General information for g5541.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Myosin-VIIa.
Parent gene
- The parent gene g5541 is located on chr_2: 10186504..10188986 (+ 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_2 | g5541 | g5541.t1 | TSS | g5541.t1 | 10181827 | 10181827 |
| chr_2 | g5541 | g5541.t1 | isoform | g5541.t1 | 10182078 | 10186504 |
| chr_2 | g5541 | g5541.t1 | exon | g5541.t1.exon1 | 10182078 | 10182171 |
| chr_2 | g5541 | g5541.t1 | cds | g5541.t1.CDS1 | 10182078 | 10182171 |
| chr_2 | g5541 | g5541.t1 | exon | g5541.t1.exon2 | 10182600 | 10182787 |
| chr_2 | g5541 | g5541.t1 | cds | g5541.t1.CDS2 | 10182600 | 10182787 |
| chr_2 | g5541 | g5541.t1 | exon | g5541.t1.exon3 | 10182892 | 10183156 |
| chr_2 | g5541 | g5541.t1 | cds | g5541.t1.CDS3 | 10182892 | 10183156 |
| chr_2 | g5541 | g5541.t1 | exon | g5541.t1.exon4 | 10183219 | 10183370 |
| chr_2 | g5541 | g5541.t1 | cds | g5541.t1.CDS4 | 10183219 | 10183370 |
| chr_2 | g5541 | g5541.t1 | exon | g5541.t1.exon5 | 10183428 | 10183772 |
| chr_2 | g5541 | g5541.t1 | cds | g5541.t1.CDS5 | 10183428 | 10183772 |
| chr_2 | g5541 | g5541.t1 | exon | g5541.t1.exon6 | 10183829 | 10184056 |
| chr_2 | g5541 | g5541.t1 | cds | g5541.t1.CDS6 | 10183829 | 10184056 |
| chr_2 | g5541 | g5541.t1 | exon | g5541.t1.exon7 | 10184112 | 10184246 |
| chr_2 | g5541 | g5541.t1 | cds | g5541.t1.CDS7 | 10184112 | 10184246 |
| chr_2 | g5541 | g5541.t1 | exon | g5541.t1.exon8 | 10184309 | 10184391 |
| chr_2 | g5541 | g5541.t1 | cds | g5541.t1.CDS8 | 10184309 | 10184391 |
| chr_2 | g5541 | g5541.t1 | exon | g5541.t1.exon9 | 10184445 | 10184612 |
| chr_2 | g5541 | g5541.t1 | cds | g5541.t1.CDS9 | 10184445 | 10184612 |
| chr_2 | g5541 | g5541.t1 | exon | g5541.t1.exon10 | 10184672 | 10186005 |
| chr_2 | g5541 | g5541.t1 | cds | g5541.t1.CDS10 | 10184672 | 10186005 |
| chr_2 | g5541 | g5541.t1 | exon | g5541.t1.exon11 | 10186063 | 10186130 |
| chr_2 | g5541 | g5541.t1 | cds | g5541.t1.CDS11 | 10186063 | 10186130 |
| chr_2 | g5541 | g5541.t1 | exon | g5541.t1.exon12 | 10186191 | 10186389 |
| chr_2 | g5541 | g5541.t1 | cds | g5541.t1.CDS12 | 10186191 | 10186389 |
| chr_2 | g5541 | g5541.t1 | exon | g5541.t1.exon13 | 10186446 | 10186504 |
| chr_2 | g5541 | g5541.t1 | cds | g5541.t1.CDS13 | 10186446 | 10186504 |
| chr_2 | g5541 | g5541.t1 | TTS | g5541.t1 | 10186606 | 10186606 |
Sequences
>g5541.t1 Gene=g5541 Length=3318
ATGGCATCGAATATTGGTCTTTCGAAAGTTTTTATTTTGGATAAATATTTTAAAGAACTG
CAGAAATTTTGGCAGACTGAAAAGATGCTTCAAGATGCATCTTCGTCGAACGAGGCCGTA
CATTTGCAGCAGCGCTTAAAGAGTCTTAGCACTGAACTTGTAACTTTGCGTAATCGCCTT
CATGTCTCGGGATCGACGGGAGCTATTAATGGAGCTAATGCCAATAATCCATTGATTAAT
TGCACAAATTTTCCACATAATTTCTTGACAGGAAAAAATATGAGTTTACAAAACAATAAT
ATGAACATGTCAAATATGAATAATGCAGCAGCATCAAGCAATAATAATAATGTAAAAGGT
GTACCTATCAATAATATTAATTCTCGTAAATTAAATAATAATCATAACAACAACAACAAT
GATCATGTTGTAACAACCACTCGTAACATTTCCATTCCCTTGCCACTTCCGAAAAATCAT
AATGATGAAAATGGAGATTCTCACAATAAAAATAATCATCAACCGCAGCCACATTCTCCT
ATTAAAAATGAAAATTGTGTCACATTGAACAATATTAAAAATGGAGGACCAACACTTAAA
GTGAGCGAAACAGAAGACTTGATTCATTTAAATGGACCTTTGACTGAAGATGCAGTGATG
AAAACACTTCATGCGAGATTTTCAGAGAAAAAATTCTTTACAAATGTTGGTCCAATATTG
TTGTCTATCAATCCATATCATGATGTAGGAAATCCATTGACATTATCATCAACTCGCTCT
ATTCCAATGCCATCTCAACTCGTCAAAATTGTGCAGGAAGCTGTTAGACAGCAAGCTGAG
ACTGGCTATCCTCAAGCAATTATCCTTTCTGGTTCCTCAGGATCAGGCAAGACACATTGT
TCGATGTTACTGCTTCGACAGCTTTTTGCGGTTGCTGGTGGTGGGCCAGAAACTGATGCA
TTCAAACATCTAGCTGCAGCATTTACTGTTTTAAGATCTCTAGGCTCTGCAGCTACTGCA
ACTAATTCTGAATCAAGCCGAATTGGACAATTTATTGAAGTTCAAGTGACTGATGGTGCA
TTATATCGCACAAAGATTCATTGCTACTTTTTAGATCAAACACGTGTTATAAGACCGTTG
CCTAAAGAAAAAAATTATCACATTTTCTATCAATTGCTTGCTGGCCTCAATGATGAAGAA
CGTACTAGACTATGCTTAGATGGTTATACAGCAGCTGATTTGAATTATTTACAGACTGGA
GATAAACGACAGGATGAACAAGAAGATGCAGCAAGATTTCAAGCATGGAAAGCATGTCTT
GGTATTTTAGGTATTCCATTTTTAGATGTTGTTCGTGTTCTTGCCGCTGTTTTGCTTTTG
GGAAATATTAAATTTATTGATAATGAACGTTCTGAAGTAGAAGTTAATGGAGATACTGAA
TTGAATTCAGTTGCAAGTCTTCTTGGTGTTTCACCTCAATCTTTATTTAGAGGATTAACA
ACAAGAACTCACAATACAAATTCACATACTCGTGGAAGTCAATTAATTAAATCAGTATGT
GATGCAAATATGTCATATATTGCAAGGGATTCATTGGCAAAAGCACTTTATTGTCGTACC
GTAGCAACTATCGTTCGTCGTGCAAACAGTTTGAAAAGATTGGGTTCAGGAACATTAAGC
TCTGATTCAAATGAATCAGTTCATAATCAAGTTGAGATTAATAGCCAGCATGCATCAACA
ATTGGTGGAAATTCTGCTAAATCAATGAATCAAATGGCAGTTTTAAATAATGTTGTACGA
CATGCAACTGATGGTTTTATTGGAATTCTTGATATGTTCGGTTATGAAGAGCCCAAATTT
GCTCAACTTGAACATTTATGCATCAATCTTTGTGCCGAAACAATGCAACATTTTTATAAT
ACTCATATTTTCAAGAGTTCTATTGAATCATGTCGAGATGAAGGCATAATTTGTGAAAGT
GAAATCGATTATGTTGACAATGTTCCATGCATTGATTTAATTTCATCCTTACGTACTGGA
CTGCTTAGTTTACTCGATGCTGAATGTTCTATGCGCGGAAATGCTGAAAGTTATGTTGCA
AAAATAAAAGTTCAACATCGTTCATCACCAAGACTTCAACAAAGTCACATTGAACAATTT
GATTCAAGAATGTTTACAATTCACCATTTCTCTGGACATGTTGTCTATGATGCCAGTAAT
TTCCTTGACACAAACCGAGACATCATTAGTGACGACCTTGTTTCAGTATTTTATAAGCAC
AATTGTCAATTTGGTTTTGCGACGCACTTATTTGGTGCAGAATTACGAGCACTTTACTCG
CATGAAAATGTTCCGCGTGGCACATGGTTTAGAATAGCGCCCACATCAAGCACAGATTTA
TTAAATGATGGTGAACGTTTAGAGCCAGTCTCAACACTTACACAAGACTTTCACACACGT
TTGGATAATCTTTTGAGAACTCTTGTGATGAGTCGACCACATTTTGTAAGATGCATCAAA
AGCAATTCAAATGAAGTACCAAGCTATTTCGAACGAAATACTGTTGTGCGTCAAATTCGT
GCATTGCAAATATTGGAAACACTTAATTTAATGTCAAGTGGATTTCCACATCGAATGAGA
TTCAAACAATTTATAAGCCGATATAAAATGTTAGTTCCATCGAGATTATTGAGACGCTGT
GAAGATAACGTCATGGAAGATTGTAAATTGTTACTCAATTGTGCCATTGAACAACCATTT
GAATTGAATGTGTCTGTCATCCTATCGTGGGCTCCTGGAAAACGTCATATATTTTTAAGC
GAAGGCATGCGTCAACATTTGGAAAATCTTCGCAATCACATTCGAAACCGAAGCGCTATT
TTGATACAATCTGTATGGCGTGGTTGGCAACTTCGTAAACTCAACACAATGAAGAAAATT
AAAAAAGACTTGCTGCTTTCATCAAATAATTTGATGACGAGTTCTATTATGGGACGAGGA
CATATCAATACTACCATCAGACCACGTCCTCAACCAATTACTGGAACACCTGATTTAGAA
TCACCGCCAATGGTTCCACCTCCAAGATCTTATACAGTGTCAGGAAATTCAAAGCTTAAA
TATCCACAATTACGAATTATGAAGATGAATTTTCCTGAAAATATGCAGATGAACAATGGA
GAACAATTAAAAAAGGGAGAAGTGGTGACTGTCAAAGGTGCATCACAACGTCGTGGACAT
TTGTTGGTTGAAAGCAATGGTGTAATTTTAAACGTTCCATTTCAATTTCTTGAATTAATT
TCTCCACGAAATGATTGA
>g5541.t1 Gene=g5541 Length=1105
MASNIGLSKVFILDKYFKELQKFWQTEKMLQDASSSNEAVHLQQRLKSLSTELVTLRNRL
HVSGSTGAINGANANNPLINCTNFPHNFLTGKNMSLQNNNMNMSNMNNAAASSNNNNVKG
VPINNINSRKLNNNHNNNNNDHVVTTTRNISIPLPLPKNHNDENGDSHNKNNHQPQPHSP
IKNENCVTLNNIKNGGPTLKVSETEDLIHLNGPLTEDAVMKTLHARFSEKKFFTNVGPIL
LSINPYHDVGNPLTLSSTRSIPMPSQLVKIVQEAVRQQAETGYPQAIILSGSSGSGKTHC
SMLLLRQLFAVAGGGPETDAFKHLAAAFTVLRSLGSAATATNSESSRIGQFIEVQVTDGA
LYRTKIHCYFLDQTRVIRPLPKEKNYHIFYQLLAGLNDEERTRLCLDGYTAADLNYLQTG
DKRQDEQEDAARFQAWKACLGILGIPFLDVVRVLAAVLLLGNIKFIDNERSEVEVNGDTE
LNSVASLLGVSPQSLFRGLTTRTHNTNSHTRGSQLIKSVCDANMSYIARDSLAKALYCRT
VATIVRRANSLKRLGSGTLSSDSNESVHNQVEINSQHASTIGGNSAKSMNQMAVLNNVVR
HATDGFIGILDMFGYEEPKFAQLEHLCINLCAETMQHFYNTHIFKSSIESCRDEGIICES
EIDYVDNVPCIDLISSLRTGLLSLLDAECSMRGNAESYVAKIKVQHRSSPRLQQSHIEQF
DSRMFTIHHFSGHVVYDASNFLDTNRDIISDDLVSVFYKHNCQFGFATHLFGAELRALYS
HENVPRGTWFRIAPTSSTDLLNDGERLEPVSTLTQDFHTRLDNLLRTLVMSRPHFVRCIK
SNSNEVPSYFERNTVVRQIRALQILETLNLMSSGFPHRMRFKQFISRYKMLVPSRLLRRC
EDNVMEDCKLLLNCAIEQPFELNVSVILSWAPGKRHIFLSEGMRQHLENLRNHIRNRSAI
LIQSVWRGWQLRKLNTMKKIKKDLLLSSNNLMTSSIMGRGHINTTIRPRPQPITGTPDLE
SPPMVPPPRSYTVSGNSKLKYPQLRIMKMNFPENMQMNNGEQLKKGEVVTVKGASQRRGH
LLVESNGVILNVPFQFLELISPRND
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g5541.t1 | CDD | cd14881 | MYSc_Myo20 | 217 | 940 | 0.0 |
| 19 | g5541.t1 | Coils | Coil | Coil | 39 | 59 | - |
| 17 | g5541.t1 | Gene3D | G3DSA:3.40.850.10 | Kinesin | 205 | 869 | 3.9E-126 |
| 16 | g5541.t1 | Gene3D | G3DSA:1.10.10.820 | - | 384 | 444 | 3.9E-126 |
| 15 | g5541.t1 | Gene3D | G3DSA:1.20.120.720 | - | 445 | 796 | 3.9E-126 |
| 18 | g5541.t1 | Gene3D | G3DSA:1.20.58.530 | - | 616 | 831 | 3.9E-126 |
| 14 | g5541.t1 | Gene3D | G3DSA:3.30.70.3240 | - | 874 | 953 | 2.8E-6 |
| 4 | g5541.t1 | PANTHER | PTHR13140:SF498 | DACHS, ISOFORM E | 41 | 988 | 0.0 |
| 6 | g5541.t1 | PANTHER | PTHR13140 | MYOSIN | 41 | 988 | 0.0 |
| 5 | g5541.t1 | PANTHER | PTHR13140:SF498 | DACHS, ISOFORM E | 1018 | 1101 | 0.0 |
| 7 | g5541.t1 | PANTHER | PTHR13140 | MYOSIN | 1018 | 1101 | 0.0 |
| 12 | g5541.t1 | PRINTS | PR00193 | Myosin heavy chain signature | 233 | 252 | 3.1E-26 |
| 11 | g5541.t1 | PRINTS | PR00193 | Myosin heavy chain signature | 284 | 309 | 3.1E-26 |
| 8 | g5541.t1 | PRINTS | PR00193 | Myosin heavy chain signature | 329 | 356 | 3.1E-26 |
| 10 | g5541.t1 | PRINTS | PR00193 | Myosin heavy chain signature | 606 | 634 | 3.1E-26 |
| 9 | g5541.t1 | PRINTS | PR00193 | Myosin heavy chain signature | 660 | 688 | 3.1E-26 |
| 2 | g5541.t1 | Pfam | PF00063 | Myosin head (motor domain) | 204 | 550 | 2.8E-59 |
| 1 | g5541.t1 | Pfam | PF00063 | Myosin head (motor domain) | 600 | 913 | 6.6E-63 |
| 3 | g5541.t1 | Pfam | PF00612 | IQ calmodulin-binding motif | 957 | 973 | 1.1E-4 |
| 22 | g5541.t1 | ProSiteProfiles | PS51456 | Myosin motor domain profile. | 203 | 952 | 102.797 |
| 23 | g5541.t1 | ProSiteProfiles | PS50096 | IQ motif profile. | 955 | 983 | 7.108 |
| 21 | g5541.t1 | SMART | SM00242 | MYSc_2a | 196 | 953 | 1.1E-81 |
| 13 | g5541.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 197 | 979 | 2.53E-160 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5541/g5541.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5541.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005524 | ATP binding | MF |
| GO:0005515 | protein binding | MF |
| GO:0016459 | myosin complex | CC |
| GO:0003774 | cytoskeletal motor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K16677 (dachs)
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.
