AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene53268


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene53268.t1 MTR_3g011050 64.583 48 17 0 36 83 40 87 1.87e-13 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 57 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCCAATTTGGGAAGAAAT+TGG 0.111299 4.3:-13447370 MS.gene53268:CDS
GTGACTCTGCAATTGATTTC+TGG 0.157766 4.3:+13448499 None:intergenic
AAAGTTAGAAGAGGAGATAA+AGG 0.273945 4.3:-13447461 MS.gene53268:CDS
GACCCAATTTCTTCCCAAAT+TGG 0.274164 4.3:+13447367 None:intergenic
ATAAAGGGAAAGAAATTCTT+TGG 0.305857 4.3:-13447445 MS.gene53268:CDS
AAAGTTCCGGTTCTTGTTCA+TGG 0.322486 4.3:-13448522 MS.gene53268:CDS
AAAGATCTCAGGCTCGCTTT+TGG 0.326368 4.3:-13448410 MS.gene53268:CDS
TATAGCTTGCGCTGGGTTCA+TGG 0.334296 4.3:-13447549 MS.gene53268:intron
AATGTCCTTCCATCTCTTCA+TGG 0.338522 4.3:-13447321 MS.gene53268:CDS
ACCGGAACTTTCTTATGAAT+CGG 0.380626 4.3:+13448534 None:intergenic
TTCCAATTTGGGAAGAAATT+GGG 0.398944 4.3:-13447369 MS.gene53268:CDS
CCCGATTCATAAGAAAGTTC+CGG 0.414826 4.3:-13448535 MS.gene53268:CDS
TTATTGCCACCGTCGCATAA+AGG 0.420018 4.3:-13447230 MS.gene53268:CDS
ACCTTGATCTTGCTCTTGGA+TGG 0.423990 4.3:-13447405 MS.gene53268:CDS
TAAAGAATCATTTCATCCCT+TGG 0.429286 4.3:+13447250 None:intergenic
CCGGAACTTTCTTATGAATC+GGG 0.433313 4.3:+13448535 None:intergenic
TTCTGGCCATGAACAAGAAC+CGG 0.434336 4.3:+13448516 None:intergenic
TGGATTGCATTGATTAAGAA+AGG 0.435401 4.3:-13447529 MS.gene53268:CDS
GGCTAAGTTATCTGATGAAA+AGG 0.437582 4.3:-13448388 MS.gene53268:intron
GGGTACCTTGATCTTGCTCT+TGG 0.453072 4.3:-13447409 MS.gene53268:CDS
TCTTTGGAGGGGACACTATC+GGG 0.454808 4.3:-13447429 MS.gene53268:CDS
TAAATTATTATAGCTTGCGC+TGG 0.466026 4.3:-13447557 MS.gene53268:intron
TGATTAAGAAAGGTGATGAA+TGG 0.474122 4.3:-13447519 MS.gene53268:CDS
AAAGGAGGCAAGAGAAATCA+TGG 0.475218 4.3:-13447485 MS.gene53268:CDS
TTCTTTGGAGGGGACACTAT+CGG 0.475345 4.3:-13447430 MS.gene53268:CDS
GATTAAGAAAGGTGATGAAT+GGG 0.480475 4.3:-13447518 MS.gene53268:CDS
AAGTTAGAAGAGGAGATAAA+GGG 0.491500 4.3:-13447460 MS.gene53268:CDS
GAAAGGTGATGAATGGGAAA+AGG 0.495659 4.3:-13447512 MS.gene53268:CDS
TGAGATCTTTGATAAGGATC+AGG 0.498359 4.3:+13448423 None:intergenic
AGTTGGTCGTAGAGTTGAAT+GGG 0.508405 4.3:-13448637 MS.gene53268:CDS
CAGTTGGTCGTAGAGTTGAA+TGG 0.517051 4.3:-13448638 MS.gene53268:CDS
TGATCCTTATCAAAGATCTC+AGG 0.520135 4.3:-13448421 MS.gene53268:CDS
CGAGCCTGAGATCTTTGATA+AGG 0.520914 4.3:+13448417 None:intergenic
AAACACTCCTTGATGATGAT+AGG 0.524604 4.3:+13447277 None:intergenic
AATCATGGAAAAGTTAGAAG+AGG 0.531445 4.3:-13447470 MS.gene53268:CDS
AGGGAAAGAAATTCTTTGGA+GGG 0.536580 4.3:-13447441 MS.gene53268:CDS
ATTGATCTTCCATGAAGAGA+TGG 0.543546 4.3:+13447312 None:intergenic
TGAATGGGAAAAGGCTCTAA+AGG 0.545680 4.3:-13447503 MS.gene53268:CDS
TCCATCCAAGAGCAAGATCA+AGG 0.557485 4.3:+13447404 None:intergenic
TAAGGATCAGGAGGCAGCAA+TGG 0.562517 4.3:+13448435 None:intergenic
CAAGGAGTGTTTGCCACCAA+GGG 0.564625 4.3:-13447266 MS.gene53268:CDS
TGAATGGGCTCTAAAACTCA+AGG 0.568264 4.3:-13448622 MS.gene53268:CDS
TCAAGGAGTGTTTGCCACCA+AGG 0.571195 4.3:-13447267 MS.gene53268:CDS
ACTCCTTGATGATGATAGGA+TGG 0.572678 4.3:+13447281 None:intergenic
TTGAATACATTGATGAAACA+TGG 0.575829 4.3:-13448467 MS.gene53268:CDS
AAGGGAAAGAAATTCTTTGG+AGG 0.576725 4.3:-13447442 MS.gene53268:CDS
GAGCCATCCTATCATCATCA+AGG 0.581782 4.3:-13447284 MS.gene53268:CDS
AAATTATTATAGCTTGCGCT+GGG 0.589664 4.3:-13447556 MS.gene53268:intron
AAGAATACTCCTTTATGCGA+CGG 0.595491 4.3:+13447221 None:intergenic
GGGAAAGAAATTCTTTGGAG+GGG 0.609810 4.3:-13447440 MS.gene53268:CDS
ATCTTCCATGAAGAGATGGA+AGG 0.621011 4.3:+13447316 None:intergenic
AGAATCATTTCATCCCTTGG+TGG 0.643379 4.3:+13447253 None:intergenic
GAATGGGCTCTAAAACTCAA+GGG 0.646090 4.3:-13448621 MS.gene53268:CDS
GATCTTTGATAAGGATCAGG+AGG 0.658191 4.3:+13448426 None:intergenic
ATGGGAAAAGGCTCTAAAGG+AGG 0.677413 4.3:-13447500 MS.gene53268:CDS
AATACTCCTTTATGCGACGG+TGG 0.688837 4.3:+13447224 None:intergenic
GAGTATTCTTCAACTCATCG+TGG 0.696267 4.3:-13447208 MS.gene53268:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TCAATATAAAACTATTTTAA+AGG + chr4.3:13448060-13448079 None:intergenic 10.0%
!! TAATTTACACATACAAAAAT+AGG + chr4.3:13448269-13448288 None:intergenic 15.0%
!!! AATAATTGTTTTATGAACTT+AGG - chr4.3:13447667-13447686 MS.gene53268:intron 15.0%
!! TATCTCTTGAATTTATTAGA+TGG + chr4.3:13447851-13447870 None:intergenic 20.0%
!! TATGTTGTTCAAATTTAACT+AGG - chr4.3:13447497-13447516 MS.gene53268:CDS 20.0%
!!! AAAATTATGTTTCCTTTTTG+AGG - chr4.3:13447566-13447585 MS.gene53268:intron 20.0%
! AAAATATTCTTGCCTCAAAA+AGG + chr4.3:13447581-13447600 None:intergenic 25.0%
! AAATACTACGTTTCTTTCAA+AGG - chr4.3:13447537-13447556 MS.gene53268:CDS 25.0%
! ATAAAGGGAAAGAAATTCTT+TGG - chr4.3:13448394-13448413 MS.gene53268:CDS 25.0%
! ATTACTTGAGTACAATTGTT+TGG - chr4.3:13447722-13447741 MS.gene53268:intron 25.0%
! TTGAATACATTGATGAAACA+TGG - chr4.3:13447372-13447391 MS.gene53268:CDS 25.0%
!!! TTGAGGCAAGAATATTTTTT+TGG - chr4.3:13447583-13447602 MS.gene53268:intron 25.0%
!!! TTTTTTTGGTGTTAATCATC+CGG - chr4.3:13447597-13447616 MS.gene53268:intron 25.0%
AAAGTTAGAAGAGGAGATAA+AGG - chr4.3:13448378-13448397 MS.gene53268:intron 30.0%
AAGTTAGAAGAGGAGATAAA+GGG - chr4.3:13448379-13448398 MS.gene53268:intron 30.0%
AATCATGGAAAAGTTAGAAG+AGG - chr4.3:13448369-13448388 MS.gene53268:intron 30.0%
ACCGTTTCTATCAACATATT+AGG + chr4.3:13448119-13448138 None:intergenic 30.0%
ATTTAACTAGGCTTATTCTG+AGG - chr4.3:13447509-13447528 MS.gene53268:CDS 30.0%
CATGATCAATATGTGTTTAG+TGG - chr4.3:13447694-13447713 MS.gene53268:intron 30.0%
GATGTTAATTATTCCATTCC+AGG - chr4.3:13447940-13447959 MS.gene53268:intron 30.0%
GATTAAGAAAGGTGATGAAT+GGG - chr4.3:13448321-13448340 MS.gene53268:intron 30.0%
TAAAGAATCATTTCATCCCT+TGG + chr4.3:13448592-13448611 None:intergenic 30.0%
TGATTAAGAAAGGTGATGAA+TGG - chr4.3:13448320-13448339 MS.gene53268:intron 30.0%
TGTTAATCATCCGGTTAATA+GGG - chr4.3:13447606-13447625 MS.gene53268:intron 30.0%
TTCCAATTTGGGAAGAAATT+GGG - chr4.3:13448470-13448489 MS.gene53268:CDS 30.0%
! AAATTATTATAGCTTGCGCT+GGG - chr4.3:13448283-13448302 MS.gene53268:intron 30.0%
! GCCTAATATGTTGATAGAAA+CGG - chr4.3:13448115-13448134 MS.gene53268:intron 30.0%
! TAAATTATTATAGCTTGCGC+TGG - chr4.3:13448282-13448301 MS.gene53268:intron 30.0%
!! AGATGGAAGGACATTTTAAT+GGG + chr4.3:13448513-13448532 None:intergenic 30.0%
!! CACTTGTTTTCTTCCAATTT+GGG - chr4.3:13448459-13448478 MS.gene53268:CDS 30.0%
!! TCACTTGTTTTCTTCCAATT+TGG - chr4.3:13448458-13448477 MS.gene53268:CDS 30.0%
!! TGGATTGCATTGATTAAGAA+AGG - chr4.3:13448310-13448329 MS.gene53268:intron 30.0%
AAGAATACTCCTTTATGCGA+CGG + chr4.3:13448621-13448640 None:intergenic 35.0%
AAGGGAAAGAAATTCTTTGG+AGG - chr4.3:13448397-13448416 MS.gene53268:CDS 35.0%
ACAATACTTGAATGTATGCC+TGG + chr4.3:13447961-13447980 None:intergenic 35.0%
ACCGGAACTTTCTTATGAAT+CGG + chr4.3:13447308-13447327 None:intergenic 35.0%
AGGGAAAGAAATTCTTTGGA+GGG - chr4.3:13448398-13448417 MS.gene53268:CDS 35.0%
ATTGATCTTCCATGAAGAGA+TGG + chr4.3:13448530-13448549 None:intergenic 35.0%
CTTCCAATTTGGGAAGAAAT+TGG - chr4.3:13448469-13448488 MS.gene53268:CDS 35.0%
GGCTAAGTTATCTGATGAAA+AGG - chr4.3:13447451-13447470 MS.gene53268:CDS 35.0%
GTGTTAATCATCCGGTTAAT+AGG - chr4.3:13447605-13447624 MS.gene53268:intron 35.0%
GTTAATCATCCGGTTAATAG+GGG - chr4.3:13447607-13447626 MS.gene53268:intron 35.0%
TGAGATCTTTGATAAGGATC+AGG + chr4.3:13447419-13447438 None:intergenic 35.0%
TGATCCTTATCAAAGATCTC+AGG - chr4.3:13447418-13447437 MS.gene53268:CDS 35.0%
! GAGATGGAAGGACATTTTAA+TGG + chr4.3:13448514-13448533 None:intergenic 35.0%
!! AAACACTCCTTGATGATGAT+AGG + chr4.3:13448565-13448584 None:intergenic 35.0%
AAAGGAGGCAAGAGAAATCA+TGG - chr4.3:13448354-13448373 MS.gene53268:intron 40.0%
AAAGTTCCGGTTCTTGTTCA+TGG - chr4.3:13447317-13447336 MS.gene53268:CDS 40.0%
AATGTCCTTCCATCTCTTCA+TGG - chr4.3:13448518-13448537 MS.gene53268:CDS 40.0%
ACTTGAATGTATGCCTGGAA+TGG + chr4.3:13447956-13447975 None:intergenic 40.0%
AGAATCATTTCATCCCTTGG+TGG + chr4.3:13448589-13448608 None:intergenic 40.0%
ATCTTCCATGAAGAGATGGA+AGG + chr4.3:13448526-13448545 None:intergenic 40.0%
CCCGATTCATAAGAAAGTTC+CGG - chr4.3:13447304-13447323 MS.gene53268:CDS 40.0%
CCGGAACTTTCTTATGAATC+GGG + chr4.3:13447307-13447326 None:intergenic 40.0%
GAAAGGTGATGAATGGGAAA+AGG - chr4.3:13448327-13448346 MS.gene53268:intron 40.0%
GACCCAATTTCTTCCCAAAT+TGG + chr4.3:13448475-13448494 None:intergenic 40.0%
GAGTATTCTTCAACTCATCG+TGG - chr4.3:13448631-13448650 MS.gene53268:CDS 40.0%
GATCTTTGATAAGGATCAGG+AGG + chr4.3:13447416-13447435 None:intergenic 40.0%
! GGGAAAGAAATTCTTTGGAG+GGG - chr4.3:13448399-13448418 MS.gene53268:CDS 40.0%
! GTGACTCTGCAATTGATTTC+TGG + chr4.3:13447343-13447362 None:intergenic 40.0%
! TGAATGGGAAAAGGCTCTAA+AGG - chr4.3:13448336-13448355 MS.gene53268:intron 40.0%
!! ACTCCTTGATGATGATAGGA+TGG + chr4.3:13448561-13448580 None:intergenic 40.0%
!! GAATGGGCTCTAAAACTCAA+GGG - chr4.3:13447218-13447237 MS.gene53268:CDS 40.0%
!! TGAATGGGCTCTAAAACTCA+AGG - chr4.3:13447217-13447236 MS.gene53268:CDS 40.0%
AATACTCCTTTATGCGACGG+TGG + chr4.3:13448618-13448637 None:intergenic 45.0%
ACCTTGATCTTGCTCTTGGA+TGG - chr4.3:13448434-13448453 MS.gene53268:CDS 45.0%
ACTCTCCTTCCCCTATTAAC+CGG + chr4.3:13447619-13447638 None:intergenic 45.0%
ATCATCCGGTTAATAGGGGA+AGG - chr4.3:13447611-13447630 MS.gene53268:intron 45.0%
CGAGCCTGAGATCTTTGATA+AGG + chr4.3:13447425-13447444 None:intergenic 45.0%
GAGCCATCCTATCATCATCA+AGG - chr4.3:13448555-13448574 MS.gene53268:CDS 45.0%
TCCATCCAAGAGCAAGATCA+AGG + chr4.3:13448438-13448457 None:intergenic 45.0%
TTATTGCCACCGTCGCATAA+AGG - chr4.3:13448609-13448628 MS.gene53268:CDS 45.0%
TTCTGGCCATGAACAAGAAC+CGG + chr4.3:13447326-13447345 None:intergenic 45.0%
! AAAGATCTCAGGCTCGCTTT+TGG - chr4.3:13447429-13447448 MS.gene53268:CDS 45.0%
! TTCTTTGGAGGGGACACTAT+CGG - chr4.3:13448409-13448428 MS.gene53268:CDS 45.0%
!! AAGATCTCAGGCTCGCTTTT+GGG - chr4.3:13447430-13447449 MS.gene53268:CDS 45.0%
!! ATGGGAAAAGGCTCTAAAGG+AGG - chr4.3:13448339-13448358 MS.gene53268:intron 45.0%
GGAAGGAGAGTTCTCTCGAA+AGG - chr4.3:13447628-13447647 MS.gene53268:intron 50.0%
GGGTACCTTGATCTTGCTCT+TGG - chr4.3:13448430-13448449 MS.gene53268:CDS 50.0%
TAAGGATCAGGAGGCAGCAA+TGG + chr4.3:13447407-13447426 None:intergenic 50.0%
! TATAGCTTGCGCTGGGTTCA+TGG - chr4.3:13448290-13448309 MS.gene53268:intron 50.0%
! TCTTTGGAGGGGACACTATC+GGG - chr4.3:13448410-13448429 MS.gene53268:CDS 50.0%
!! CAAGGAGTGTTTGCCACCAA+GGG - chr4.3:13448573-13448592 MS.gene53268:CDS 50.0%
!! TCAAGGAGTGTTTGCCACCA+AGG - chr4.3:13448572-13448591 MS.gene53268:CDS 50.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 13447204 13448657 13447204 ID=MS.gene53268
chr4.3 mRNA 13447204 13448657 13447204 ID=MS.gene53268.t1;Parent=MS.gene53268
chr4.3 exon 13448389 13448657 13448389 ID=MS.gene53268.t1.exon1;Parent=MS.gene53268.t1
chr4.3 CDS 13448389 13448657 13448389 ID=cds.MS.gene53268.t1;Parent=MS.gene53268.t1
chr4.3 exon 13447204 13447566 13447204 ID=MS.gene53268.t1.exon2;Parent=MS.gene53268.t1
chr4.3 CDS 13447204 13447566 13447204 ID=cds.MS.gene53268.t1;Parent=MS.gene53268.t1
Gene Sequence

>MS.gene53268

TTGGTCGTAGAGTTGAATGGGCTCTAAAACTCAAGGGTGTTGAGTATGATTATATAGAAGAAGATATCTTCAACAAAAGTAGTCTTCTTTTCGAATTGAACCCGATTCATAAGAAAGTTCCGGTTCTTGTTCATGGCCAGAAATCAATTGCAGAGTCACTAATTATTCTTGAATACATTGATGAAACATGGAAGCAATATCCATTGCTGCCTCCTGATCCTTATCAAAGATCTCAGGCTCGCTTTTGGGCTAAGTTATCTGATGAAAAGGTGATAGTTTATTTATTTTTTCTTTATGTTGTTCAAATTTAACTAGGCTTATTCTGAGGTTATAAAATACTACGTTTCTTTCAAAGGAAAAAAAAAATTATGTTTCCTTTTTGAGGCAAGAATATTTTTTTGGTGTTAATCATCCGGTTAATAGGGGAAGGAGAGTTCTCTCGAAAGGTAAGTAAATTCTAGTCAATAATTGTTTTATGAACTTAGGTTTTCATGATCAATATGTGTTTAGTGGAGCTCATTACTTGAGTACAATTGTTTGGTTAGAGACAAGAATATTTAATGTTACATAGAAGATATACACAAATTTTAATTTGAAGTTATATAATTCTATCAATTTTTTTAATAACATAACTTAAAAAACAGCCATCTAATAAATTCAAGAGATACTTTAATTATGAGAAAATATATTAAAAATAAAATATAAATATAGAAGATTTTAATTTTTGTATATTGTCGATGTTAATTATTCCATTCCAGGCATACATTCAAGTATTGTTACATTATTTAAAGAATATGACAAATTATATAGTTTTAAACACGATACGCAATGCAATGATATTCAATTGAATTTACCTTTAAAATAGTTTTATATTGACTATGCATACAAGTTAAACTCAATATAGAATAGTTGCCTAATATGTTGATAGAAACGGTACATTATTAAAATTGCATTGAAATGACTGTGCATGTTATTTCTTTTTTTAGTTTTGATTTGTACGAACTTTATTCGATTGAATGACATATAATTATTCAAATAATTCAATGACTTATATTTCAAAAGCCTATTTTTGTATGTGTAAATTATTATAGCTTGCGCTGGGTTCATGGATTGCATTGATTAAGAAAGGTGATGAATGGGAAAAGGCTCTAAAGGAGGCAAGAGAAATCATGGAAAAGTTAGAAGAGGAGATAAAGGGAAAGAAATTCTTTGGAGGGGACACTATCGGGTACCTTGATCTTGCTCTTGGATGGATCACTTGTTTTCTTCCAATTTGGGAAGAAATTGGGTCAACGCAGATACTTGACCCATTAAAATGTCCTTCCATCTCTTCATGGAAGATCAATTTTCTGAGCCATCCTATCATCATCAAGGAGTGTTTGCCACCAAGGGATGAAATGATTCTTTATTGCCACCGTCGCATAAAGGAGTATTCTTCAACTCATCGTGGTTAA

Protein sequence

>MS.gene53268.t1

LVVELNGLUNSRVLSMIIUKKISSTKVVFFSNUTRFIRKFRFLFMARNQLQSHULFLNTLMKHGSNIHCCLLILIKDLRLAFGLSYLMKSLRWVHGLHULRKVMNGKRLURRQEKSWKSUKRRURERNSLEGTLSGTLILLLDGSLVFFQFGKKLGQRRYLTHUNVLPSLHGRSIFUAILSSSRSVCHQGMKUFFIATVAURSILQLIVV