AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580029917.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029917.01.T01 MTR_5g094680 90.135 223 22 0 1 223 1 223 6.61e-151 418
MsG0580029917.01.T01 MTR_7g093310 57.764 161 41 3 62 222 6 139 3.45e-54 170
MsG0580029917.01.T01 MTR_7g092960 64.865 111 29 2 113 223 1 101 6.06e-44 143
MsG0580029917.01.T01 MTR_5g006240 34.348 230 131 6 5 222 6 227 3.81e-33 119
MsG0580029917.01.T01 MTR_1g029860 34.000 200 95 9 27 219 7 176 1.50e-25 98.6
MsG0580029917.01.T01 MTR_8g085550 40.816 147 77 4 81 218 2 147 3.91e-23 91.3
MsG0580029917.01.T01 MTR_8g085520 37.333 150 86 2 81 222 2 151 3.65e-20 84.0
MsG0580029917.01.T01 MTR_5g037810 38.168 131 58 5 108 219 3 129 3.56e-15 70.1
MsG0580029917.01.T01 MTR_5g037840 34.586 133 60 5 108 219 3 129 6.26e-15 69.3
MsG0580029917.01.T01 MTR_1g029910 29.091 165 97 6 60 220 45 193 2.61e-14 69.3
MsG0580029917.01.T01 MTR_8g085530 58.824 51 21 0 168 218 245 295 2.94e-14 70.5
MsG0580029917.01.T01 MTR_8g102170 37.383 107 57 5 42 141 35 138 4.60e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 39 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATCAACAAGGTTCGATTTA+TGG 0.158893 5:+103940289 None:intergenic
TGTTTGGAAAAGCTCTTTAA+TGG 0.196071 5:-103939942 MsG0580029917.01.T01:CDS
CTTCGATTGAACTTATTTCT+AGG 0.197053 5:+103940438 None:intergenic
GTCCATTGTGTCGCAATAAT+TGG 0.254400 5:-103939815 MsG0580029917.01.T01:CDS
TGATAAATGTACAATTTGTT+TGG 0.303761 5:-103939958 MsG0580029917.01.T01:CDS
TGTAATATGTGAGAAGAAAT+AGG 0.310321 5:+103940179 None:intergenic
CCCTAGCATATTCACCAATC+TGG 0.317340 5:+103940144 None:intergenic
ATGAAATTACAATATTAGAT+AGG 0.326485 5:-103940241 MsG0580029917.01.T01:CDS
ATGTAAAAGTAGTTACTAAA+AGG 0.332266 5:+103940386 None:intergenic
TGTTGTGGATAGGTTGAAAA+AGG 0.334600 5:-103940012 MsG0580029917.01.T01:CDS
GAAAATTAAGTTGGTTGTAA+TGG 0.373709 5:+103940357 None:intergenic
CACTTACATAAGATATTAGA+AGG 0.382843 5:+103940266 None:intergenic
TGTACAAGGGAAAATTAAGT+TGG 0.441807 5:+103940348 None:intergenic
CAAGAAATATTGCCCCAGAT+TGG 0.455982 5:-103940158 MsG0580029917.01.T01:CDS
GCTAGGGAGATGGTCGCTAA+TGG 0.467270 5:-103940128 MsG0580029917.01.T01:CDS
CCTAGCATATTCACCAATCT+GGG 0.479695 5:+103940145 None:intergenic
GGTTGAGGCATTGGTGTACA+AGG 0.487272 5:+103940334 None:intergenic
AAAGGATGAGGTTGAGGCAT+TGG 0.488410 5:+103940325 None:intergenic
TGAAATTACAATATTAGATA+GGG 0.489366 5:-103940240 MsG0580029917.01.T01:CDS
CAACCTATCCACAACAAGTA+GGG 0.506104 5:+103940019 None:intergenic
CCCAGATTGGTGAATATGCT+AGG 0.531450 5:-103940145 MsG0580029917.01.T01:CDS
TCAACCTATCCACAACAAGT+AGG 0.543282 5:+103940018 None:intergenic
TATACCATGTAGTGACATCA+AGG 0.558482 5:+103940066 None:intergenic
TATGGTGGTCTTATAGTCAA+AGG 0.561482 5:+103940307 None:intergenic
ATGATGAATGTCGTAATATG+TGG 0.563859 5:-103940103 MsG0580029917.01.T01:CDS
GGTCTTATAGTCAAAGGATG+AGG 0.584244 5:+103940313 None:intergenic
ATAGTCAAAGGATGAGGTTG+AGG 0.593536 5:+103940319 None:intergenic
CCAGATTGGTGAATATGCTA+GGG 0.595838 5:-103940144 MsG0580029917.01.T01:CDS
ATCCAATTATTGCGACACAA+TGG 0.604161 5:+103939813 None:intergenic
TGGTGAATATGCTAGGGAGA+TGG 0.608973 5:-103940138 MsG0580029917.01.T01:CDS
CAACAAGGTTCGATTTATGG+TGG 0.615644 5:+103940292 None:intergenic
AAGCCCTACTTGTTGTGGAT+AGG 0.622341 5:-103940022 MsG0580029917.01.T01:CDS
TGTGAAAGCCCTACTTGTTG+TGG 0.625468 5:-103940027 MsG0580029917.01.T01:CDS
GTGAGAAGAAATAGGCACAA+AGG 0.637588 5:+103940187 None:intergenic
TGAGCCTTGATGTCACTACA+TGG 0.639098 5:-103940070 MsG0580029917.01.T01:CDS
TGATGAATGTCGTAATATGT+GGG 0.660117 5:-103940102 MsG0580029917.01.T01:CDS
CTAGCATATTCACCAATCTG+GGG 0.680640 5:+103940146 None:intergenic
GTTGAGGCATTGGTGTACAA+GGG 0.692627 5:+103940335 None:intergenic
GATATTAGAAGGAATCAACA+AGG 0.724387 5:+103940277 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGAAATTACAATATTAGAT+AGG - Chr5:103940020-103940039 MsG0580029917.01.T01:CDS 15.0%
!! TGAAATTACAATATTAGATA+GGG - Chr5:103940021-103940040 MsG0580029917.01.T01:CDS 15.0%
!! ATGTAAAAGTAGTTACTAAA+AGG + Chr5:103939878-103939897 None:intergenic 20.0%
!!! TGATAAATGTACAATTTGTT+TGG - Chr5:103940303-103940322 MsG0580029917.01.T01:CDS 20.0%
! CACTTACATAAGATATTAGA+AGG + Chr5:103939998-103940017 None:intergenic 25.0%
! TGTAATATGTGAGAAGAAAT+AGG + Chr5:103940085-103940104 None:intergenic 25.0%
!!! ATAAAGAGTGTATTTTCCAA+TGG - Chr5:103940386-103940405 MsG0580029917.01.T01:CDS 25.0%
!!! GAAAATTAAGTTGGTTGTAA+TGG + Chr5:103939907-103939926 None:intergenic 25.0%
AATCAACAAGGTTCGATTTA+TGG + Chr5:103939975-103939994 None:intergenic 30.0%
ATGATGAATGTCGTAATATG+TGG - Chr5:103940158-103940177 MsG0580029917.01.T01:CDS 30.0%
GATATTAGAAGGAATCAACA+AGG + Chr5:103939987-103940006 None:intergenic 30.0%
TGATGAATGTCGTAATATGT+GGG - Chr5:103940159-103940178 MsG0580029917.01.T01:CDS 30.0%
TGTACAAGGGAAAATTAAGT+TGG + Chr5:103939916-103939935 None:intergenic 30.0%
TGTTTGGAAAAGCTCTTTAA+TGG - Chr5:103940319-103940338 MsG0580029917.01.T01:CDS 30.0%
! AATCGAAGATGATCCTTTTA+CGG - Chr5:103939838-103939857 MsG0580029917.01.T01:CDS 30.0%
! CTTCGATTGAACTTATTTCT+AGG + Chr5:103939826-103939845 None:intergenic 30.0%
ATCCAATTATTGCGACACAA+TGG + Chr5:103940451-103940470 None:intergenic 35.0%
TATACCATGTAGTGACATCA+AGG + Chr5:103940198-103940217 None:intergenic 35.0%
! TAGGTTGAAAAAGGTTGGAA+TGG - Chr5:103940258-103940277 MsG0580029917.01.T01:CDS 35.0%
! TCATCTTTTGACACCGTAAA+AGG + Chr5:103939854-103939873 None:intergenic 35.0%
! TGTTGTGGATAGGTTGAAAA+AGG - Chr5:103940249-103940268 MsG0580029917.01.T01:CDS 35.0%
! TTATGCATCTTTTGAGCCAT+TGG + Chr5:103940405-103940424 None:intergenic 35.0%
!! TATGGTGGTCTTATAGTCAA+AGG + Chr5:103939957-103939976 None:intergenic 35.0%
ATAGTCAAAGGATGAGGTTG+AGG + Chr5:103939945-103939964 None:intergenic 40.0%
CAACAAGGTTCGATTTATGG+TGG + Chr5:103939972-103939991 None:intergenic 40.0%
CAACCTATCCACAACAAGTA+GGG + Chr5:103940245-103940264 None:intergenic 40.0%
CAAGAAATATTGCCCCAGAT+TGG - Chr5:103940103-103940122 MsG0580029917.01.T01:CDS 40.0%
CCAGATTGGTGAATATGCTA+GGG - Chr5:103940117-103940136 MsG0580029917.01.T01:CDS 40.0%
CCTAGCATATTCACCAATCT+GGG + Chr5:103940119-103940138 None:intergenic 40.0%
CTAGCATATTCACCAATCTG+GGG + Chr5:103940118-103940137 None:intergenic 40.0%
GTCCATTGTGTCGCAATAAT+TGG - Chr5:103940446-103940465 MsG0580029917.01.T01:CDS 40.0%
GTGAGAAGAAATAGGCACAA+AGG + Chr5:103940077-103940096 None:intergenic 40.0%
TCAACCTATCCACAACAAGT+AGG + Chr5:103940246-103940265 None:intergenic 40.0%
! GGTCTTATAGTCAAAGGATG+AGG + Chr5:103939951-103939970 None:intergenic 40.0%
! GTGGATAGGTTGAAAAAGGT+TGG - Chr5:103940253-103940272 MsG0580029917.01.T01:CDS 40.0%
AAAGGATGAGGTTGAGGCAT+TGG + Chr5:103939939-103939958 None:intergenic 45.0%
CCCAGATTGGTGAATATGCT+AGG - Chr5:103940116-103940135 MsG0580029917.01.T01:CDS 45.0%
CCCTAGCATATTCACCAATC+TGG + Chr5:103940120-103940139 None:intergenic 45.0%
TGAGCCTTGATGTCACTACA+TGG - Chr5:103940191-103940210 MsG0580029917.01.T01:CDS 45.0%
TGGTGAATATGCTAGGGAGA+TGG - Chr5:103940123-103940142 MsG0580029917.01.T01:CDS 45.0%
! TGTGAAAGCCCTACTTGTTG+TGG - Chr5:103940234-103940253 MsG0580029917.01.T01:CDS 45.0%
!! AAGCCCTACTTGTTGTGGAT+AGG - Chr5:103940239-103940258 MsG0580029917.01.T01:CDS 45.0%
!! GTTGAGGCATTGGTGTACAA+GGG + Chr5:103939929-103939948 None:intergenic 45.0%
!! GGTTGAGGCATTGGTGTACA+AGG + Chr5:103939930-103939949 None:intergenic 50.0%
GCTAGGGAGATGGTCGCTAA+TGG - Chr5:103940133-103940152 MsG0580029917.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 103939806 103940477 103939806 ID=MsG0580029917.01;Name=MsG0580029917.01
Chr5 mRNA 103939806 103940477 103939806 ID=MsG0580029917.01.T01;Parent=MsG0580029917.01;Name=MsG0580029917.01.T01;_AED=0.65;_eAED=0.65;_QI=0|-1|0|1|-1|1|1|0|223
Chr5 exon 103939806 103940477 103939806 ID=MsG0580029917.01.T01:exon:6572;Parent=MsG0580029917.01.T01
Chr5 CDS 103939806 103940477 103939806 ID=MsG0580029917.01.T01:cds;Parent=MsG0580029917.01.T01
Gene Sequence

>MsG0580029917.01.T01

ATGCTTTATAATTTTAACCTAGAAATAAGTTCAATCGAAGATGATCCTTTTACGGTGTCAAAAGATGATCCTTTTAGTAACTACTTTTACATTAATTTCCATTACAACCAACTTAATTTTCCCTTGTACACCAATGCCTCAACCTCATCCTTTGACTATAAGACCACCATAAATCGAACCTTGTTGATTCCTTCTAATATCTTATGTAAGTGTAATGAAATTACAATATTAGATAGGGAAGACAACATCTTCTTAAACGACTCTTTTTCCTTTGTGCCTATTTCTTCTCACATATTACAAGAAATATTGCCCCAGATTGGTGAATATGCTAGGGAGATGGTCGCTAATGGCGATGATGAATGTCGTAATATGTGGGAGATAGACGTGAGCCTTGATGTCACTACATGGTATATTGAAGATAATGATGCTGTGAAAGCCCTACTTGTTGTGGATAGGTTGAAAAAGGTTGGAATGGATGATTCATCTTGTTACTCTACTGATAAATGTACAATTTGTTTGGAAAAGCTCTTTAATGGATCAAAGTCAGAACACGTTATGACTAAATGTTTGCATGTTTTTCATAAAGAGTGTATTTTCCAATGGCTCAAAAGATGCATAAGTCGTCAATCATCTCTCTCATGTCCATTGTGTCGCAATAATTGGATATTATGA
Protein sequence

>MsG0580029917.01.T01

MLYNFNLEISSIEDDPFTVSKDDPFSNYFYINFHYNQLNFPLYTNASTSSFDYKTTINRTLLIPSNILCKCNEITILDREDNIFLNDSFSFVPISSHILQEILPQIGEYAREMVANGDDECRNMWEIDVSLDVTTWYIEDNDAVKALLVVDRLKKVGMDDSSCYSTDKCTICLEKLFNGSKSEHVMTKCLHVFHKECIFQWLKRCISRQSSLSCPLCRNNWIL*