AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180004735.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 33 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGAGTCAGAACCTTCTTTC+TGG 0.154886 1:-81949735 MsG0180004735.01.T01:CDS
AGGATTGTTATTGGCCTATT+TGG 0.177067 1:-81948955 MsG0180004735.01.T01:CDS
AATCAAAGATTTCATGATTC+AGG 0.190133 1:-81948730 MsG0180004735.01.T01:CDS
TCGGAAATTCTCAACTGTTT+TGG 0.213114 1:+81948921 None:intergenic
TCTGCTGGAAGGATTGTTAT+TGG 0.310916 1:-81948964 MsG0180004735.01.T01:CDS
GAAAACCTTGCTTGTTACTT+TGG 0.335769 1:+81949010 None:intergenic
TGGGAACAACATCTCCAAAT+AGG 0.365016 1:+81948941 None:intergenic
ACTGGTGGAGTCAGTATCTA+TGG 0.378727 1:-81948581 MsG0180004735.01.T01:CDS
TTCTGGTTTCAATGCTGTCC+AGG 0.432366 1:-81949718 MsG0180004735.01.T01:intron
TGTGCAGGAGAGAAAGGATA+TGG 0.434325 1:-81948780 MsG0180004735.01.T01:intron
ATCAAAGATTTCATGATTCA+GGG 0.450983 1:-81948729 MsG0180004735.01.T01:CDS
ATCTTTGTTCTCAACACAGT+TGG 0.459490 1:-81949760 MsG0180004735.01.T01:CDS
AGATTTCATGATTCAGGGAG+GGG 0.477957 1:-81948724 MsG0180004735.01.T01:CDS
TTTCTTTGATGTAGTATTGG+AGG 0.480694 1:-81948991 MsG0180004735.01.T01:CDS
TACATATACACATGATGCTA+AGG 0.483149 1:-81948650 MsG0180004735.01.T01:CDS
AATAACTGTGCAGGAGAGAA+AGG 0.485014 1:-81948786 MsG0180004735.01.T01:intron
AATTTCCGAGCTTTGTGCAC+AGG 0.492690 1:-81948907 MsG0180004735.01.T01:CDS
TTTAATTGGATGCAGGGAAC+TGG 0.519277 1:-81948599 MsG0180004735.01.T01:CDS
GCTTACCTGTGCACAAAGCT+CGG 0.530446 1:+81948902 None:intergenic
TTTGATTATGCGATGGAAGG+TGG 0.537643 1:+81948746 None:intergenic
TGAAATCTTTGATTATGCGA+TGG 0.571761 1:+81948739 None:intergenic
AAGATTTCATGATTCAGGGA+GGG 0.575956 1:-81948725 MsG0180004735.01.T01:CDS
AATTGGATGCAGGGAACTGG+TGG 0.579513 1:-81948596 MsG0180004735.01.T01:CDS
CAGCATTGAAACCAGAAAGA+AGG 0.585026 1:+81949724 None:intergenic
CAAGTACTAACAAAATATAA+CGG 0.589257 1:+81948677 None:intergenic
AGTATTGGAGGTGAATCTGC+TGG 0.591370 1:-81948979 MsG0180004735.01.T01:CDS
ATCTTTGATTATGCGATGGA+AGG 0.597625 1:+81948743 None:intergenic
CAGGGAGGGGACTTCACAGA+AGG 0.623364 1:-81948711 MsG0180004735.01.T01:CDS
TTGGAGGTGAATCTGCTGGA+AGG 0.624677 1:-81948975 MsG0180004735.01.T01:CDS
GCAAGCCAAAGTAACAAGCA+AGG 0.646742 1:-81949015 MsG0180004735.01.T01:CDS
ACATATACACATGATGCTAA+GGG 0.653330 1:-81948649 MsG0180004735.01.T01:CDS
AAAGATTTCATGATTCAGGG+AGG 0.670380 1:-81948726 MsG0180004735.01.T01:CDS
GGTGGAGTCAGTATCTATGG+TGG 0.680041 1:-81948578 MsG0180004735.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATATATATATGTTCTTCA+AGG + Chr1:81948752-81948771 None:intergenic 15.0%
!! TATATATATATGTTCTTCAA+GGG + Chr1:81948751-81948770 None:intergenic 15.0%
!!! TTTGTTTTTGTTTCATTTTA+GGG - Chr1:81948954-81948973 MsG0180004735.01.T01:CDS 15.0%
!! CAAGTACTAACAAAATATAA+CGG + Chr1:81949601-81949620 None:intergenic 20.0%
!! GTTTAATAAGTCTTTAAATG+TGG - Chr1:81948821-81948840 MsG0180004735.01.T01:intron 20.0%
!!! GTTTGTTTTTGTTTCATTTT+AGG - Chr1:81948953-81948972 MsG0180004735.01.T01:CDS 20.0%
!!! TAAGCATTCAAATTTTTCTT+CGG - Chr1:81949391-81949410 MsG0180004735.01.T01:intron 20.0%
!!! TTCACATCATATGTTTTAAT+TGG - Chr1:81949662-81949681 MsG0180004735.01.T01:intron 20.0%
!!! TTGTTTTTGTTTCATTTTAG+GGG - Chr1:81948955-81948974 MsG0180004735.01.T01:CDS 20.0%
! AATCAAAGATTTCATGATTC+AGG - Chr1:81949545-81949564 MsG0180004735.01.T01:intron 25.0%
! ATAAGAATTAGATAGTAACC+TGG + Chr1:81948578-81948597 None:intergenic 25.0%
! ATCAAAGATTTCATGATTCA+GGG - Chr1:81949546-81949565 MsG0180004735.01.T01:intron 25.0%
! CTGTAAATGTACATGTTAAT+GGG - Chr1:81948923-81948942 MsG0180004735.01.T01:CDS 25.0%
! TACCATTAAAATTACGTGAT+TGG - Chr1:81949137-81949156 MsG0180004735.01.T01:intron 25.0%
!! AAAATTTTGGATAGCCAATT+CGG - Chr1:81949174-81949193 MsG0180004735.01.T01:intron 25.0%
!! ATTAAGGTGTTTATTCAAAC+AGG + Chr1:81948624-81948643 None:intergenic 25.0%
!! ATTGGTTTCATTATCTTACA+TGG - Chr1:81949211-81949230 MsG0180004735.01.T01:intron 25.0%
!! ATTTCGTTTGCAGAAAATTT+TGG - Chr1:81949161-81949180 MsG0180004735.01.T01:intron 25.0%
!! TTAAGGTGTTTATTCAAACA+GGG + Chr1:81948623-81948642 None:intergenic 25.0%
!! TTCCAATCACGTAATTTTAA+TGG + Chr1:81949142-81949161 None:intergenic 25.0%
!!! ATATGTTTTAATTGGATGCA+GGG - Chr1:81949670-81949689 MsG0180004735.01.T01:intron 25.0%
ACATATACACATGATGCTAA+GGG - Chr1:81949626-81949645 MsG0180004735.01.T01:intron 30.0%
ATGCTATAAGCTGCAAATTA+AGG + Chr1:81948640-81948659 None:intergenic 30.0%
GCTGTAAATGTACATGTTAA+TGG - Chr1:81948922-81948941 MsG0180004735.01.T01:CDS 30.0%
TACATATACACATGATGCTA+AGG - Chr1:81949625-81949644 MsG0180004735.01.T01:intron 30.0%
TGAAATCTTTGATTATGCGA+TGG + Chr1:81949539-81949558 None:intergenic 30.0%
TTTGAGAATAATAACTGTGC+AGG - Chr1:81949480-81949499 MsG0180004735.01.T01:intron 30.0%
! GCATAAGAATGTGTTACTAA+AGG - Chr1:81948897-81948916 MsG0180004735.01.T01:CDS 30.0%
! GGTTTTCTTTGATGTAGTAT+TGG - Chr1:81949281-81949300 MsG0180004735.01.T01:intron 30.0%
! TATGAGTATTGTGGTGAAAT+TGG - Chr1:81949428-81949447 MsG0180004735.01.T01:intron 30.0%
! TTTCTTTGATGTAGTATTGG+AGG - Chr1:81949284-81949303 MsG0180004735.01.T01:intron 30.0%
!!! CATATGTTTTAATTGGATGC+AGG - Chr1:81949669-81949688 MsG0180004735.01.T01:intron 30.0%
AAAGATTTCATGATTCAGGG+AGG - Chr1:81949549-81949568 MsG0180004735.01.T01:intron 35.0%
AAGATTTCATGATTCAGGGA+GGG - Chr1:81949550-81949569 MsG0180004735.01.T01:intron 35.0%
AAGCGAAATCAATCACTTCT+CGG - Chr1:81949080-81949099 MsG0180004735.01.T01:intron 35.0%
ATCTTTGATTATGCGATGGA+AGG + Chr1:81949535-81949554 None:intergenic 35.0%
ATCTTTGTTCTCAACACAGT+TGG - Chr1:81948515-81948534 MsG0180004735.01.T01:CDS 35.0%
! AGGATTGTTATTGGCCTATT+TGG - Chr1:81949320-81949339 MsG0180004735.01.T01:intron 35.0%
! CGGAAATTCTCAACTGTTTT+GGG + Chr1:81949356-81949375 None:intergenic 35.0%
! GAAAACCTTGCTTGTTACTT+TGG + Chr1:81949268-81949287 None:intergenic 35.0%
! TCGGAAATTCTCAACTGTTT+TGG + Chr1:81949357-81949376 None:intergenic 35.0%
! TTGTCGTTGTATGAGTATTG+TGG - Chr1:81949419-81949438 MsG0180004735.01.T01:intron 35.0%
AATAACTGTGCAGGAGAGAA+AGG - Chr1:81949489-81949508 MsG0180004735.01.T01:intron 40.0%
AGATTTCATGATTCAGGGAG+GGG - Chr1:81949551-81949570 MsG0180004735.01.T01:intron 40.0%
GATGACAATTACTGCATCCA+AGG + Chr1:81949016-81949035 None:intergenic 40.0%
GTCATCAGGATATCATTACG+CGG - Chr1:81949030-81949049 MsG0180004735.01.T01:intron 40.0%
TCGGCTGTGATTCAAAACAT+TGG - Chr1:81949193-81949212 MsG0180004735.01.T01:intron 40.0%
TCTGCTGGAAGGATTGTTAT+TGG - Chr1:81949311-81949330 MsG0180004735.01.T01:intron 40.0%
TGGATGCAGTAATTGTCATC+AGG - Chr1:81949016-81949035 MsG0180004735.01.T01:CDS 40.0%
TGGGAACAACATCTCCAAAT+AGG + Chr1:81949337-81949356 None:intergenic 40.0%
TTTAATTGGATGCAGGGAAC+TGG - Chr1:81949676-81949695 MsG0180004735.01.T01:intron 40.0%
TTTGATTATGCGATGGAAGG+TGG + Chr1:81949532-81949551 None:intergenic 40.0%
! CAGCATTGAAACCAGAAAGA+AGG + Chr1:81948554-81948573 None:intergenic 40.0%
!! GTTTTGAATCACAGCCGAAT+TGG + Chr1:81949191-81949210 None:intergenic 40.0%
!! TACATGGCTGTGTTACTTCT+AGG - Chr1:81949227-81949246 MsG0180004735.01.T01:intron 40.0%
ACTGGTGGAGTCAGTATCTA+TGG - Chr1:81949694-81949713 MsG0180004735.01.T01:intron 45.0%
CAGAGTCAGAACCTTCTTTC+TGG - Chr1:81948540-81948559 MsG0180004735.01.T01:CDS 45.0%
GCAAGCCAAAGTAACAAGCA+AGG - Chr1:81949260-81949279 MsG0180004735.01.T01:intron 45.0%
TGTGCAGGAGAGAAAGGATA+TGG - Chr1:81949495-81949514 MsG0180004735.01.T01:intron 45.0%
! AATTTCCGAGCTTTGTGCAC+AGG - Chr1:81949368-81949387 MsG0180004735.01.T01:intron 45.0%
! AGTATTGGAGGTGAATCTGC+TGG - Chr1:81949296-81949315 MsG0180004735.01.T01:intron 45.0%
!! TTCTGGTTTCAATGCTGTCC+AGG - Chr1:81948557-81948576 MsG0180004735.01.T01:CDS 45.0%
AATTGGATGCAGGGAACTGG+TGG - Chr1:81949679-81949698 MsG0180004735.01.T01:intron 50.0%
CAGGATATCATTACGCGGCT+AGG - Chr1:81949035-81949054 MsG0180004735.01.T01:intron 50.0%
GCTTACCTGTGCACAAAGCT+CGG + Chr1:81949376-81949395 None:intergenic 50.0%
GGTGGAGTCAGTATCTATGG+TGG - Chr1:81949697-81949716 MsG0180004735.01.T01:intron 50.0%
TCATTACGCGGCTAGGCTTT+CGG - Chr1:81949042-81949061 MsG0180004735.01.T01:intron 50.0%
TTGGAGGTGAATCTGCTGGA+AGG - Chr1:81949300-81949319 MsG0180004735.01.T01:intron 50.0%
ACTGCATCCAAGGTGTGCTC+TGG + Chr1:81949006-81949025 None:intergenic 55.0%
AGCAGTACCAGAGCACACCT+TGG - Chr1:81948996-81949015 MsG0180004735.01.T01:CDS 55.0%
CAGGGAGGGGACTTCACAGA+AGG - Chr1:81949564-81949583 MsG0180004735.01.T01:intron 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 81948510 81949787 81948510 ID=MsG0180004735.01;Name=MsG0180004735.01
Chr1 mRNA 81948510 81949787 81948510 ID=MsG0180004735.01.T01;Parent=MsG0180004735.01;Name=MsG0180004735.01.T01;_AED=0.50;_eAED=0.83;_QI=0|0|0|1|0|0|3|0|172
Chr1 exon 81949719 81949787 81949719 ID=MsG0180004735.01.T01:exon:35071;Parent=MsG0180004735.01.T01
Chr1 exon 81948885 81949048 81948885 ID=MsG0180004735.01.T01:exon:35070;Parent=MsG0180004735.01.T01
Chr1 exon 81948510 81948795 81948510 ID=MsG0180004735.01.T01:exon:35069;Parent=MsG0180004735.01.T01
Chr1 CDS 81949719 81949787 81949719 ID=MsG0180004735.01.T01:cds;Parent=MsG0180004735.01.T01
Chr1 CDS 81948885 81949048 81948885 ID=MsG0180004735.01.T01:cds;Parent=MsG0180004735.01.T01
Chr1 CDS 81948510 81948795 81948510 ID=MsG0180004735.01.T01:cds;Parent=MsG0180004735.01.T01
Gene Sequence

>MsG0180004735.01.T01

ATGGCATCTTTGTTCTCAACACAGTTGGTGCAGAGTCAGAACCTTCTTTCTGGTTTCAATGCTGTCCAGGCTGCAGATCTGCAAGCCAAAGTAACAAGCAAGGTTTTCTTTGATGTAGTATTGGAGGTGAATCTGCTGGAAGGATTGTTATTGGCCTATTTGGAGATGTTGTTCCCAAAACAGTTGAGAATTTCCGAGCTTTGTGCACAGGTAAGCATTCAAATTTTTCTTCGGAGAGAAAGGATATGGTTACAAAGATTCCACCTTCCATCGCATAATCAAAGATTTCATGATTCAGGGAGGGGACTTCACAGAAGGAAATGTGAGCACCGTTATATTTTGTTAGTACTTGCATGTACATATACACATGATGCTAAGGGTGATAATGTTTGTTTCACATCATATGTTTTAATTGGATGCAGGGAACTGGTGGAGTCAGTATCTATGGTGGTAAATTTGAAGATGAGAATTTTACTTGTATGTATCTTTTGTTGCTTGTTCAGTAATATCGAGTTTTAA

Protein sequence

>MsG0180004735.01.T01

MASLFSTQLVQSQNLLSGFNAVQAADLQAKVTSKVFFDVVLEVNLLEGLLLAYLEMLFPKQLRISELCAQVSIQIFLRRERIWLQRFHLPSHNQRFHDSGRGLHRRKCEHRYILLVLACTYTHDAKGDNVCFTSYVLIGCRELVESVSMVVNLKMRILLVCIFCCLFSNIEF*