AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007915.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007915.01.T01 MTR_2g035220 96.815 157 5 0 1 157 1 157 4.13e-107 302
MsG0280007915.01.T01 MTR_2g035210 93.631 157 10 0 1 157 1 157 4.20e-104 295
MsG0280007915.01.T01 MTR_2g035190 90.446 157 15 0 1 157 1 157 2.05e-99 283
MsG0280007915.01.T01 MTR_2g035320 87.898 157 19 0 1 157 1 157 9.53e-98 278
MsG0280007915.01.T01 MTR_6g033450 66.879 157 52 0 1 157 1 157 4.55e-69 206
MsG0280007915.01.T01 MTR_4g120970 66.879 157 52 0 1 157 1 157 4.55e-69 206
MsG0280007915.01.T01 MTR_2g035100 63.057 157 58 0 1 157 1 157 4.44e-65 196
MsG0280007915.01.T01 MTR_2g035150 64.331 157 56 0 1 157 1 157 9.14e-65 195
MsG0280007915.01.T01 MTR_2g035105 62.420 157 59 0 1 157 1 157 3.48e-64 194
MsG0280007915.01.T01 MTR_2g035130 60.510 157 62 0 1 157 1 157 8.83e-62 187
MsG0280007915.01.T01 MTR_2g035120 59.236 157 64 0 1 157 1 157 2.64e-59 181
MsG0280007915.01.T01 MTR_2g035320 87.500 96 12 0 62 157 27 122 3.75e-57 174
MsG0280007915.01.T01 MTR_2g035170 49.315 146 74 0 12 157 12 157 1.66e-47 151
MsG0280007915.01.T01 MTR_4g120760 34.395 157 102 1 1 156 1 157 2.88e-31 110
MsG0280007915.01.T01 MTR_4g120760 34.395 157 102 1 1 156 1 157 3.35e-31 110
MsG0280007915.01.T01 MTR_2g435310 31.410 156 106 1 1 155 1 156 5.25e-30 107
MsG0280007915.01.T01 MTR_4g120950 40.373 161 89 5 1 157 1 158 1.02e-29 106
MsG0280007915.01.T01 MTR_4g120940 65.753 73 25 0 85 157 47 119 3.85e-24 90.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 46 sgRNAs with CRISPR-Local

Find 98 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATACATTTACTTAATAATT+AGG 0.132764 2:-22858260 None:intergenic
TGGGCAGCTGGAATCACTTT+TGG 0.232227 2:-22856787 None:intergenic
GATAATTTCTTGATGGTTCC+TGG 0.258662 2:-22856841 None:intergenic
CTTGATAAGTCCAGTTCCTT+TGG 0.324632 2:-22858210 None:intergenic
GGCCATTGAGGGCTACGTTT+TGG 0.338863 2:+22858232 MsG0280007915.01.T01:CDS
ATACATTTACTTAATAATTA+GGG 0.345110 2:-22858259 None:intergenic
TACAGCATAGTGGGAGGAAC+AGG 0.371602 2:+22858044 MsG0280007915.01.T01:CDS
AAGTCCAGTTCCTTTGGCTT+TGG 0.382566 2:-22858204 None:intergenic
AGAGCTTTGTAGAGTTTAGC+TGG 0.394931 2:-22856739 None:intergenic
AGCAGTGGATGAGGCAAACT+TGG 0.402684 2:+22858013 MsG0280007915.01.T01:CDS
CTTCAACAATTTCAACACTC+TGG 0.405408 2:-22856807 None:intergenic
AGATAGAGTTGCATCACCTT+TGG 0.412652 2:-22858162 None:intergenic
AGACATGGATAATTTCTTGA+TGG 0.415791 2:-22856848 None:intergenic
GAGACCAAAGCCAAAGGAAC+TGG 0.425614 2:+22858200 MsG0280007915.01.T01:CDS
AGTGTTGTGGCTGGCTCTGA+TGG 0.429803 2:+22858104 MsG0280007915.01.T01:CDS
ATTTCAACACTCTGGGCAGC+TGG 0.438114 2:-22856799 None:intergenic
GTTGAAATTGTTGAAGGAAA+TGG 0.443294 2:+22856814 MsG0280007915.01.T01:CDS
TTCAACAATTTCAACACTCT+GGG 0.491385 2:-22856806 None:intergenic
CAAAGGAACTGGACTTATCA+AGG 0.497615 2:+22858211 MsG0280007915.01.T01:CDS
CAGAGTGTTGAAATTGTTGA+AGG 0.502542 2:+22856808 MsG0280007915.01.T01:CDS
GGACTTATCAAGGCCATTGA+GGG 0.514208 2:+22858221 MsG0280007915.01.T01:CDS
TGCCAAAACGTAGCCCTCAA+TGG 0.516239 2:-22858234 None:intergenic
GTTGTGGCTGGCTCTGATGG+TGG 0.516642 2:+22858107 MsG0280007915.01.T01:CDS
TTGTGGCTGGCTCTGATGGT+GGG 0.520055 2:+22858108 MsG0280007915.01.T01:CDS
CAAATTAGAAGCAGTGGATG+AGG 0.520372 2:+22858004 MsG0280007915.01.T01:CDS
GGGATACAACTACAGCATAG+TGG 0.549531 2:+22858034 MsG0280007915.01.T01:CDS
TTATCAATTACCTTCAGACA+TGG 0.554159 2:-22856863 None:intergenic
GGATACAACTACAGCATAGT+GGG 0.569267 2:+22858035 MsG0280007915.01.T01:CDS
TGGACTTATCAAGGCCATTG+AGG 0.572485 2:+22858220 MsG0280007915.01.T01:CDS
TTTCACTGAAATCTTAACAA+TGG 0.575851 2:-22858132 None:intergenic
GAAATTGTTGAAGGAAATGG+TGG 0.582127 2:+22856817 MsG0280007915.01.T01:CDS
GTTGAAGGAAATGGTGGACC+AGG 0.585895 2:+22856823 MsG0280007915.01.T01:CDS
TAATTTGTGTAGCACAAAGT+CGG 0.587472 2:-22857988 None:intergenic
TTCGAGACAAGTGTTGTGGC+TGG 0.589865 2:+22858095 MsG0280007915.01.T01:CDS
AAGAAATTATCCATGTCTGA+AGG 0.597444 2:+22856853 MsG0280007915.01.T01:CDS
GCTACACAAATTAGAAGCAG+TGG 0.603203 2:+22857998 MsG0280007915.01.T01:CDS
CATAGTGGGAGGAACAGGGT+TGG 0.609437 2:+22858049 MsG0280007915.01.T01:CDS
GCAGTGGATGAGGCAAACTT+GGG 0.627060 2:+22858014 MsG0280007915.01.T01:CDS
GAGTTGCATCACCTTTGGTG+TGG 0.638190 2:-22858157 None:intergenic
TGAATTCGAGACAAGTGTTG+TGG 0.660471 2:+22858091 MsG0280007915.01.T01:CDS
TCAGTGAAATACCACACCAA+AGG 0.661287 2:+22858146 MsG0280007915.01.T01:CDS
CGTGAGGAGACCAAAGCCAA+AGG 0.666854 2:+22858194 MsG0280007915.01.T01:CDS
TCTATCTGAAGCAGTACGTG+AGG 0.676642 2:+22858178 MsG0280007915.01.T01:CDS
ACAGCATAGTGGGAGGAACA+GGG 0.682935 2:+22858045 MsG0280007915.01.T01:CDS
TACAACTACAGCATAGTGGG+AGG 0.704851 2:+22858038 MsG0280007915.01.T01:CDS
TGATGAACATGTCTCAACTG+TGG 0.723859 2:+22856714 MsG0280007915.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAAATAAATAATAAATAA+CGG + Chr2:22857110-22857129 MsG0280007915.01.T01:intron 0.0%
!! AAAAAAAAAAAACTATAACA+TGG + Chr2:22857559-22857578 MsG0280007915.01.T01:intron 10.0%
!! AATTTGTATATAAATTATGA+TGG + Chr2:22857945-22857964 MsG0280007915.01.T01:intron 10.0%
!! ATTTGTATATAAATTATGAT+GGG + Chr2:22857946-22857965 MsG0280007915.01.T01:intron 10.0%
!! TTAATAACTTAATTGTAAAT+AGG + Chr2:22857448-22857467 MsG0280007915.01.T01:intron 10.0%
!!! ATAGTTTTTTTTTTTTTTTG+AGG - Chr2:22857555-22857574 None:intergenic 10.0%
!!! TAGTTTTTTTTTTTTTTTGA+GGG - Chr2:22857554-22857573 None:intergenic 10.0%
!! AAGAAACTATTACATTTAAA+CGG + Chr2:22857775-22857794 MsG0280007915.01.T01:intron 15.0%
!! AATTTAACTAAAGATTGTTT+CGG - Chr2:22857904-22857923 None:intergenic 15.0%
!! ACATAAATTCTCAATAAATT+TGG - Chr2:22857169-22857188 None:intergenic 15.0%
!! TAATTTCAACTATCAATTAT+AGG + Chr2:22857376-22857395 MsG0280007915.01.T01:intron 15.0%
!!! TTTATTTTTTCCATGAAAAA+TGG - Chr2:22857088-22857107 None:intergenic 15.0%
!! ATGTAATAGTTTCTTACTAT+AGG - Chr2:22857770-22857789 None:intergenic 20.0%
!! CTTATTATCATTTACGAATA+TGG - Chr2:22857475-22857494 None:intergenic 20.0%
!! TTCAATTCAAGTATTTGAAT+AGG + Chr2:22856966-22856985 MsG0280007915.01.T01:intron 20.0%
!!! AGTTCAAGTTTAGAATTTTA+CGG - Chr2:22857204-22857223 None:intergenic 20.0%
!!! TGAAGCTTTAAATTTATTGA+TGG - Chr2:22857057-22857076 None:intergenic 20.0%
! TTTCACTGAAATCTTAACAA+TGG - Chr2:22858135-22858154 None:intergenic 25.0%
!! TTGAATTCAACAACTCTTTT+TGG - Chr2:22856951-22856970 None:intergenic 25.0%
!! TTTCAATGTTTTCAACTTCA+TGG + Chr2:22857403-22857422 MsG0280007915.01.T01:intron 25.0%
!! TTTTCAACTTCATGGTAAAT+AGG + Chr2:22857411-22857430 MsG0280007915.01.T01:intron 25.0%
AAAATGCCAAAATACCTTCA+TGG + Chr2:22857624-22857643 MsG0280007915.01.T01:intron 30.0%
AAAGATCCAACTATTTGTGT+CGG + Chr2:22857245-22857264 MsG0280007915.01.T01:intron 30.0%
AAGAAATTATCCATGTCTGA+AGG + Chr2:22856853-22856872 MsG0280007915.01.T01:CDS 30.0%
AATCAGCGTAACATAATATG+TGG + Chr2:22857506-22857525 MsG0280007915.01.T01:intron 30.0%
AGACATGGATAATTTCTTGA+TGG - Chr2:22856851-22856870 None:intergenic 30.0%
ATACAATTCATGCAAGGTTA+TGG + Chr2:22857136-22857155 MsG0280007915.01.T01:intron 30.0%
ATCGGAGATTTGAAAGTAAT+TGG - Chr2:22857879-22857898 None:intergenic 30.0%
CTCTCAAATTTGAGAATTGA+AGG + Chr2:22857006-22857025 MsG0280007915.01.T01:intron 30.0%
CTTCAATTCTCAAATTTGAG+AGG - Chr2:22857008-22857027 None:intergenic 30.0%
GTTGAAATTGTTGAAGGAAA+TGG + Chr2:22856814-22856833 MsG0280007915.01.T01:CDS 30.0%
TCAGTGAATCACTATTACAA+TGG - Chr2:22857286-22857305 None:intergenic 30.0%
TTATCAATTACCTTCAGACA+TGG - Chr2:22856866-22856885 None:intergenic 30.0%
TTCAACAATTTCAACACTCT+GGG - Chr2:22856809-22856828 None:intergenic 30.0%
! TAATTTGTGTAGCACAAAGT+CGG - Chr2:22857991-22858010 None:intergenic 30.0%
!! AATTATGATGGGTGTATTGT+AGG + Chr2:22857957-22857976 MsG0280007915.01.T01:intron 30.0%
!! CAAAGAACAACCATTTTTCA+TGG + Chr2:22857075-22857094 MsG0280007915.01.T01:intron 30.0%
!!! AAGGTATTTTGGCATTTTCA+CGG - Chr2:22857622-22857641 None:intergenic 30.0%
!!! TAACTACCATGAAGGTATTT+TGG - Chr2:22857633-22857652 None:intergenic 30.0%
AGTTAACCGACACAAATAGT+TGG - Chr2:22857254-22857273 None:intergenic 35.0%
CTAAAGATTGTTTCGGTCAT+CGG - Chr2:22857897-22857916 None:intergenic 35.0%
CTTCAACAATTTCAACACTC+TGG - Chr2:22856810-22856829 None:intergenic 35.0%
GAAATTGTTGAAGGAAATGG+TGG + Chr2:22856817-22856836 MsG0280007915.01.T01:CDS 35.0%
TTTGAGAATTGAAGGAGACA+TGG + Chr2:22857014-22857033 MsG0280007915.01.T01:intron 35.0%
! GATAATTTCTTGATGGTTCC+TGG - Chr2:22856844-22856863 None:intergenic 35.0%
! TTCGAACTAGAGTTGATTGT+TGG + Chr2:22857812-22857831 MsG0280007915.01.T01:intron 35.0%
!! CAGAGTGTTGAAATTGTTGA+AGG + Chr2:22856808-22856827 MsG0280007915.01.T01:CDS 35.0%
!! TTTGTGTCGGTTAACTAGAA+AGG + Chr2:22857258-22857277 MsG0280007915.01.T01:intron 35.0%
ACTTGAACTCAAATCACACC+AGG + Chr2:22857215-22857234 MsG0280007915.01.T01:intron 40.0%
AGATAGAGTTGCATCACCTT+TGG - Chr2:22858165-22858184 None:intergenic 40.0%
CAAAGGAACTGGACTTATCA+AGG + Chr2:22858211-22858230 MsG0280007915.01.T01:CDS 40.0%
CAAATTAGAAGCAGTGGATG+AGG + Chr2:22858004-22858023 MsG0280007915.01.T01:CDS 40.0%
CACGGTAGATTGGAGTAAAA+AGG - Chr2:22857604-22857623 None:intergenic 40.0%
CGGGATATACAATTCATGCA+AGG + Chr2:22857130-22857149 MsG0280007915.01.T01:intron 40.0%
CTTGAACTCAAATCACACCA+GGG + Chr2:22857216-22857235 MsG0280007915.01.T01:intron 40.0%
CTTGATAAGTCCAGTTCCTT+TGG - Chr2:22858213-22858232 None:intergenic 40.0%
GCTACACAAATTAGAAGCAG+TGG + Chr2:22857998-22858017 MsG0280007915.01.T01:CDS 40.0%
GGATACAACTACAGCATAGT+GGG + Chr2:22858035-22858054 MsG0280007915.01.T01:CDS 40.0%
TCAGTGAAATACCACACCAA+AGG + Chr2:22858146-22858165 MsG0280007915.01.T01:CDS 40.0%
TGATGAACATGTCTCAACTG+TGG + Chr2:22856714-22856733 MsG0280007915.01.T01:CDS 40.0%
! AGAGCTTTGTAGAGTTTAGC+TGG - Chr2:22856742-22856761 None:intergenic 40.0%
! TGAATTCGAGACAAGTGTTG+TGG + Chr2:22858091-22858110 MsG0280007915.01.T01:CDS 40.0%
! TGTTGGTTAACTGTCGATTG+GGG + Chr2:22857686-22857705 MsG0280007915.01.T01:intron 40.0%
! TTGGCATTTTCACGGTAGAT+TGG - Chr2:22857614-22857633 None:intergenic 40.0%
!! AACTGTCGATTGGGGTATTT+TGG + Chr2:22857694-22857713 MsG0280007915.01.T01:intron 40.0%
!! AGTGTTGGTTAACTGTCGAT+TGG + Chr2:22857684-22857703 MsG0280007915.01.T01:intron 40.0%
!! GTGTTGGTTAACTGTCGATT+GGG + Chr2:22857685-22857704 MsG0280007915.01.T01:intron 40.0%
!! TATGATGGGTGTATTGTAGG+TGG + Chr2:22857960-22857979 MsG0280007915.01.T01:intron 40.0%
GGACTTATCAAGGCCATTGA+GGG + Chr2:22858221-22858240 MsG0280007915.01.T01:CDS 45.0%
GGGATACAACTACAGCATAG+TGG + Chr2:22858034-22858053 MsG0280007915.01.T01:CDS 45.0%
GTTGGATCTTTCGTTTACCC+TGG - Chr2:22857236-22857255 None:intergenic 45.0%
TCGCTCAGCAAATGTTGTTG+TGG + Chr2:22857657-22857676 MsG0280007915.01.T01:intron 45.0%
TGGACTTATCAAGGCCATTG+AGG + Chr2:22858220-22858239 MsG0280007915.01.T01:CDS 45.0%
! AAGTCCAGTTCCTTTGGCTT+TGG - Chr2:22858207-22858226 None:intergenic 45.0%
! TACAACTACAGCATAGTGGG+AGG + Chr2:22858038-22858057 MsG0280007915.01.T01:CDS 45.0%
! TCTATCTGAAGCAGTACGTG+AGG + Chr2:22858178-22858197 MsG0280007915.01.T01:CDS 45.0%
!! ATAAATAAATAATAAATAAC+GGG + Chr2:22857111-22857130 MsG0280007915.01.T01:intron 5.0%
!!! TTAAATTTTATTTACATTTA+AGG + Chr2:22857917-22857936 MsG0280007915.01.T01:intron 5.0%
AGCAGTGGATGAGGCAAACT+TGG + Chr2:22858013-22858032 MsG0280007915.01.T01:CDS 50.0%
ATTTCAACACTCTGGGCAGC+TGG - Chr2:22856802-22856821 None:intergenic 50.0%
GAGACCAAAGCCAAAGGAAC+TGG + Chr2:22858200-22858219 MsG0280007915.01.T01:CDS 50.0%
GAGTTGCATCACCTTTGGTG+TGG - Chr2:22858160-22858179 None:intergenic 50.0%
GCAGTGGATGAGGCAAACTT+GGG + Chr2:22858014-22858033 MsG0280007915.01.T01:CDS 50.0%
GCGACAGCTAACTACCATGA+AGG - Chr2:22857641-22857660 None:intergenic 50.0%
TGCCAAAACGTAGCCCTCAA+TGG - Chr2:22858237-22858256 None:intergenic 50.0%
TGTTGTTGTGGAGCGAGTGT+TGG + Chr2:22857669-22857688 MsG0280007915.01.T01:intron 50.0%
! ACAGCATAGTGGGAGGAACA+GGG + Chr2:22858045-22858064 MsG0280007915.01.T01:CDS 50.0%
! TACAGCATAGTGGGAGGAAC+AGG + Chr2:22858044-22858063 MsG0280007915.01.T01:CDS 50.0%
! TGGGCAGCTGGAATCACTTT+TGG - Chr2:22856790-22856809 None:intergenic 50.0%
! TTCGAGACAAGTGTTGTGGC+TGG + Chr2:22858095-22858114 MsG0280007915.01.T01:CDS 50.0%
!! GGGCAGCTGGAATCACTTTT+GGG - Chr2:22856789-22856808 None:intergenic 50.0%
!! GTTGAAGGAAATGGTGGACC+AGG + Chr2:22856823-22856842 MsG0280007915.01.T01:CDS 50.0%
CGTGAGGAGACCAAAGCCAA+AGG + Chr2:22858194-22858213 MsG0280007915.01.T01:CDS 55.0%
! CATAGTGGGAGGAACAGGGT+TGG + Chr2:22858049-22858068 MsG0280007915.01.T01:CDS 55.0%
! GGCCATTGAGGGCTACGTTT+TGG + Chr2:22858232-22858251 MsG0280007915.01.T01:CDS 55.0%
!! AGTGTTGTGGCTGGCTCTGA+TGG + Chr2:22858104-22858123 MsG0280007915.01.T01:CDS 55.0%
!! TTGTGGCTGGCTCTGATGGT+GGG + Chr2:22858108-22858127 MsG0280007915.01.T01:CDS 55.0%
!! GTTGTGGCTGGCTCTGATGG+TGG + Chr2:22858107-22858126 MsG0280007915.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 22856694 22858271 22856694 ID=MsG0280007915.01;Name=MsG0280007915.01
Chr2 mRNA 22856694 22858271 22856694 ID=MsG0280007915.01.T01;Parent=MsG0280007915.01;Name=MsG0280007915.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|1|2|0|157
Chr2 exon 22856694 22856874 22856694 ID=MsG0280007915.01.T01:exon:13885;Parent=MsG0280007915.01.T01
Chr2 exon 22857979 22858271 22857979 ID=MsG0280007915.01.T01:exon:13886;Parent=MsG0280007915.01.T01
Chr2 CDS 22856694 22856874 22856694 ID=MsG0280007915.01.T01:cds;Parent=MsG0280007915.01.T01
Chr2 CDS 22857979 22858271 22857979 ID=MsG0280007915.01.T01:cds;Parent=MsG0280007915.01.T01
Gene Sequence

>MsG0280007915.01.T01

ATGGGTGTTTTTGTTTTCATTGATGAACATGTCTCAACTGTGGCTCCAGCTAAACTCTACAAAGCTCTTGCAAAAGATGCTGATGAAATCATCCCAAAAGTGATTCCAGCTGCCCAGAGTGTTGAAATTGTTGAAGGAAATGGTGGACCAGGAACCATCAAGAAATTATCCATGTCTGAAGGTGGCAAAACCGACTTTGTGCTACACAAATTAGAAGCAGTGGATGAGGCAAACTTGGGATACAACTACAGCATAGTGGGAGGAACAGGGTTGGATGAAAGTTTAGAGAAAGTTGAATTCGAGACAAGTGTTGTGGCTGGCTCTGATGGTGGGTCCATTGTTAAGATTTCAGTGAAATACCACACCAAAGGTGATGCAACTCTATCTGAAGCAGTACGTGAGGAGACCAAAGCCAAAGGAACTGGACTTATCAAGGCCATTGAGGGCTACGTTTTGGCAAACCCTAATTATTAA
Protein sequence

>MsG0280007915.01.T01

MGVFVFIDEHVSTVAPAKLYKALAKDADEIIPKVIPAAQSVEIVEGNGGPGTIKKLSMSEGGKTDFVLHKLEAVDEANLGYNYSIVGGTGLDESLEKVEFETSVVAGSDGGSIVKISVKYHTKGDATLSEAVREETKAKGTGLIKAIEGYVLANPNY*