AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180006261.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180006261.01.T01 MTR_1g116980 97.744 133 3 0 12 144 502 634 4.41e-88 269
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180006261.01.T01 AT1G16970 63.158 133 42 2 12 144 496 621 1.20e-46 159

Find 48 sgRNAs with CRISPR-Local

Find 99 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGACACAATCTTCCTGTTTC+TGG 0.163777 1:+101957939 MsG0180006261.01.T01:CDS
TGTTGTTCCTGACCCGATTT+TGG 0.241141 1:+101958063 MsG0180006261.01.T01:three_prime_UTR
AATGTTTCATCTTTGATTTC+AGG 0.249243 1:-101957010 None:intergenic
AAATGGAAAAGTTATGATTC+TGG 0.298644 1:+101956907 None:intergenic
TTCCCATATGAGTTAATATT+CGG 0.307537 1:-101957983 None:intergenic
TCCAGTGTATAATCCAAAAT+CGG 0.322080 1:-101958076 None:intergenic
TAGCCGAATATTAACTCATA+TGG 0.334145 1:+101957980 MsG0180006261.01.T01:CDS
GAATTCAAGTCCTCTGTATA+CGG 0.338048 1:+101957548 MsG0180006261.01.T01:CDS
GAGTTGAAATATTATCTTAC+AGG 0.343089 1:+101957918 MsG0180006261.01.T01:CDS
TGGGGTGAGCTCGCTGATAC+TGG 0.348714 1:+101957680 MsG0180006261.01.T01:CDS
GCTTCCTTCTTCCCAGAAAC+AGG 0.372373 1:-101957951 None:intergenic
GACACAATCTTCCTGTTTCT+GGG 0.397267 1:+101957940 MsG0180006261.01.T01:CDS
CCTGCAGACCAGGAGTGGTC+AGG 0.405236 1:+101957516 MsG0180006261.01.T01:intron
CTGGACAAGCCTTCCTCATC+AGG 0.406253 1:-101957034 None:intergenic
AATGGAAAAGTTATGATTCT+GGG 0.410070 1:+101956908 None:intergenic
GAACAACACACACAAGAAAA+CGG 0.433208 1:-101958048 None:intergenic
CGTTTCTTGGAGGCTTCAGT+TGG 0.440412 1:-101957611 None:intergenic
GAGACACTATGCAGTATTGC+AGG 0.448682 1:+101956961 MsG0180006261.01.T01:CDS
TCTAATGCCCTGACCACTCC+TGG 0.455133 1:-101957524 None:intergenic
TCTTCCTGTTTCTGGGAAGA+AGG 0.465621 1:+101957947 MsG0180006261.01.T01:CDS
AATTCAAGTCCTCTGTATAC+GGG 0.498771 1:+101957549 MsG0180006261.01.T01:CDS
GTATAATCCAAAATCGGGTC+AGG 0.500200 1:-101958070 None:intergenic
CCAGTGTATAATCCAAAATC+GGG 0.508247 1:-101958075 None:intergenic
AGCCGAATATTAACTCATAT+GGG 0.509528 1:+101957981 MsG0180006261.01.T01:CDS
AGAGTGTGAGAACTATGATT+GGG 0.515732 1:+101957661 MsG0180006261.01.T01:CDS
ATGGGAAAATGAGCAAGAAA+AGG 0.516227 1:+101957999 MsG0180006261.01.T01:exon
GAGGAAAGTGAGCTTGGCAC+TGG 0.519460 1:+101957584 MsG0180006261.01.T01:CDS
TATGATGAGGAAAGTGAGCT+TGG 0.525175 1:+101957578 MsG0180006261.01.T01:CDS
CTGATGAGGAAGGCTTGTCC+AGG 0.540037 1:+101957035 MsG0180006261.01.T01:CDS
CTGCAGACCAGGAGTGGTCA+GGG 0.540525 1:+101957517 MsG0180006261.01.T01:intron
AAGAGTGTGAGAACTATGAT+TGG 0.546419 1:+101957660 MsG0180006261.01.T01:CDS
AGTATTGCAGGCATTAGCTC+TGG 0.560108 1:+101956973 MsG0180006261.01.T01:CDS
TAATCTACAAGACAAACAGC+AGG 0.560570 1:+101958116 MsG0180006261.01.T01:three_prime_UTR
AGATGAAACATTACCTGATG+AGG 0.570932 1:+101957021 MsG0180006261.01.T01:CDS
GTTTAACAGTAGTCAAATGC+TGG 0.572208 1:-101958023 None:intergenic
GCAGGCATTAGCTCTGGAAG+AGG 0.576363 1:+101956979 MsG0180006261.01.T01:CDS
GTTGAAGGATTTGACAGTGG+TGG 0.605755 1:+101957896 MsG0180006261.01.T01:intron
ATGGAAAAGTTATGATTCTG+GGG 0.612380 1:+101956909 None:intergenic
TGAGCTCGCTGATACTGGAA+AGG 0.617414 1:+101957685 MsG0180006261.01.T01:CDS
GAAACATTACCTGATGAGGA+AGG 0.638915 1:+101957025 MsG0180006261.01.T01:CDS
GAGTGTGAGAACTATGATTG+GGG 0.639036 1:+101957662 MsG0180006261.01.T01:CDS
TACTGCATAGTGTCTCTGCA+AGG 0.644229 1:-101956954 None:intergenic
AATCACCTGCAGACCAGGAG+TGG 0.644588 1:+101957511 MsG0180006261.01.T01:intron
ATAATTCTCCCCGTATACAG+AGG 0.677348 1:-101957558 None:intergenic
AATCTACAAGACAAACAGCA+GGG 0.690328 1:+101958117 MsG0180006261.01.T01:three_prime_UTR
GCAGTTGAAGGATTTGACAG+TGG 0.693560 1:+101957893 MsG0180006261.01.T01:intron
ATACGGGGAGAATTATGATG+AGG 0.697455 1:+101957565 MsG0180006261.01.T01:CDS
ATTCAAGTCCTCTGTATACG+GGG 0.705602 1:+101957550 MsG0180006261.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GCATATAATACTAATAAAAA+AGG - Chr1:101957140-101957159 None:intergenic 15.0%
!!! ACTATGCAAAATAAATTTTA+AGG - Chr1:101957715-101957734 None:intergenic 15.0%
!!! TTATTTTTGAAGTATTAACA+TGG + Chr1:101958165-101958184 MsG0180006261.01.T01:three_prime_UTR 15.0%
!! AACAGACTTCTTAATATATT+TGG + Chr1:101957160-101957179 MsG0180006261.01.T01:intron 20.0%
!! ACAGACTTCTTAATATATTT+GGG + Chr1:101957161-101957180 MsG0180006261.01.T01:intron 20.0%
!! TAAAAAAGTTAGAACAAAAG+TGG - Chr1:101957841-101957860 None:intergenic 20.0%
!! TATATTAAGAAGTTTGTCAA+TGG - Chr1:101957266-101957285 None:intergenic 20.0%
!!! TTCTTTTTTTATTTCCTGTT+TGG + Chr1:101957412-101957431 MsG0180006261.01.T01:intron 20.0%
! AGACTTCTTAATATATTTGG+GGG + Chr1:101957163-101957182 MsG0180006261.01.T01:intron 25.0%
! CAAATGGTTGAAACTTATAT+GGG - Chr1:101957357-101957376 None:intergenic 25.0%
! CAGACTTCTTAATATATTTG+GGG + Chr1:101957162-101957181 MsG0180006261.01.T01:intron 25.0%
! CTTAATATACTTTCTCCTAT+TGG + Chr1:101957277-101957296 MsG0180006261.01.T01:intron 25.0%
! GAAAATTTGAAAATGTTGCA+TGG - Chr1:101957802-101957821 None:intergenic 25.0%
! GAGTTGAAATATTATCTTAC+AGG + Chr1:101957918-101957937 MsG0180006261.01.T01:CDS 25.0%
! TTCCCATATGAGTTAATATT+CGG - Chr1:101957986-101958005 None:intergenic 25.0%
!! AATGTTTCATCTTTGATTTC+AGG - Chr1:101957013-101957032 None:intergenic 25.0%
!! TTTTGTGTTCCACTTAAATT+TGG + Chr1:101957326-101957345 MsG0180006261.01.T01:intron 25.0%
!!! GCTTTTGGTTTGATAAATTT+GGG + Chr1:101957735-101957754 MsG0180006261.01.T01:intron 25.0%
!!! TGCTTTTGGTTTGATAAATT+TGG + Chr1:101957734-101957753 MsG0180006261.01.T01:intron 25.0%
!!! TTTATTTTGCATAGTGCTTT+TGG + Chr1:101957720-101957739 MsG0180006261.01.T01:intron 25.0%
ACTTCTTAATATATTTGGGG+GGG + Chr1:101957165-101957184 MsG0180006261.01.T01:intron 30.0%
AGCCGAATATTAACTCATAT+GGG + Chr1:101957981-101958000 MsG0180006261.01.T01:CDS 30.0%
ATTACATCAACAAAACCTTG+TGG - Chr1:101957064-101957083 None:intergenic 30.0%
CCAAATGGTTGAAACTTATA+TGG - Chr1:101957358-101957377 None:intergenic 30.0%
CCATATAAGTTTCAACCATT+TGG + Chr1:101957355-101957374 MsG0180006261.01.T01:intron 30.0%
GACTTCTTAATATATTTGGG+GGG + Chr1:101957164-101957183 MsG0180006261.01.T01:intron 30.0%
TAGCCGAATATTAACTCATA+TGG + Chr1:101957980-101957999 MsG0180006261.01.T01:CDS 30.0%
TCCAGTGTATAATCCAAAAT+CGG - Chr1:101958079-101958098 None:intergenic 30.0%
TGCTTAAACTTTAAGCCAAT+GGG + Chr1:101957769-101957788 MsG0180006261.01.T01:intron 30.0%
TTGCTTAAACTTTAAGCCAA+TGG + Chr1:101957768-101957787 MsG0180006261.01.T01:intron 30.0%
! CTATTGGTTGAAACTCAAAT+AGG + Chr1:101957293-101957312 MsG0180006261.01.T01:intron 30.0%
! CTATTTGAGTTTCAACCAAT+AGG - Chr1:101957295-101957314 None:intergenic 30.0%
AAACTTTAAGCCAATGGGTA+GGG + Chr1:101957774-101957793 MsG0180006261.01.T01:intron 35.0%
AATCTACAAGACAAACAGCA+GGG + Chr1:101958117-101958136 MsG0180006261.01.T01:three_prime_UTR 35.0%
AATTCAAGTCCTCTGTATAC+GGG + Chr1:101957549-101957568 MsG0180006261.01.T01:CDS 35.0%
AGAGTGTGAGAACTATGATT+GGG + Chr1:101957661-101957680 MsG0180006261.01.T01:CDS 35.0%
AGATGAAACATTACCTGATG+AGG + Chr1:101957021-101957040 MsG0180006261.01.T01:CDS 35.0%
ATGGGAAAATGAGCAAGAAA+AGG + Chr1:101957999-101958018 MsG0180006261.01.T01:exon 35.0%
CCAGTGTATAATCCAAAATC+GGG - Chr1:101958078-101958097 None:intergenic 35.0%
GAACAACACACACAAGAAAA+CGG - Chr1:101958051-101958070 None:intergenic 35.0%
GAATTCAAGTCCTCTGTATA+CGG + Chr1:101957548-101957567 MsG0180006261.01.T01:CDS 35.0%
GTTTAACAGTAGTCAAATGC+TGG - Chr1:101958026-101958045 None:intergenic 35.0%
TAAACTTTAAGCCAATGGGT+AGG + Chr1:101957773-101957792 MsG0180006261.01.T01:intron 35.0%
TAATCTACAAGACAAACAGC+AGG + Chr1:101958116-101958135 MsG0180006261.01.T01:three_prime_UTR 35.0%
TCTAACACACTTGTACCAAA+TGG - Chr1:101957373-101957392 None:intergenic 35.0%
TGTGTTCCACTTAAATTTGG+TGG + Chr1:101957329-101957348 MsG0180006261.01.T01:intron 35.0%
! AAGAGTGTGAGAACTATGAT+TGG + Chr1:101957660-101957679 MsG0180006261.01.T01:CDS 35.0%
! TTGATAAATTTGGGACTAGC+AGG + Chr1:101957744-101957763 MsG0180006261.01.T01:intron 35.0%
!!! TGATCTTGTTTTGCAGTTGA+AGG + Chr1:101957881-101957900 MsG0180006261.01.T01:intron 35.0%
AACAAAACCTTGTGGTTACC+TGG - Chr1:101957056-101957075 None:intergenic 40.0%
AACTTTAAGCCAATGGGTAG+GGG + Chr1:101957775-101957794 MsG0180006261.01.T01:intron 40.0%
AATATATTTGGGGGGGTAAC+TGG + Chr1:101957172-101957191 MsG0180006261.01.T01:intron 40.0%
ATAATTCTCCCCGTATACAG+AGG - Chr1:101957561-101957580 None:intergenic 40.0%
ATACGGGGAGAATTATGATG+AGG + Chr1:101957565-101957584 MsG0180006261.01.T01:CDS 40.0%
ATTCAAGTCCTCTGTATACG+GGG + Chr1:101957550-101957569 MsG0180006261.01.T01:CDS 40.0%
CTTTCCAGTGAAGAGAGAAA+GGG - Chr1:101957438-101957457 None:intergenic 40.0%
GAAACATTACCTGATGAGGA+AGG + Chr1:101957025-101957044 MsG0180006261.01.T01:CDS 40.0%
GAGTGTGAGAACTATGATTG+GGG + Chr1:101957662-101957681 MsG0180006261.01.T01:CDS 40.0%
GGTAGAATTTCTTCCATCTC+TGG - Chr1:101957119-101957138 None:intergenic 40.0%
GTATAATCCAAAATCGGGTC+AGG - Chr1:101958073-101958092 None:intergenic 40.0%
TATGATGAGGAAAGTGAGCT+TGG + Chr1:101957578-101957597 MsG0180006261.01.T01:CDS 40.0%
TGGGTACCACCAAATTTAAG+TGG - Chr1:101957338-101957357 None:intergenic 40.0%
TTTGAGCTTGCGTTCAAACT+CGG + Chr1:101957195-101957214 MsG0180006261.01.T01:intron 40.0%
! CCCGATTTTGGATTATACAC+TGG + Chr1:101958075-101958094 MsG0180006261.01.T01:three_prime_UTR 40.0%
! GACACAATCTTCCTGTTTCT+GGG + Chr1:101957940-101957959 MsG0180006261.01.T01:CDS 40.0%
ACTTTAAGCCAATGGGTAGG+GGG + Chr1:101957776-101957795 MsG0180006261.01.T01:intron 45.0%
AGTATTGCAGGCATTAGCTC+TGG + Chr1:101956973-101956992 MsG0180006261.01.T01:CDS 45.0%
CCTTTCCAGTGAAGAGAGAA+AGG - Chr1:101957439-101957458 None:intergenic 45.0%
CCTTTCTCTCTTCACTGGAA+AGG + Chr1:101957436-101957455 MsG0180006261.01.T01:intron 45.0%
GAGACACTATGCAGTATTGC+AGG + Chr1:101956961-101956980 MsG0180006261.01.T01:CDS 45.0%
GCAGTTGAAGGATTTGACAG+TGG + Chr1:101957893-101957912 MsG0180006261.01.T01:intron 45.0%
GGACACAATCTTCCTGTTTC+TGG + Chr1:101957939-101957958 MsG0180006261.01.T01:CDS 45.0%
GTTGAAGGATTTGACAGTGG+TGG + Chr1:101957896-101957915 MsG0180006261.01.T01:intron 45.0%
TACTGCATAGTGTCTCTGCA+AGG - Chr1:101956957-101956976 None:intergenic 45.0%
TTTCAGACTGTGACCAGAGA+TGG + Chr1:101957103-101957122 MsG0180006261.01.T01:intron 45.0%
! AGCATGCGCTTTTCGTTTCT+TGG - Chr1:101957627-101957646 None:intergenic 45.0%
! ATGCGCTTTTCGTTTCTTGG+AGG - Chr1:101957624-101957643 None:intergenic 45.0%
! TGTTGTTCCTGACCCGATTT+TGG + Chr1:101958063-101958082 MsG0180006261.01.T01:three_prime_UTR 45.0%
!! TCTTCCTGTTTCTGGGAAGA+AGG + Chr1:101957947-101957966 MsG0180006261.01.T01:CDS 45.0%
CGTTTCTTGGAGGCTTCAGT+TGG - Chr1:101957614-101957633 None:intergenic 50.0%
CTTACAATCACCTGCAGACC+AGG + Chr1:101957506-101957525 MsG0180006261.01.T01:intron 50.0%
GAAGAGAGAAAGGGCCAAAC+AGG - Chr1:101957429-101957448 None:intergenic 50.0%
GCTTCCTTCTTCCCAGAAAC+AGG - Chr1:101957954-101957973 None:intergenic 50.0%
TGAGCTCGCTGATACTGGAA+AGG + Chr1:101957685-101957704 MsG0180006261.01.T01:CDS 50.0%
TTGCGTTCAAACTCGGACGA+AGG + Chr1:101957202-101957221 MsG0180006261.01.T01:intron 50.0%
TTGGCCCTTTCTCTCTTCAC+TGG + Chr1:101957431-101957450 MsG0180006261.01.T01:intron 50.0%
AATCACCTGCAGACCAGGAG+TGG + Chr1:101957511-101957530 MsG0180006261.01.T01:intron 55.0%
CGTTCAAACTCGGACGAAGG+AGG + Chr1:101957205-101957224 MsG0180006261.01.T01:intron 55.0%
CTGATGAGGAAGGCTTGTCC+AGG + Chr1:101957035-101957054 MsG0180006261.01.T01:CDS 55.0%
CTGGACAAGCCTTCCTCATC+AGG - Chr1:101957037-101957056 None:intergenic 55.0%
GAGGAAAGTGAGCTTGGCAC+TGG + Chr1:101957584-101957603 MsG0180006261.01.T01:CDS 55.0%
GGCTTGTCCAGGTAACCACA+AGG + Chr1:101957046-101957065 MsG0180006261.01.T01:intron 55.0%
TCTAATGCCCTGACCACTCC+TGG - Chr1:101957527-101957546 None:intergenic 55.0%
!! GCAGGCATTAGCTCTGGAAG+AGG + Chr1:101956979-101956998 MsG0180006261.01.T01:CDS 55.0%
CTGCAGACCAGGAGTGGTCA+GGG + Chr1:101957517-101957536 MsG0180006261.01.T01:intron 60.0%
TGGGGTGAGCTCGCTGATAC+TGG + Chr1:101957680-101957699 MsG0180006261.01.T01:CDS 60.0%
TTGCATGGCCCCCTACCCAT+TGG - Chr1:101957787-101957806 None:intergenic 60.0%
CCTGACCACTCCTGGTCTGC+AGG - Chr1:101957519-101957538 None:intergenic 65.0%
CCTGCAGACCAGGAGTGGTC+AGG + Chr1:101957516-101957535 MsG0180006261.01.T01:intron 65.0%
Chromosome Type Strat End Strand Name
Chr1 gene 101956920 101958237 101956920 ID=MsG0180006261.01;Name=MsG0180006261.01
Chr1 mRNA 101956920 101958237 101956920 ID=MsG0180006261.01.T01;Parent=MsG0180006261.01;Name=MsG0180006261.01.T01;_AED=0.50;_eAED=0.52;_QI=0|1|0.66|1|1|1|3|227|144
Chr1 exon 101956920 101957056 101956920 ID=MsG0180006261.01.T01:exon:15301;Parent=MsG0180006261.01.T01
Chr1 exon 101957523 101957706 101957523 ID=MsG0180006261.01.T01:exon:15302;Parent=MsG0180006261.01.T01
Chr1 exon 101957897 101958237 101957897 ID=MsG0180006261.01.T01:exon:15303;Parent=MsG0180006261.01.T01
Chr1 CDS 101956920 101957056 101956920 ID=MsG0180006261.01.T01:cds;Parent=MsG0180006261.01.T01
Chr1 CDS 101957523 101957706 101957523 ID=MsG0180006261.01.T01:cds;Parent=MsG0180006261.01.T01
Chr1 CDS 101957897 101958010 101957897 ID=MsG0180006261.01.T01:cds;Parent=MsG0180006261.01.T01
Chr1 three_prime_UTR 101958011 101958237 101958011 ID=MsG0180006261.01.T01:three_prime_utr;Parent=MsG0180006261.01.T01
Gene Sequence

>MsG0180006261.01.T01

ATGATTCTGGGGTTAGTAACGCAAGAGTTTTCAGCCTTGCAGAGACACTATGCAGTATTGCAGGCATTAGCTCTGGAAGAGGATGATATTCCTGAAATCAAAGATGAAACATTACCTGATGAGGAAGGCTTGTCCAGACCAGGAGTGGTCAGGGCATTAGAAGAATTCAAGTCCTCTGTATACGGGGAGAATTATGATGAGGAAAGTGAGCTTGGCACTGGAAAGCCAACTGAAGCCTCCAAGAAACGAAAAGCGCATGCTGAGTTTGCTATGAAAGAGTGTGAGAACTATGATTGGGGTGAGCTCGCTGATACTGGAAAGTTGAAGGATTTGACAGTGGTGGAGTTGAAATATTATCTTACAGGACACAATCTTCCTGTTTCTGGGAAGAAGGAAGCTTTAGTTAGCCGAATATTAACTCATATGGGAAAATGA

Protein sequence

>MsG0180006261.01.T01

MILGLVTQEFSALQRHYAVLQALALEEDDIPEIKDETLPDEEGLSRPGVVRALEEFKSSVYGENYDEESELGTGKPTEASKKRKAHAEFAMKECENYDWGELADTGKLKDLTVVELKYYLTGHNLPVSGKKEALVSRILTHMGK*