g10044.t1 | SMART | SM00320 | WD40_4 | 700 | 738 | 1.5E-5 |
| 25 | g10044.t1 | SMART | SM00320 | WD40_4 | 741 | 778 | 1.3E-8 |
| 24 | g10044.t1 | SMART | SM00320 | WD40_4 | 781 | 818 | 1.4E-7 |
| 19 | g10044.t1 | SMART | SM00320 | WD40_4 | 821 | 858 | 3.6E-5 |
| 18 | g10044.t1 | SMART | SM00320 | WD40_4 | 861 | 898 | 2.4E-8 |
| 22 | g10044.t1 | SMART | SM00320 | WD40_4 | 901 | 938 | 0.029 |
| 21 | g10044.t1 | SMART | SM00320 | WD40_4 | 941 | 981 | 3.1E-7 |
| 23 | g10044.t1 | SMART | SM00320 | WD40_4 | 984 | 1032 | 330.0 |
| 14 | g10044.t1 | SUPERFAMILY | SSF81383 | F-box domain | 592 | 694 | 4.32E-26 |
| 13 | g10044.t1 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 696 | 1023 | 1.74E-93 |
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:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K10260 (F-box and WD-40 domain protein 7)
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.
