General information for g1950.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Unconventional myosin-Ib.
Parent gene
- The parent gene g1950 is located on chr_3: 14023516..14030145 (- 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_3 | g1950 | g1950.t2 | TTS | g1950.t2 | 14022700 | 14022700 |
| chr_3 | g1950 | g1950.t2 | isoform | g1950.t2 | 14023516 | 14030145 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon1 | 14023516 | 14023642 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS1 | 14023516 | 14023642 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon2 | 14023706 | 14023833 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS2 | 14023706 | 14023833 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon3 | 14024062 | 14024214 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS3 | 14024062 | 14024214 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon4 | 14024270 | 14024405 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS4 | 14024270 | 14024405 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon5 | 14024463 | 14024569 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS5 | 14024463 | 14024569 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon6 | 14024647 | 14024871 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS6 | 14024647 | 14024871 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon7 | 14024998 | 14025054 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS7 | 14024998 | 14025054 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon8 | 14025148 | 14025517 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS8 | 14025148 | 14025517 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon9 | 14025608 | 14025794 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS9 | 14025608 | 14025794 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon10 | 14025861 | 14025997 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS10 | 14025861 | 14025997 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon11 | 14026058 | 14026194 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS11 | 14026058 | 14026194 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon12 | 14026264 | 14026500 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS12 | 14026264 | 14026500 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon13 | 14026552 | 14026757 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS13 | 14026552 | 14026757 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon14 | 14026814 | 14027056 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS14 | 14026814 | 14027056 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon15 | 14027212 | 14027296 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS15 | 14027212 | 14027296 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon16 | 14027523 | 14027536 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS16 | 14027523 | 14027536 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon17 | 14027635 | 14027698 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS17 | 14027635 | 14027698 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon18 | 14027807 | 14028872 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS18 | 14027807 | 14028872 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon19 | 14029113 | 14029231 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS19 | 14029113 | 14029231 |
| chr_3 | g1950 | g1950.t2 | exon | g1950.t2.exon20 | 14030041 | 14030145 |
| chr_3 | g1950 | g1950.t2 | cds | g1950.t2.CDS20 | 14030041 | 14030145 |
| chr_3 | g1950 | g1950.t2 | TSS | g1950.t2 | 14030432 | 14030432 |
Sequences
>g1950.t2 Gene=g1950 Length=3903
ATGGATCAAAATGTTGGCTGTTGGGATTCAGTTTTGCTTGAAAACGAGTCAGAAAATTGT
TTCATTTCAAATTTGCACCAGCGATATAAGCGAGATTTTATATATACTTTTTTAGGATCG
CATATAATCTTTTTAAATCCTTATTGTAAACCATCGACAATATTTTCTTCAGATTTAATT
AGTTCGTATGCGGAAAAAAGTTTGTTTCAATTACCGCCACACATATATTCGTTGACAAAT
AATGTTTATAAATCGTTACAAGATAATAATGAAGATCAATGTATAGTGATGCTTGGTGAA
TCTTCAAGTGGAAAAACTGAAAATGCCCGCATGGTCATAAGATTTCTATCAAAAATCTCG
GGAAGATTTATACCACTTCAACGTCAGAGAAGTTCAAACTCTATTGCTAGCTATAAGAGC
TCTCCTAAATCGACGTGTTCGACACCTAAGCATAAATCTCCAACATCAACGATTCAATCA
GTATTATCGCAAGAGAAAACGAGTTGTTTTAAAAGCGAAGGAAGTGGAAATGTTCCTGGT
GTCAAAAGTAAAAAACTTTCAAGAGTTGAATTTGATTTTTCTTATCAAAAGTGCAATGAT
ATAGATGCAAAGCATGATCTCATTAAGTATTGTCCAAAACACAATTGCTGTAACGTGTCA
TCTTCATCTTCAACCGCATCAAATCCAATTGATATTCCAATACGGCGTAAAAGCACTGGA
TATCAACTCCAACAACAACATCTACATCAATATCCAAATCTTCCAGAACTCCCAGGAATC
TCAAAAAGTTTTACCATTTATGAAACAATGAATCGTGTTCAAGTCAATAATAACAACAAA
AAGGTGCCAAATTGTCTTGATCATGTTCAACAGCAGCCGCAGCCAAGTGAATCATCGCGA
CAAACTCGATGTGAAAGCCTAGATCTCATTAAAATGAGTAATCCAAATTCCTTACAAAAA
TCAGATGATGCAATGGCAGCAACAAATTTCAGCAAATTATTTGATGAATGTATACAATTG
TCAAAAAATCAAACTAATAGCAGCTATAATAGAAGCGATGAAAAACGAAATCATTATACA
CAAATTCGTGATCTATCATACGATCGAAATAAAATTAATTTGGATAATTTTAAGAGTGCC
AAACGAAAAGTGCCAATTAAGAATTCTAGAAATGTTGAACTTAGCAATTTAGAAATTCAA
ACTATGAAAGAACGAATCGCACAAGCCGAAATATTTCTCGAAGCAATGGGTAATGCTTCA
ACTTCAAAGAATCGTGATTCAAGCCGATACGGAAAATATTTTGATCTAGAAATCGATTAT
CGTGGCGATCTAATCGGAGGTCATATAATGCATTTTTTATTGGAAAAGACTCGAGTTACG
AAGCAGTTGGAACGAGAAAGAAACTTTCATATATTTTATCAACTTTTGGCCGGAGCCGAT
ATACATTTTCTAAAATCCTTGAAACTACAAAGAAATATCAACAAGTATGATATACTCAAG
GACACAAGCTCAGATGAAGATGACAAATTTCAATTTGCCTTTACTAGAAAGAGCCTAGAC
ATTCTTGGCTTTACGACTGAGGAAACAACTTCAATCTTTAAAATCATTGCAGTGATTTTA
AAATTAGGCAATTTGAATTTTATACCAATTACTAACATCGATGGAACTGAAGGTTGCGAA
ATTTCAAATGATTATGAAATTCGTGATATATCACAACTGCTTGATATCGAAGAACAAATA
CTACTTAATTGTCTTACAAAATCAGGATCATCATGGATGCAATTAGAAAATGGGTCAGAA
CTTGATGCCATTAATGCAGCACTTATTAACAAAGCTTTATGTCGTACACTTTACGGTCGA
CTTTTTACATATGTGGTTAATCGAATTAATGAATCAATGAAGATCAAAAACTTAACAAAT
CGAGGTAGAAATTTGGGTATACTAGATTTTTTTGGTTTCGAATCGCTTGAAAAAAATTCA
TTCGAGGAATTTAACATAAATTATTGCAATGAACGTATCCATCAGAGCTATATTCAAATT
GTGTTAAAAAGTCAGCAAGATTTATATATTAAAGAGGGATTAGAATGGACCAAAATTGAT
TTCTATGATAATTTAGCAGTATGCGATATGATTGATAAGCTGCCACATGGAATATTTTTG
TTGATGGAGGAGCCAAAAGTCATAAACGATGAAATTTTATTACAAAGACTAGGACAGTGT
TGGTCAGGAAATGCTAGTTTTTCCACACAAGATCATATACCACCAAAGTGTTTTCAAATA
CGTCATTTTGCTGGAGCCTTAAATTACAGTATTGAGGGATTTGTAGAAAAAAATTCAGAT
AAAATCCCTAAACATCTAAGTTCTAGTTTATTTCAAAGCAAATTATCAATAGTACAAAAT
TTATTTCCTGAAGGAAATCCAAAACGAGCTTCAAAAAAACCAACAAATTCGAGTTCTATT
TTACGTTCATCACTGCAAAATTTATTATCTCAAATTGAACTGAGAAAATGCCATTACGTA
TTCTGCGTTAAATCGAATGATAAATGTATGCCAAAAGTATTTGAAGTACCAATTGTTCAA
CATCAAGTTCGATTTATGAGTCTTATGCCAGTTGTTGCTCTCTGGAGAAACGGATTCTAT
TTCAATTTTAGTCATTTGAAATTTTTGAGTCGCTATAAGATTTTAAGTCCATTCACATGG
CCTCATTTTCATTCAAGTATTATTGTAGAATCGATTGCTCAAATTATTCGAAGTGTACCT
CTTCCAGCTGCTGAATTTGCAATTGGACTTACCAAAGTTTTCATCAGAAGTCCTCGAACG
CTTTATGAGTTAAATGAATTTCGTAATCATCGATTGAATTCTTTAGCGACACTCATTCAA
AAAGCATTTCGCCGATATTCACAAAGAAAACTTTTTCTTAGAATGAAAAGAAGTCAAATT
ATAATATCAAGTGCATGGAGAACGTGGCGAGAATGTTGGGCAATTCCAGTATCGGAAAGA
AAACATTTATGGGGTTTATATAAAGTGGCTCGCGAAGAATATCGTTTCATAAAATACCGC
AAGCAAGTTGAGTGGGCTGTCAACACAATCCAACGAAATTACATTACATGGAAACGAAGA
CAATTTCTCATGACACTTCCGATGAGATTACACGCAAATAGTCTCAGTCCAATTTCGACA
GAATGGCCAACGGGTCCTAAGTTTCTTTCCGAGTGCTCGCAATTGTTAAAGATAATTTTT
CATAGATGGAGATGCTATAAATATCGTAAAATGTTTGACCAAACAGCTAGAAATCGCATG
CGAGAAAAAGTTACAGCAAGTATTCTATTCAAGGATCGGAAAGCGTCGTATGTTAAAAGT
GTGTCGCATCCGTTTCTTGGTGATTATGTTCGTTTACGACAAAATGTTCAATGGAAAAAG
ATTTGTGTCGAGAATAATGATCAATATGTAGTGTTTGCTGATATTATTAACAAAATTGCT
CGTTCTAGTGGAAAATATGTTCCGATTCTATTGGTATTATCAACCTCTTCAATGTTACTG
TTGGATCAGCGAACTCTTCAAATTAAATATCGTGTACCAGCTTCTGAAATTTATCGCATG
TCATTGAGTCCATATTTGGATGATATTGCTGTTTTTCATGTTAAAGCGTCTGAGCTTGGC
AAAAAGAAGGGAGATTTTGTGTTTCAAACGGGACATGTGATTGAAATTGTAACAAAAATG
TTTTTAGTAATACAAAATGCAACAAGTAAACCACCTGAGATTCAAATCAATCCTGAATTT
GAAGCAAATTTTGGCAATAATGTTGTAATAATGAGCTTTAAACAGCAAATGATGACAGAT
TTAAATAATCAACAATTAACTCGTGTTTCACGAAAAGGAAATCGAATGGAAGTTATTGTC
TAG
>g1950.t2 Gene=g1950 Length=1300
MDQNVGCWDSVLLENESENCFISNLHQRYKRDFIYTFLGSHIIFLNPYCKPSTIFSSDLI
SSYAEKSLFQLPPHIYSLTNNVYKSLQDNNEDQCIVMLGESSSGKTENARMVIRFLSKIS
GRFIPLQRQRSSNSIASYKSSPKSTCSTPKHKSPTSTIQSVLSQEKTSCFKSEGSGNVPG
VKSKKLSRVEFDFSYQKCNDIDAKHDLIKYCPKHNCCNVSSSSSTASNPIDIPIRRKSTG
YQLQQQHLHQYPNLPELPGISKSFTIYETMNRVQVNNNNKKVPNCLDHVQQQPQPSESSR
QTRCESLDLIKMSNPNSLQKSDDAMAATNFSKLFDECIQLSKNQTNSSYNRSDEKRNHYT
QIRDLSYDRNKINLDNFKSAKRKVPIKNSRNVELSNLEIQTMKERIAQAEIFLEAMGNAS
TSKNRDSSRYGKYFDLEIDYRGDLIGGHIMHFLLEKTRVTKQLERERNFHIFYQLLAGAD
IHFLKSLKLQRNINKYDILKDTSSDEDDKFQFAFTRKSLDILGFTTEETTSIFKIIAVIL
KLGNLNFIPITNIDGTEGCEISNDYEIRDISQLLDIEEQILLNCLTKSGSSWMQLENGSE
LDAINAALINKALCRTLYGRLFTYVVNRINESMKIKNLTNRGRNLGILDFFGFESLEKNS
FEEFNINYCNERIHQSYIQIVLKSQQDLYIKEGLEWTKIDFYDNLAVCDMIDKLPHGIFL
LMEEPKVINDEILLQRLGQCWSGNASFSTQDHIPPKCFQIRHFAGALNYSIEGFVEKNSD
KIPKHLSSSLFQSKLSIVQNLFPEGNPKRASKKPTNSSSILRSSLQNLLSQIELRKCHYV
FCVKSNDKCMPKVFEVPIVQHQVRFMSLMPVVALWRNGFYFNFSHLKFLSRYKILSPFTW
PHFHSSIIVESIAQIIRSVPLPAAEFAIGLTKVFIRSPRTLYELNEFRNHRLNSLATLIQ
KAFRRYSQRKLFLRMKRSQIIISSAWRTWRECWAIPVSERKHLWGLYKVAREEYRFIKYR
KQVEWAVNTIQRNYITWKRRQFLMTLPMRLHANSLSPISTEWPTGPKFLSECSQLLKIIF
HRWRCYKYRKMFDQTARNRMREKVTASILFKDRKASYVKSVSHPFLGDYVRLRQNVQWKK
ICVENNDQYVVFADIINKIARSSGKYVPILLVLSTSSMLLLDQRTLQIKYRVPASEIYRM
SLSPYLDDIAVFHVKASELGKKKGDFVFQTGHVIEIVTKMFLVIQNATSKPPEIQINPEF
EANFGNNVVIMSFKQQMMTDLNNQQLTRVSRKGNRMEVIV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g1950.t2 | Gene3D | G3DSA:3.40.850.10 | Kinesin | 2 | 142 | 1.9E-32 |
| 12 | g1950.t2 | Gene3D | G3DSA:3.40.850.10 | Kinesin | 398 | 878 | 7.6E-129 |
| 11 | g1950.t2 | Gene3D | G3DSA:1.10.10.820 | - | 467 | 520 | 7.6E-129 |
| 10 | g1950.t2 | Gene3D | G3DSA:1.20.120.720 | - | 521 | 632 | 7.6E-129 |
| 14 | g1950.t2 | Gene3D | G3DSA:1.20.58.530 | - | 656 | 835 | 7.6E-129 |
| 20 | g1950.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 134 | 158 | - |
| 4 | g1950.t2 | PANTHER | PTHR13140:SF802 | MYOSIN IB | 7 | 1281 | 3.6E-281 |
| 5 | g1950.t2 | PANTHER | PTHR13140 | MYOSIN | 7 | 1281 | 3.6E-281 |
| 6 | g1950.t2 | PRINTS | PR00193 | Myosin heavy chain signature | 35 | 54 | 1.4E-13 |
| 7 | g1950.t2 | PRINTS | PR00193 | Myosin heavy chain signature | 92 | 117 | 1.4E-13 |
| 8 | g1950.t2 | PRINTS | PR00193 | Myosin heavy chain signature | 697 | 725 | 1.4E-13 |
| 1 | g1950.t2 | Pfam | PF00063 | Myosin head (motor domain) | 9 | 122 | 3.7E-30 |
| 2 | g1950.t2 | Pfam | PF00063 | Myosin head (motor domain) | 397 | 936 | 2.7E-130 |
| 3 | g1950.t2 | Pfam | PF06017 | Unconventional myosin tail, actin- and lipid-binding | 1103 | 1276 | 1.3E-35 |
| 16 | g1950.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 1162 | - |
| 17 | g1950.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 1163 | 1181 | - |
| 15 | g1950.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1182 | 1300 | - |
| 22 | g1950.t2 | ProSiteProfiles | PS51456 | Myosin motor domain profile. | 5 | 949 | 141.841 |
| 23 | g1950.t2 | ProSiteProfiles | PS50096 | IQ motif profile. | 952 | 979 | 6.705 |
| 21 | g1950.t2 | ProSiteProfiles | PS51757 | Class I myosin tail homology (TH1) domain profile. | 1114 | 1300 | 19.651 |
| 19 | g1950.t2 | SMART | SM00242 | MYSc_2a | 1 | 950 | 1.3E-151 |
| 18 | g1950.t2 | SMART | SM00015 | iq_5 | 951 | 973 | 0.0015 |
| 9 | g1950.t2 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 4 | 990 | 3.55E-189 |
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: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 K10356 (myosin I)
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.
