AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180003757.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180003757.01.T01 MTR_7g099390 66.216 148 35 5 1 144 1 137 2.34e-58 177
MsG0180003757.01.T01 MTR_1g069235 92.029 138 8 1 11 145 11 148 5.28e-54 167
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180003757.01.T01 AT2G20260 62.329 146 46 3 5 144 2 144 8.35e-45 144
MsG0180003757.01.T01 AT4G28750 58.621 145 50 3 5 144 2 141 1.09e-34 118

Find 61 sgRNAs with CRISPR-Local

Find 97 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAAGTAAACTTTAAGATTA+TGG 0.127183 1:-67733487 None:intergenic
CATTGGCGTAGTTCACTTTC+TGG 0.135317 1:-67733271 None:intergenic
CCAATATTGTTGGACTTTAA+AGG 0.153877 1:-67732367 None:intergenic
ATTGGTGGTGGCTTGGGTTT+AGG 0.254441 1:-67732487 None:intergenic
GGGGCCAATTGGTGGTGGCT+TGG 0.265521 1:-67732494 None:intergenic
GGGCCAATTGGTGGTGGCTT+GGG 0.275299 1:-67732493 None:intergenic
CCTTTAAAGTCCAACAATAT+TGG 0.281181 1:+67732367 MsG0180003757.01.T01:CDS
CAAGTAAACTTTAAGATTAT+GGG 0.291812 1:-67733486 None:intergenic
GTGGAGGCAGCAGGTGCAGC+CGG 0.318522 1:-67732436 None:intergenic
CAATATTGTTGGACTTTAAA+GGG 0.319284 1:-67732366 None:intergenic
CTTCTTCTAGACTTGTTGTC+AGG 0.342347 1:+67732395 MsG0180003757.01.T01:CDS
CTCAACAGGTGAAGATTCTT+AGG 0.381804 1:+67733059 MsG0180003757.01.T01:intron
GAACCTCTCTTGGGGCCAAT+TGG 0.393160 1:-67732505 None:intergenic
CTCTTGGGGCCAATTGGTGG+TGG 0.405813 1:-67732499 None:intergenic
TGGCCCCAAGAGAGGTTCTA+AGG 0.412793 1:+67732510 MsG0180003757.01.T01:CDS
ACGACAGGGTAGCGAGTCTT+GGG 0.413817 1:-67733239 None:intergenic
GATAATCTTAATGTGGCAAA+AGG 0.414539 1:-67732209 None:intergenic
AATTACCTTAGAACCTCTCT+TGG 0.417720 1:-67732515 None:intergenic
AGAAGAAGAACCAATATTGT+TGG 0.421736 1:-67732377 None:intergenic
TGCAGCCGGGGCAGCCTCAT+CGG 0.425226 1:-67732422 None:intergenic
ATCGACAAATAACTATGCTT+TGG 0.426234 1:+67733295 MsG0180003757.01.T01:CDS
ATGTGGCAAAAGGACAAGAT+TGG 0.428850 1:-67732199 None:intergenic
CCTTGATGAAGTTGTGTTGT+TGG 0.428946 1:-67732326 None:intergenic
GGTGGCTTGGGTTTAGGAGT+AGG 0.430314 1:-67732481 None:intergenic
CTTCTTATTGTAATCAAATG+AGG 0.430615 1:+67733509 MsG0180003757.01.T01:three_prime_UTR
CCTCTCTTGGGGCCAATTGG+TGG 0.430678 1:-67732502 None:intergenic
GCTGGAGCAGTGGAGGCAGC+AGG 0.442829 1:-67732445 None:intergenic
TTCTGGAATCGAACCACGAC+AGG 0.446735 1:-67733254 None:intergenic
ATTACCTTAGAACCTCTCTT+GGG 0.450802 1:-67732514 None:intergenic
CACGACAGGGTAGCGAGTCT+TGG 0.452960 1:-67733240 None:intergenic
GGCAACCGATGAGGCTGCCC+CGG 0.460044 1:+67732417 MsG0180003757.01.T01:CDS
GCTGCCTCCACTGCTCCAGC+TGG 0.461366 1:+67732448 MsG0180003757.01.T01:CDS
AAACCCAAGCCACCACCAAT+TGG 0.463084 1:+67732490 MsG0180003757.01.T01:CDS
GGAGGCAGCAGGTGCAGCCG+GGG 0.477518 1:-67732434 None:intergenic
TTCTTCTAGACTTGTTGTCA+GGG 0.490708 1:+67732396 MsG0180003757.01.T01:CDS
ATGGGCAACTGCACAATGAA+TGG 0.491942 1:-67733468 None:intergenic
GTAGGAGCAGCATCACCAGC+TGG 0.494338 1:-67732463 None:intergenic
TGGAGGCAGCAGGTGCAGCC+GGG 0.495138 1:-67732435 None:intergenic
AGCATGGCATCAGCAGCTAC+TGG 0.498675 1:+67732277 MsG0180003757.01.T01:CDS
ATCACCAGCTGGAGCAGTGG+AGG 0.508802 1:-67732452 None:intergenic
ATATTGAAGTTACTAGCCTA+AGG 0.519270 1:+67733378 MsG0180003757.01.T01:three_prime_UTR
AGCATCACCAGCTGGAGCAG+TGG 0.519718 1:-67732455 None:intergenic
TCCTACTGGTACAAAGGCAC+TGG 0.520039 1:+67733088 MsG0180003757.01.T01:CDS
ATAGTTATTTGTCGATACAT+TGG 0.524557 1:-67733288 None:intergenic
GATTGGATTGAGGTATGAGA+GGG 0.538866 1:-67732182 None:intergenic
TTCTTAGGAAGGAATCCTAC+TGG 0.542855 1:+67733074 MsG0180003757.01.T01:CDS
AGATTGGATTGAGGTATGAG+AGG 0.549056 1:-67732183 None:intergenic
ACAGGTGAAGATTCTTAGGA+AGG 0.576965 1:+67733063 MsG0180003757.01.T01:intron
AAGGAATCCTACTGGTACAA+AGG 0.577304 1:+67733082 MsG0180003757.01.T01:CDS
CCACCAATTGGCCCCAAGAG+AGG 0.582857 1:+67732502 MsG0180003757.01.T01:CDS
CAAGACTCGCTACCCTGTCG+TGG 0.613483 1:+67733241 MsG0180003757.01.T01:CDS
CCAACAACACAACTTCATCA+AGG 0.613961 1:+67732326 MsG0180003757.01.T01:CDS
AGTCATGGCTAGCAGCAGCA+TGG 0.629935 1:+67732261 MsG0180003757.01.T01:exon
CTTTAAAGGGAATATCAACA+TGG 0.637050 1:-67732353 None:intergenic
TGTTGTCAGGGCAACCGATG+AGG 0.640147 1:+67732408 MsG0180003757.01.T01:CDS
AAAAGGACAAGATTGGATTG+AGG 0.645570 1:-67732192 None:intergenic
TTACCTTAGAACCTCTCTTG+GGG 0.647944 1:-67732513 None:intergenic
CACAGAAAGAAAGATAGTCA+TGG 0.651778 1:+67732246 MsG0180003757.01.T01:exon
TCCAGTGCCTTTGTACCAGT+AGG 0.656987 1:-67733089 None:intergenic
CGACAGGGTAGCGAGTCTTG+GGG 0.696532 1:-67733238 None:intergenic
TCTGGAATCGAACCACGACA+GGG 0.707301 1:-67733253 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTATGAGGAAAAAACTTAA+AGG - Chr1:67733168-67733187 None:intergenic 20.0%
!!! ATGATATATTAGAGTGTTTT+TGG + Chr1:67732742-67732761 MsG0180003757.01.T01:intron 20.0%
!!! CAAGTAAACTTTAAGATTAT+GGG - Chr1:67733489-67733508 None:intergenic 20.0%
!!! GTTTAGTTTGAATTTACTTA+TGG + Chr1:67732626-67732645 MsG0180003757.01.T01:intron 20.0%
! ATAGTTATTTGTCGATACAT+TGG - Chr1:67733291-67733310 None:intergenic 25.0%
! ATTTCAACTAAAACTCACTT+GGG + Chr1:67732786-67732805 MsG0180003757.01.T01:intron 25.0%
! CAATATTGTTGGACTTTAAA+GGG - Chr1:67732369-67732388 None:intergenic 25.0%
! CTTCTTATTGTAATCAAATG+AGG + Chr1:67733509-67733528 MsG0180003757.01.T01:three_prime_UTR 25.0%
! TAGCTAAAGATAGTTGAAAT+AGG - Chr1:67732926-67732945 None:intergenic 25.0%
! TATTTCAACTAAAACTCACT+TGG + Chr1:67732785-67732804 MsG0180003757.01.T01:intron 25.0%
! TTCTTGTTGCAATTATACAT+TGG + Chr1:67732604-67732623 MsG0180003757.01.T01:intron 25.0%
!! TTTTGACATGAAAAAACCTT+AGG - Chr1:67733397-67733416 None:intergenic 25.0%
!!! AAGTGAGTTTTAGTTGAAAT+AGG - Chr1:67732786-67732805 None:intergenic 25.0%
!!! CTCTTTTGATAATCTTAATG+TGG - Chr1:67732219-67732238 None:intergenic 25.0%
!!! GCAAGTAAACTTTAAGATTA+TGG - Chr1:67733490-67733509 None:intergenic 25.0%
AGAAGAAGAACCAATATTGT+TGG - Chr1:67732380-67732399 None:intergenic 30.0%
ATCGACAAATAACTATGCTT+TGG + Chr1:67733295-67733314 MsG0180003757.01.T01:CDS 30.0%
CCAATATTGTTGGACTTTAA+AGG - Chr1:67732370-67732389 None:intergenic 30.0%
GAGGAAAAAACTTAAAGGTT+TGG - Chr1:67733163-67733182 None:intergenic 30.0%
GATAATCTTAATGTGGCAAA+AGG - Chr1:67732212-67732231 None:intergenic 30.0%
TGATACTACTTATGACTTTG+TGG + Chr1:67732700-67732719 MsG0180003757.01.T01:intron 30.0%
! ATATTGAAGTTACTAGCCTA+AGG + Chr1:67733378-67733397 MsG0180003757.01.T01:three_prime_UTR 30.0%
! CTTTAAAGGGAATATCAACA+TGG - Chr1:67732356-67732375 None:intergenic 30.0%
! TTGGTTGAAATTTGAGTTTG+AGG - Chr1:67733144-67733163 None:intergenic 30.0%
!! CCTTTAAAGTCCAACAATAT+TGG + Chr1:67732367-67732386 MsG0180003757.01.T01:CDS 30.0%
!!! GTTTTTTCCTCATAATCCAT+TGG + Chr1:67733172-67733191 MsG0180003757.01.T01:intron 30.0%
AAAAGGACAAGATTGGATTG+AGG - Chr1:67732195-67732214 None:intergenic 35.0%
AATCTCCGTAGTGTCAATTT+AGG + Chr1:67732870-67732889 MsG0180003757.01.T01:intron 35.0%
AATTACCTTAGAACCTCTCT+TGG - Chr1:67732518-67732537 None:intergenic 35.0%
ATTACCTTAGAACCTCTCTT+GGG - Chr1:67732517-67732536 None:intergenic 35.0%
CACAGAAAGAAAGATAGTCA+TGG + Chr1:67732246-67732265 MsG0180003757.01.T01:exon 35.0%
GATATTTCTTTGCACTCAAC+AGG + Chr1:67733045-67733064 MsG0180003757.01.T01:intron 35.0%
! CTATCTTTAGCTAGTCTACA+CGG + Chr1:67732933-67732952 MsG0180003757.01.T01:intron 35.0%
! GTAACTCAGCTCTTGTTTAA+CGG + Chr1:67733194-67733213 MsG0180003757.01.T01:intron 35.0%
!! TGAGTTACCAATGGATTATG+AGG - Chr1:67733182-67733201 None:intergenic 35.0%
!! TTCTTCTAGACTTGTTGTCA+GGG + Chr1:67732396-67732415 MsG0180003757.01.T01:CDS 35.0%
AACAAGAGCTGAGTTACCAA+TGG - Chr1:67733191-67733210 None:intergenic 40.0%
AAGGAATCCTACTGGTACAA+AGG + Chr1:67733082-67733101 MsG0180003757.01.T01:CDS 40.0%
ACAGGTGAAGATTCTTAGGA+AGG + Chr1:67733063-67733082 MsG0180003757.01.T01:intron 40.0%
AGATTGGATTGAGGTATGAG+AGG - Chr1:67732186-67732205 None:intergenic 40.0%
AGGTCTCAAGTCAATATCAC+CGG - Chr1:67732817-67732836 None:intergenic 40.0%
ATAACCGGTCTAAATTGACG+AGG + Chr1:67732976-67732995 MsG0180003757.01.T01:intron 40.0%
ATGTGGCAAAAGGACAAGAT+TGG - Chr1:67732202-67732221 None:intergenic 40.0%
CAACTAAAACTCACTTGGGT+TGG + Chr1:67732790-67732809 MsG0180003757.01.T01:intron 40.0%
CCAACAACACAACTTCATCA+AGG + Chr1:67732326-67732345 MsG0180003757.01.T01:CDS 40.0%
CCTTGATGAAGTTGTGTTGT+TGG - Chr1:67732329-67732348 None:intergenic 40.0%
CTCAACAGGTGAAGATTCTT+AGG + Chr1:67733059-67733078 MsG0180003757.01.T01:intron 40.0%
GATTGGATTGAGGTATGAGA+GGG - Chr1:67732185-67732204 None:intergenic 40.0%
GTCCACCTAAATTGACACTA+CGG - Chr1:67732878-67732897 None:intergenic 40.0%
TAACCGGTCTAAATTGACGA+GGG + Chr1:67732977-67732996 MsG0180003757.01.T01:intron 40.0%
TTACCTTAGAACCTCTCTTG+GGG - Chr1:67732516-67732535 None:intergenic 40.0%
TTCTTAGGAAGGAATCCTAC+TGG + Chr1:67733074-67733093 MsG0180003757.01.T01:CDS 40.0%
!! CTTCTTCTAGACTTGTTGTC+AGG + Chr1:67732395-67732414 MsG0180003757.01.T01:CDS 40.0%
!! TCGGTGATTAGTCTCATAAC+CGG + Chr1:67732961-67732980 MsG0180003757.01.T01:intron 40.0%
ATGGGCAACTGCACAATGAA+TGG - Chr1:67733471-67733490 None:intergenic 45.0%
CATTGGCGTAGTTCACTTTC+TGG - Chr1:67733274-67733293 None:intergenic 45.0%
CTCCGTAGTGTCAATTTAGG+TGG + Chr1:67732873-67732892 MsG0180003757.01.T01:intron 45.0%
GGTCTCAAGTCAATATCACC+GGG - Chr1:67732816-67732835 None:intergenic 45.0%
TCACCCTCGTCAATTTAGAC+CGG - Chr1:67732983-67733002 None:intergenic 45.0%
TTGAACCTGAGACCTTGAAG+AGG - Chr1:67732851-67732870 None:intergenic 45.0%
! CGGATTTCTCTTTGTTGTGC+AGG + Chr1:67733214-67733233 MsG0180003757.01.T01:intron 45.0%
! GCTAGTCTACACGGTCAAAT+CGG + Chr1:67732942-67732961 MsG0180003757.01.T01:intron 45.0%
AAACCCAAGCCACCACCAAT+TGG + Chr1:67732490-67732509 MsG0180003757.01.T01:CDS 50.0%
TCCAGTGCCTTTGTACCAGT+AGG - Chr1:67733092-67733111 None:intergenic 50.0%
! TCCTACTGGTACAAAGGCAC+TGG + Chr1:67733088-67733107 MsG0180003757.01.T01:CDS 50.0%
! TCTGGAATCGAACCACGACA+GGG - Chr1:67733256-67733275 None:intergenic 50.0%
! TGAGAGTGTGCTCCTCTTCA+AGG + Chr1:67732836-67732855 MsG0180003757.01.T01:intron 50.0%
! TTGAAGAGGAGCACACTCTC+AGG - Chr1:67732837-67732856 None:intergenic 50.0%
!! AAAACTCACTTGGGTTGGCC+CGG + Chr1:67732795-67732814 MsG0180003757.01.T01:intron 50.0%
!! ATTGGTGGTGGCTTGGGTTT+AGG - Chr1:67732490-67732509 None:intergenic 50.0%
!! TTCTGGAATCGAACCACGAC+AGG - Chr1:67733257-67733276 None:intergenic 50.0%
ACGACAGGGTAGCGAGTCTT+GGG - Chr1:67733242-67733261 None:intergenic 55.0%
AGCATGGCATCAGCAGCTAC+TGG + Chr1:67732277-67732296 MsG0180003757.01.T01:CDS 55.0%
AGTCATGGCTAGCAGCAGCA+TGG + Chr1:67732261-67732280 MsG0180003757.01.T01:exon 55.0%
GAACCTCTCTTGGGGCCAAT+TGG - Chr1:67732508-67732527 None:intergenic 55.0%
GTGCTCCTCTTCAAGGTCTC+AGG + Chr1:67732843-67732862 MsG0180003757.01.T01:intron 55.0%
TGGCCCCAAGAGAGGTTCTA+AGG + Chr1:67732510-67732529 MsG0180003757.01.T01:CDS 55.0%
TGTTGTCAGGGCAACCGATG+AGG + Chr1:67732408-67732427 MsG0180003757.01.T01:CDS 55.0%
! GGTGGCTTGGGTTTAGGAGT+AGG - Chr1:67732484-67732503 None:intergenic 55.0%
AGCATCACCAGCTGGAGCAG+TGG - Chr1:67732458-67732477 None:intergenic 60.0%
ATCACCAGCTGGAGCAGTGG+AGG - Chr1:67732455-67732474 None:intergenic 60.0%
CAAGACTCGCTACCCTGTCG+TGG + Chr1:67733241-67733260 MsG0180003757.01.T01:CDS 60.0%
CACGACAGGGTAGCGAGTCT+TGG - Chr1:67733243-67733262 None:intergenic 60.0%
CCACCAATTGGCCCCAAGAG+AGG + Chr1:67732502-67732521 MsG0180003757.01.T01:CDS 60.0%
CCTCTCTTGGGGCCAATTGG+TGG - Chr1:67732505-67732524 None:intergenic 60.0%
CGACAGGGTAGCGAGTCTTG+GGG - Chr1:67733241-67733260 None:intergenic 60.0%
CTCTTGGGGCCAATTGGTGG+TGG - Chr1:67732502-67732521 None:intergenic 60.0%
GTAGGAGCAGCATCACCAGC+TGG - Chr1:67732466-67732485 None:intergenic 60.0%
!! GGGCCAATTGGTGGTGGCTT+GGG - Chr1:67732496-67732515 None:intergenic 60.0%
!! GGGGCCAATTGGTGGTGGCT+TGG - Chr1:67732497-67732516 None:intergenic 65.0%
GCTGCCTCCACTGCTCCAGC+TGG + Chr1:67732448-67732467 MsG0180003757.01.T01:CDS 70.0%
GCTGGAGCAGTGGAGGCAGC+AGG - Chr1:67732448-67732467 None:intergenic 70.0%
GGCAACCGATGAGGCTGCCC+CGG + Chr1:67732417-67732436 MsG0180003757.01.T01:CDS 70.0%
GTGGAGGCAGCAGGTGCAGC+CGG - Chr1:67732439-67732458 None:intergenic 70.0%
TGCAGCCGGGGCAGCCTCAT+CGG - Chr1:67732425-67732444 None:intergenic 70.0%
TGGAGGCAGCAGGTGCAGCC+GGG - Chr1:67732438-67732457 None:intergenic 70.0%
GGAGGCAGCAGGTGCAGCCG+GGG - Chr1:67732437-67732456 None:intergenic 75.0%
Chromosome Type Strat End Strand Name
Chr1 gene 67732171 67733539 67732171 ID=MsG0180003757.01;Name=MsG0180003757.01
Chr1 mRNA 67732171 67733539 67732171 ID=MsG0180003757.01.T01;Parent=MsG0180003757.01;Name=MsG0180003757.01.T01;_AED=0.26;_eAED=0.26;_QI=94|1|1|1|1|1|3|199|145
Chr1 exon 67732171 67732531 67732171 ID=MsG0180003757.01.T01:exon:51700;Parent=MsG0180003757.01.T01
Chr1 exon 67733067 67733132 67733067 ID=MsG0180003757.01.T01:exon:51701;Parent=MsG0180003757.01.T01
Chr1 exon 67733236 67733539 67733236 ID=MsG0180003757.01.T01:exon:51702;Parent=MsG0180003757.01.T01
Chr1 five_prime_UTR 67732171 67732264 67732171 ID=MsG0180003757.01.T01:five_prime_utr;Parent=MsG0180003757.01.T01
Chr1 CDS 67732265 67732531 67732265 ID=MsG0180003757.01.T01:cds;Parent=MsG0180003757.01.T01
Chr1 CDS 67733067 67733132 67733067 ID=MsG0180003757.01.T01:cds;Parent=MsG0180003757.01.T01
Chr1 CDS 67733236 67733340 67733236 ID=MsG0180003757.01.T01:cds;Parent=MsG0180003757.01.T01
Chr1 three_prime_UTR 67733341 67733539 67733341 ID=MsG0180003757.01.T01:three_prime_utr;Parent=MsG0180003757.01.T01
Gene Sequence

>MsG0180003757.01.T01

ATGGCTAGCAGCAGCATGGCATCAGCAGCTACTGGATTTTTGTTGTCACTTAATGTTGCTTCCAACAACACAACTTCATCAAGGAGTACCATGTTGATATTCCCTTTAAAGTCCAACAATATTGGTTCTTCTTCTTCTAGACTTGTTGTCAGGGCAACCGATGAGGCTGCCCCGGCTGCACCTGCTGCCTCCACTGCTCCAGCTGGTGATGCTGCTCCTACTCCTAAACCCAAGCCACCACCAATTGGCCCCAAGAGAGGTTCTAAGGTGAAGATTCTTAGGAAGGAATCCTACTGGTACAAAGGCACTGGATCAGTTGTTGCTGTTGATCAAGACCCCAAGACTCGCTACCCTGTCGTGGTTCGATTCCAGAAAGTGAACTACGCCAATGTATCGACAAATAACTATGCTTTGGATGAGATTGAAGAAGTTGTTTAA

Protein sequence

>MsG0180003757.01.T01

MASSSMASAATGFLLSLNVASNNTTSSRSTMLIFPLKSNNIGSSSSRLVVRATDEAAPAAPAASTAPAGDAAPTPKPKPPPIGPKRGSKVKILRKESYWYKGTGSVVAVDQDPKTRYPVVVRFQKVNYANVSTNNYALDEIEEVV*