AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180001257.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001257.01.T01 MTR_1g034050 93.897 213 13 0 5 217 16 228 5.40e-148 411
MsG0180001257.01.T01 MTR_1g017160 22.840 162 122 1 38 199 46 204 2.59e-14 69.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001257.01.T01 AT1G49510 58.182 165 69 0 44 208 3 167 2.38e-75 225
MsG0180001257.01.T01 AT1G49510 58.182 165 69 0 44 208 61 225 2.94e-75 227
MsG0180001257.01.T01 AT1G49510 58.182 165 69 0 44 208 61 225 2.94e-75 227

Find 64 sgRNAs with CRISPR-Local

Find 92 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACGTGCTTTGTCTATTAAT+TGG 0.198089 1:+18389555 None:intergenic
CAGGTCCATATTACCCTTAT+TGG 0.198727 1:-18388794 MsG0180001257.01.T01:CDS
TGAAAATTTAACGAAACTTT+TGG 0.216716 1:+18388436 None:intergenic
ACTCTAATGCAGTATCTTTC+AGG 0.232105 1:+18389309 None:intergenic
CTCTTAGGAGCTGCTGTTGC+TGG 0.256043 1:-18389335 MsG0180001257.01.T01:CDS
CGTCCCCAATAAGGGTAATA+TGG 0.291719 1:+18388789 None:intergenic
GTTCCTATTCCGGTTCTCTT+AGG 0.293163 1:-18389350 MsG0180001257.01.T01:CDS
GAGAAGCGTGGTTTCTGTTT+AGG 0.299602 1:-18389680 MsG0180001257.01.T01:CDS
GCTATTTGTTGTTCCTATTC+CGG 0.308780 1:-18389360 MsG0180001257.01.T01:CDS
CTTATTACTCACTTTGCAAA+TGG 0.318467 1:-18388762 MsG0180001257.01.T01:CDS
ATAAGTATACGTCCCCAATA+AGG 0.320545 1:+18388780 None:intergenic
AGGTCCATATTACCCTTATT+GGG 0.322902 1:-18388793 MsG0180001257.01.T01:CDS
AGGATATAAGTTGAAGTATC+TGG 0.334398 1:+18388591 None:intergenic
TCTGATATCTTCAATACTTT+AGG 0.347359 1:+18388693 None:intergenic
TAGACAAAGCACGTAAGCTT+TGG 0.357059 1:-18389547 MsG0180001257.01.T01:CDS
CAACAAATAGCTTCCTTTGA+TGG 0.361281 1:+18389372 None:intergenic
TTGCAATATTGTGGAATAGA+AGG 0.372346 1:-18388716 MsG0180001257.01.T01:CDS
ATTCATAGCACATGAGATCT+TGG 0.381416 1:+18389622 None:intergenic
ACGTGCTTTGTCTATTAATT+GGG 0.384585 1:+18389556 None:intergenic
GATGACAGTATTGGCTGTTA+AGG 0.390906 1:+18388379 None:intergenic
TTATTACTCACTTTGCAAAT+GGG 0.405930 1:-18388761 MsG0180001257.01.T01:CDS
GGGAAATTCTTCACCGGCTC+GGG 0.406812 1:+18389515 None:intergenic
ACTTGTTCTTGATCTTACTT+TGG 0.421816 1:-18389462 MsG0180001257.01.T01:CDS
TAGAGAACCATTTGAAGACT+TGG 0.431012 1:-18388340 None:intergenic
GCTCCTAAGAGAACCGGAAT+AGG 0.437742 1:+18389347 None:intergenic
AACAAATAGCTTCCTTTGAT+GGG 0.448200 1:+18389373 None:intergenic
GTCTTCTGAGATGCACGAAA+TGG 0.449335 1:+18389650 None:intergenic
AAGTATCTGGAATGAGATAA+TGG 0.449608 1:+18388604 None:intergenic
AGACAAAGCACGTAAGCTTT+GGG 0.450056 1:-18389546 MsG0180001257.01.T01:CDS
TAAGTATACGTCCCCAATAA+GGG 0.459745 1:+18388781 None:intergenic
CTCTATGGTTTGCAATATTG+TGG 0.462971 1:-18388725 MsG0180001257.01.T01:CDS
GCAAAAGTTGATGACAGTAT+TGG 0.463216 1:+18388370 None:intergenic
AATTTATCCAAGTCTTCAAA+TGG 0.466089 1:+18388333 None:intergenic
TAGAGTTATCTCCACGGCTA+AGG 0.481989 1:-18389292 MsG0180001257.01.T01:CDS
TTGGGACAGTTCTCCCGAGC+CGG 0.488674 1:-18389528 MsG0180001257.01.T01:CDS
TTCATAGCACATGAGATCTT+GGG 0.491801 1:+18389623 None:intergenic
ACAGCAGCTCCTAAGAGAAC+CGG 0.501355 1:+18389341 None:intergenic
AATGGAACTTACTACTGAAA+GGG 0.509618 1:+18388622 None:intergenic
GTAGGATAACTCGCTGATGC+AGG 0.512109 1:+18389400 None:intergenic
TTCACATTGATCAAATTGCC+AGG 0.518724 1:-18388813 MsG0180001257.01.T01:CDS
TTCAGGATGCACAAGTTCCA+TGG 0.520982 1:-18388860 MsG0180001257.01.T01:intron
TTCCTAGTGTTGTGTTCCAC+GGG 0.523971 1:+18389495 None:intergenic
TTTCCTAGTGTTGTGTTCCA+CGG 0.528978 1:+18389494 None:intergenic
TATCCTACTGTGCCCATCAA+AGG 0.532175 1:-18389385 MsG0180001257.01.T01:CDS
AGAGTTATCTCCACGGCTAA+GGG 0.534935 1:-18389291 MsG0180001257.01.T01:intron
TAATGGAACTTACTACTGAA+AGG 0.536374 1:+18388621 None:intergenic
CTTCCTTTGATGGGCACAGT+AGG 0.541149 1:+18389382 None:intergenic
ATGCAGGTAACTGCGAATAC+AGG 0.541868 1:+18389416 None:intergenic
TATTACTCACTTTGCAAATG+GGG 0.542200 1:-18388760 MsG0180001257.01.T01:CDS
CGGGAAATTCTTCACCGGCT+CGG 0.545429 1:+18389514 None:intergenic
TTCCACGGGAAATTCTTCAC+CGG 0.577837 1:+18389509 None:intergenic
CAATAAGGGTAATATGGACC+TGG 0.580505 1:+18388795 None:intergenic
TCAGTGGATTAACTAACTAT+CGG 0.588511 1:+18388668 None:intergenic
GCAGTGGCAATCAAATGCCA+TGG 0.595341 1:+18388843 None:intergenic
ATCCACTGAGCTATGATGCA+AGG 0.602851 1:-18388654 MsG0180001257.01.T01:three_prime_UTR
GGTCCATATTACCCTTATTG+GGG 0.614732 1:-18388792 MsG0180001257.01.T01:CDS
TTCGTGCATCTCAGAAGACA+TGG 0.632245 1:-18389646 MsG0180001257.01.T01:CDS
TTCCCGTGGAACACAACACT+AGG 0.634328 1:-18389497 MsG0180001257.01.T01:CDS
AGCCGGTGAAGAATTTCCCG+TGG 0.645172 1:-18389511 MsG0180001257.01.T01:CDS
AGCCTCTGTGCTAACTACTG+AGG 0.674408 1:+18388571 None:intergenic
CTGCATTAGAGTTATCTCCA+CGG 0.687530 1:-18389298 MsG0180001257.01.T01:CDS
CAATGTGAAGACAATTGCAG+TGG 0.718560 1:+18388827 None:intergenic
AACCTTGCATCATAGCTCAG+TGG 0.749537 1:+18388652 None:intergenic
ATCCTCAGTAGTTAGCACAG+AGG 0.762760 1:-18388573 MsG0180001257.01.T01:three_prime_UTR

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGCTATTAATAAAGAAAAT+TGG + Chr1:18389052-18389071 None:intergenic 15.0%
!! TAGATATAAGATAAATTAGT+TGG - Chr1:18388830-18388849 MsG0180001257.01.T01:CDS 15.0%
!! TTGAAAAGTCAAATTTAAAA+AGG + Chr1:18388975-18388994 None:intergenic 15.0%
!!! ACTTTTCAATTATTTGACAA+TGG - Chr1:18388986-18389005 MsG0180001257.01.T01:intron 20.0%
!!! GAAAATTTAACGAAACTTTT+GGG + Chr1:18389632-18389651 None:intergenic 20.0%
!!! TGAAAATTTAACGAAACTTT+TGG + Chr1:18389633-18389652 None:intergenic 20.0%
! ATACAGTAAAAGCAAAAGAT+CGG + Chr1:18389169-18389188 None:intergenic 25.0%
! ATCGGATACAGTAAATAAAT+GGG + Chr1:18389151-18389170 None:intergenic 25.0%
! CTATCCAACATTAAGAATAT+AGG - Chr1:18389081-18389100 MsG0180001257.01.T01:intron 25.0%
! TCAACCTATATTCTTAATGT+TGG + Chr1:18389088-18389107 None:intergenic 25.0%
! TCTGATATCTTCAATACTTT+AGG + Chr1:18389376-18389395 None:intergenic 25.0%
! TGTTGTTAAAAAGCTTGTAA+TGG - Chr1:18389661-18389680 MsG0180001257.01.T01:CDS 25.0%
! TTATTACTCACTTTGCAAAT+GGG - Chr1:18389305-18389324 MsG0180001257.01.T01:CDS 25.0%
!!! GTTTCGTTAAATTTTCAAGT+TGG - Chr1:18389636-18389655 MsG0180001257.01.T01:CDS 25.0%
AACAAATAGCTTCCTTTGAT+GGG + Chr1:18388696-18388715 None:intergenic 30.0%
AATGGAACTTACTACTGAAA+GGG + Chr1:18389447-18389466 None:intergenic 30.0%
ACGTGCTTTGTCTATTAATT+GGG + Chr1:18388513-18388532 None:intergenic 30.0%
ACTTGTTCTTGATCTTACTT+TGG - Chr1:18388604-18388623 MsG0180001257.01.T01:three_prime_UTR 30.0%
ATACAGTAAATAAATGGGGA+GGG + Chr1:18389146-18389165 None:intergenic 30.0%
CTTATTACTCACTTTGCAAA+TGG - Chr1:18389304-18389323 MsG0180001257.01.T01:CDS 30.0%
GATCGGATACAGTAAATAAA+TGG + Chr1:18389152-18389171 None:intergenic 30.0%
TAATGGAACTTACTACTGAA+AGG + Chr1:18389448-18389467 None:intergenic 30.0%
TACGTGCTTTGTCTATTAAT+TGG + Chr1:18388514-18388533 None:intergenic 30.0%
TATTACTCACTTTGCAAATG+GGG - Chr1:18389306-18389325 MsG0180001257.01.T01:CDS 30.0%
TCGGATACAGTAAATAAATG+GGG + Chr1:18389150-18389169 None:intergenic 30.0%
TTAATGTTGGATAGCTGTAT+CGG + Chr1:18389075-18389094 None:intergenic 30.0%
TTGCAATATTGTGGAATAGA+AGG - Chr1:18389350-18389369 MsG0180001257.01.T01:CDS 30.0%
! AAGTATCTGGAATGAGATAA+TGG + Chr1:18389465-18389484 None:intergenic 30.0%
! AGGATATAAGTTGAAGTATC+TGG + Chr1:18389478-18389497 None:intergenic 30.0%
! CTTATGCATGTCTAATTTTC+AGG - Chr1:18389189-18389208 MsG0180001257.01.T01:intron 30.0%
!! TCAGTGGATTAACTAACTAT+CGG + Chr1:18389401-18389420 None:intergenic 30.0%
!!! TTTTTTTGAGTTGCTGACAA+TGG - Chr1:18388935-18388954 MsG0180001257.01.T01:intron 30.0%
ACTCTAATGCAGTATCTTTC+AGG + Chr1:18388760-18388779 None:intergenic 35.0%
AGGTCCATATTACCCTTATT+GGG - Chr1:18389273-18389292 MsG0180001257.01.T01:intron 35.0%
ATAAGTATACGTCCCCAATA+AGG + Chr1:18389289-18389308 None:intergenic 35.0%
ATTCATAGCACATGAGATCT+TGG + Chr1:18388447-18388466 None:intergenic 35.0%
CAACAAATAGCTTCCTTTGA+TGG + Chr1:18388697-18388716 None:intergenic 35.0%
GATACAGTAAATAAATGGGG+AGG + Chr1:18389147-18389166 None:intergenic 35.0%
GTCAGCAACTCAAAAAAACA+TGG + Chr1:18388933-18388952 None:intergenic 35.0%
TAAGTATACGTCCCCAATAA+GGG + Chr1:18389288-18389307 None:intergenic 35.0%
TAGTTTACCACAAAAGTAGC+AGG - Chr1:18388880-18388899 MsG0180001257.01.T01:intron 35.0%
TTCACATTGATCAAATTGCC+AGG - Chr1:18389253-18389272 MsG0180001257.01.T01:intron 35.0%
TTCATAGCACATGAGATCTT+GGG + Chr1:18388446-18388465 None:intergenic 35.0%
! CTCTATGGTTTGCAATATTG+TGG - Chr1:18389341-18389360 MsG0180001257.01.T01:CDS 35.0%
!! GCAAAAGTTGATGACAGTAT+TGG + Chr1:18389699-18389718 None:intergenic 35.0%
!! GCTATTTGTTGTTCCTATTC+CGG - Chr1:18388706-18388725 MsG0180001257.01.T01:CDS 35.0%
AGACAAAGCACGTAAGCTTT+GGG - Chr1:18388520-18388539 MsG0180001257.01.T01:three_prime_UTR 40.0%
CAATAAGGGTAATATGGACC+TGG + Chr1:18389274-18389293 None:intergenic 40.0%
CAATGTGAAGACAATTGCAG+TGG + Chr1:18389242-18389261 None:intergenic 40.0%
CAGGTCCATATTACCCTTAT+TGG - Chr1:18389272-18389291 MsG0180001257.01.T01:intron 40.0%
CTGCATTAGAGTTATCTCCA+CGG - Chr1:18388768-18388787 MsG0180001257.01.T01:CDS 40.0%
GGTCCATATTACCCTTATTG+GGG - Chr1:18389274-18389293 MsG0180001257.01.T01:intron 40.0%
TACCCTGCAGCAGTAAAAAT+AGG + Chr1:18388352-18388371 None:intergenic 40.0%
TAGACAAAGCACGTAAGCTT+TGG - Chr1:18388519-18388538 MsG0180001257.01.T01:three_prime_UTR 40.0%
TTTCCTAGTGTTGTGTTCCA+CGG + Chr1:18388575-18388594 None:intergenic 40.0%
! AATGATTTTACCCTTAGCCG+TGG + Chr1:18388788-18388807 None:intergenic 40.0%
!! GATGACAGTATTGGCTGTTA+AGG + Chr1:18389690-18389709 None:intergenic 40.0%
!!! ACTCCTATTTTTACTGCTGC+AGG - Chr1:18388346-18388365 MsG0180001257.01.T01:three_prime_UTR 40.0%
!!! CATCATTCCTGCTACTTTTG+TGG + Chr1:18388890-18388909 None:intergenic 40.0%
!!! CTCCTATTTTTACTGCTGCA+GGG - Chr1:18388347-18388366 MsG0180001257.01.T01:three_prime_UTR 40.0%
!!! TTGCAAATGGGGTTTTGTTG+AGG - Chr1:18389317-18389336 MsG0180001257.01.T01:CDS 40.0%
AACCTTGCATCATAGCTCAG+TGG + Chr1:18389417-18389436 None:intergenic 45.0%
AGAGTTATCTCCACGGCTAA+GGG - Chr1:18388775-18388794 MsG0180001257.01.T01:CDS 45.0%
ATCCACTGAGCTATGATGCA+AGG - Chr1:18389412-18389431 MsG0180001257.01.T01:CDS 45.0%
ATCCTCAGTAGTTAGCACAG+AGG - Chr1:18389493-18389512 MsG0180001257.01.T01:CDS 45.0%
ATGCAGGTAACTGCGAATAC+AGG + Chr1:18388653-18388672 None:intergenic 45.0%
CAGTAAATAAATGGGGAGGG+AGG + Chr1:18389143-18389162 None:intergenic 45.0%
CGTCCCCAATAAGGGTAATA+TGG + Chr1:18389280-18389299 None:intergenic 45.0%
GTTCCTATTCCGGTTCTCTT+AGG - Chr1:18388716-18388735 MsG0180001257.01.T01:CDS 45.0%
TAGAGTTATCTCCACGGCTA+AGG - Chr1:18388774-18388793 MsG0180001257.01.T01:CDS 45.0%
TATCCTACTGTGCCCATCAA+AGG - Chr1:18388681-18388700 MsG0180001257.01.T01:CDS 45.0%
TTCAGGATGCACAAGTTCCA+TGG - Chr1:18389206-18389225 MsG0180001257.01.T01:intron 45.0%
TTCCACGGGAAATTCTTCAC+CGG + Chr1:18388560-18388579 None:intergenic 45.0%
TTCCTAGTGTTGTGTTCCAC+GGG + Chr1:18388574-18388593 None:intergenic 45.0%
TTCGTGCATCTCAGAAGACA+TGG - Chr1:18388420-18388439 MsG0180001257.01.T01:three_prime_UTR 45.0%
! GAGAAGCGTGGTTTCTGTTT+AGG - Chr1:18388386-18388405 MsG0180001257.01.T01:three_prime_UTR 45.0%
!! GTCTTCTGAGATGCACGAAA+TGG + Chr1:18388419-18388438 None:intergenic 45.0%
!! TCGTGTTTTGTTGAGAAGCG+TGG - Chr1:18388374-18388393 MsG0180001257.01.T01:three_prime_UTR 45.0%
!!! GGGTTTTGTTGAGGACTCTA+TGG - Chr1:18389326-18389345 MsG0180001257.01.T01:CDS 45.0%
ACAGCAGCTCCTAAGAGAAC+CGG + Chr1:18388728-18388747 None:intergenic 50.0%
AGCCTCTGTGCTAACTACTG+AGG + Chr1:18389498-18389517 None:intergenic 50.0%
GAGTTGCTGACAATGGAGCT+TGG - Chr1:18388942-18388961 MsG0180001257.01.T01:intron 50.0%
GCAGTGGCAATCAAATGCCA+TGG + Chr1:18389226-18389245 None:intergenic 50.0%
GCTCCTAAGAGAACCGGAAT+AGG + Chr1:18388722-18388741 None:intergenic 50.0%
GTAGGATAACTCGCTGATGC+AGG + Chr1:18388669-18388688 None:intergenic 50.0%
TTCCCGTGGAACACAACACT+AGG - Chr1:18388569-18388588 MsG0180001257.01.T01:three_prime_UTR 50.0%
! CTTCCTTTGATGGGCACAGT+AGG + Chr1:18388687-18388706 None:intergenic 50.0%
AGCCGGTGAAGAATTTCCCG+TGG - Chr1:18388555-18388574 MsG0180001257.01.T01:three_prime_UTR 55.0%
CTCTTAGGAGCTGCTGTTGC+TGG - Chr1:18388731-18388750 MsG0180001257.01.T01:CDS 55.0%
! CGGGAAATTCTTCACCGGCT+CGG + Chr1:18388555-18388574 None:intergenic 55.0%
!! GGGAAATTCTTCACCGGCTC+GGG + Chr1:18388554-18388573 None:intergenic 55.0%
TTGGGACAGTTCTCCCGAGC+CGG - Chr1:18388538-18388557 MsG0180001257.01.T01:three_prime_UTR 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 18388341 18389747 18388341 ID=MsG0180001257.01;Name=MsG0180001257.01
Chr1 mRNA 18388341 18389747 18388341 ID=MsG0180001257.01.T01;Parent=MsG0180001257.01;Name=MsG0180001257.01.T01;_AED=0.42;_eAED=0.42;_QI=0|1|0.5|1|1|1|2|339|217
Chr1 exon 18388341 18388877 18388341 ID=MsG0180001257.01.T01:exon:32439;Parent=MsG0180001257.01.T01
Chr1 exon 18389292 18389747 18389292 ID=MsG0180001257.01.T01:exon:32438;Parent=MsG0180001257.01.T01
Chr1 CDS 18389292 18389747 18389292 ID=MsG0180001257.01.T01:cds;Parent=MsG0180001257.01.T01
Chr1 CDS 18388680 18388877 18388680 ID=MsG0180001257.01.T01:cds;Parent=MsG0180001257.01.T01
Chr1 three_prime_UTR 18388341 18388679 18388341 ID=MsG0180001257.01.T01:three_prime_utr;Parent=MsG0180001257.01.T01
Gene Sequence

>MsG0180001257.01.T01

ATGAAACTCCTATTTTTACTGCTGCAGGGTACATCGTGTTTTGTTGAGAAGCGTGGTTTCTGTTTAGGTCTTAAGCCATTTCGTGCATCTCAGAAGACATGGCCCAAGATCTCATGTGCTATGAATATGTCTGCACATCAATCAGATGATGATAGAAAAATGCAACTTGCCCAATTAATAGACAAAGCACGTAAGCTTTGGGACAGTTCTCCCGAGCCGGTGAAGAATTTCCCGTGGAACACAACACTAGGAAACTTCATTCAACTTGTTCTTGATCTTACTTTGGCTGTTGTCAAATATCTAGCTGTACCTGTATTCGCAGTTACCTGCATCAGCGAGTTATCCTACTGTGCCCATCAAAGGAAGCTATTTGTTGTTCCTATTCCGGTTCTCTTAGGAGCTGCTGTTGCTGGCATCCTGAAAGATACTGCATTAGAGTTATCTCCACGGCTAAGGGATGCACAAGTTCCATGGCATTTGATTGCCACTGCAATTGTCTTCACATTGATCAAATTGCCAGGTCCATATTACCCTTATTGGGGACGTATACTTATTACTCACTTTGCAAATGGGGTTTTGTTGAGGACTCTATGGTTTGCAATATTGTGGAATAGAAGGCCTAAAGTATTGAAGATATCAGATTCCGATAGTTAG
Protein sequence

>MsG0180001257.01.T01

MKLLFLLLQGTSCFVEKRGFCLGLKPFRASQKTWPKISCAMNMSAHQSDDDRKMQLAQLIDKARKLWDSSPEPVKNFPWNTTLGNFIQLVLDLTLAVVKYLAVPVFAVTCISELSYCAHQRKLFVVPIPVLLGAAVAGILKDTALELSPRLRDAQVPWHLIATAIVFTLIKLPGPYYPYWGRILITHFANGVLLRTLWFAILWNRRPKVLKISDSDS*