AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080048352.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048352.01.T01 MTR_1g097935 84.052 232 6 2 1 201 158 389 3.19e-134 382
MsG0080048352.01.T01 MTR_1g097910 83.621 232 7 2 1 201 158 389 4.73e-134 381
MsG0080048352.01.T01 MTR_1g098140 83.621 232 7 2 1 201 158 389 1.24e-133 380
MsG0080048352.01.T01 MTR_5g007730 81.466 232 12 2 1 201 158 389 9.52e-131 373
MsG0080048352.01.T01 MTR_7g016820 81.897 232 11 2 1 201 158 389 1.21e-130 372
MsG0080048352.01.T01 MTR_5g007760 80.603 232 14 1 1 201 158 389 3.46e-130 371
MsG0080048352.01.T01 MTR_7g016700 81.034 232 13 2 1 201 158 389 3.77e-130 371
MsG0080048352.01.T01 MTR_7g016800 81.466 232 12 2 1 201 158 389 4.16e-130 371
MsG0080048352.01.T01 MTR_7g016720 81.897 232 11 2 1 201 158 389 5.30e-130 371
MsG0080048352.01.T01 MTR_7g016780 81.034 232 13 2 1 201 158 389 8.20e-130 370
MsG0080048352.01.T01 MTR_5g007713 79.741 232 16 2 1 201 158 389 7.00e-128 365
MsG0080048352.01.T01 MTR_5g007717 78.879 232 18 2 1 201 158 389 2.02e-127 364
MsG0080048352.01.T01 MTR_7g113405 79.741 232 16 2 1 201 72 303 6.82e-127 360
MsG0080048352.01.T01 MTR_3g083910 75.325 231 26 2 1 200 158 388 6.96e-122 350
MsG0080048352.01.T01 MTR_3g083920 76.190 231 24 2 1 200 158 388 1.54e-121 349
MsG0080048352.01.T01 MTR_2g058470 72.414 232 33 1 1 201 158 389 8.16e-117 337
MsG0080048352.01.T01 MTR_7g084300 68.966 232 41 2 1 201 158 389 3.44e-111 323
MsG0080048352.01.T01 MTR_5g007740 67.672 232 44 1 1 201 95 326 9.80e-109 315
MsG0080048352.01.T01 MTR_3g086260 67.100 231 45 2 1 200 158 388 5.26e-104 305
MsG0080048352.01.T01 MTR_3g088675 57.759 232 67 2 1 201 158 389 2.14e-95 283
MsG0080048352.01.T01 MTR_5g007723 61.207 232 45 2 1 201 181 398 4.56e-93 277
MsG0080048352.01.T01 MTR_5g007770 65.482 197 34 3 1 181 89 267 5.40e-83 247
MsG0080048352.01.T01 MTR_3g088670 43.933 239 95 4 1 200 150 388 6.73e-64 202
MsG0080048352.01.T01 MTR_4g075560 40.343 233 104 5 1 200 159 389 6.04e-49 164
MsG0080048352.01.T01 MTR_4g078730 37.391 230 107 3 1 199 166 389 3.18e-47 159
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048352.01.T01 AT5G13930 72.103 233 33 3 1 201 163 395 1.12e-112 327
MsG0080048352.01.T01 AT4G34850 37.607 234 112 4 1 201 87 319 1.10e-47 159
MsG0080048352.01.T01 AT4G00040 40.086 232 101 5 1 199 159 385 5.85e-47 159
MsG0080048352.01.T01 AT4G34850 37.607 234 112 4 1 201 160 392 6.79e-47 159
MsG0080048352.01.T01 AT1G02050 39.744 234 101 6 1 200 166 393 1.62e-40 142

Find 44 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATAGGTTTCTCAATTTC+TGG 0.101255 contig27end:+49151 None:intergenic
CTGATTACAATTCAATCTTT+TGG 0.254027 contig27end:-48963 MsG0080048352.01.T01:CDS
TACCAACAAGGTTGCTTTGC+AGG 0.283953 contig27end:-49361 MsG0080048352.01.T01:CDS
CTTGTTGGACAAGCACTATT+TGG 0.314421 contig27end:-49214 MsG0080048352.01.T01:CDS
AGAGAAGTGCTCAGTGAATA+TGG 0.317887 contig27end:-48859 MsG0080048352.01.T01:CDS
GCTTCGTTTGGCTAAAGATT+TGG 0.342769 contig27end:-49329 MsG0080048352.01.T01:CDS
TCTACTTGATCTAGAATTGC+AGG 0.346751 contig27end:+48922 None:intergenic
GGTTTCTCAATTTCTGGTAC+TGG 0.362281 contig27end:+49157 None:intergenic
AGGAGGCACGGTGCTTCGTT+TGG 0.381968 contig27end:-49341 MsG0080048352.01.T01:CDS
CACCTTCTTAAAGATGTTCC+CGG 0.401953 contig27end:-49043 MsG0080048352.01.T01:intron
ATATTCACTGAGCACTTCTC+TGG 0.410278 contig27end:+48861 None:intergenic
GGAGCTGCTGCACTGATTGT+TGG 0.411529 contig27end:-49187 MsG0080048352.01.T01:CDS
ACTCACTTGGACAGCCTTGT+TGG 0.426712 contig27end:-49229 MsG0080048352.01.T01:CDS
ACGGGAGAAGGACTTGAGTT+TGG 0.429869 contig27end:-48760 MsG0080048352.01.T01:CDS
GTCACTGCAGTTACATTTCG+CGG 0.450823 contig27end:-49262 MsG0080048352.01.T01:CDS
GCGCAAAACAACGGTTTCAA+TGG 0.461439 contig27end:+48708 None:intergenic
CTCCTGCAAAGCAACCTTGT+TGG 0.478750 contig27end:+49359 None:intergenic
TCAAAGAATCAATAAAGCAT+TGG 0.483182 contig27end:-49013 MsG0080048352.01.T01:CDS
CTGTCCAAGTGAGTATCACT+AGG 0.483602 contig27end:+49238 None:intergenic
TTGATTCTTTGAAACAATCC+CGG 0.497827 contig27end:+49024 None:intergenic
TCTAGAATTGCAGGTCCACC+AGG 0.500155 contig27end:+48931 None:intergenic
TTGCGCAGTGTCGCTATATG+AGG 0.502378 contig27end:-48691 None:intergenic
TTCACTGAGCACTTCTCTGG+TGG 0.523654 contig27end:+48864 None:intergenic
GGACTGAAGACCACGGGAGA+AGG 0.524843 contig27end:-48772 MsG0080048352.01.T01:CDS
CGGCCCTAGTGATACTCACT+TGG 0.529910 contig27end:-49242 MsG0080048352.01.T01:CDS
ACCTTCTTAAAGATGTTCCC+GGG 0.543150 contig27end:-49042 MsG0080048352.01.T01:intron
AATCAATAAAGCATTGGTTG+AGG 0.543483 contig27end:-49007 MsG0080048352.01.T01:CDS
TGATTCTTTGAAACAATCCC+GGG 0.554589 contig27end:+49025 None:intergenic
AGGTTGCTTTGCAGGAGGCA+CGG 0.555669 contig27end:-49353 MsG0080048352.01.T01:CDS
AGAAAGAAGTCAGCTCAAGA+TGG 0.559235 contig27end:-48793 MsG0080048352.01.T01:CDS
GGACAAGCACTATTTGGAGA+TGG 0.563405 contig27end:-49208 MsG0080048352.01.T01:CDS
CAAATAGTGCTTGTCCAACA+AGG 0.572762 contig27end:+49215 None:intergenic
AGCGACACTGCGCAAAACAA+CGG 0.575560 contig27end:+48699 None:intergenic
CAAGATGGACTGAAGACCAC+GGG 0.604373 contig27end:-48778 MsG0080048352.01.T01:CDS
TTGTAATCAGAAATTCCCAA+TGG 0.619803 contig27end:+48976 None:intergenic
CAACAAAGGTGCTCGTGTGT+TGG 0.620198 contig27end:-49299 MsG0080048352.01.T01:CDS
CAACAAGGTTGCTTTGCAGG+AGG 0.634702 contig27end:-49358 MsG0080048352.01.T01:CDS
AAACTCAAGTCCTTCTCCCG+TGG 0.634843 contig27end:+48762 None:intergenic
TCAAGATGGACTGAAGACCA+CGG 0.668535 contig27end:-48779 MsG0080048352.01.T01:CDS
TGTCCAAGTGAGTATCACTA+GGG 0.674277 contig27end:+49239 None:intergenic
ACGGTTTCAATGGTAAGACC+CGG 0.675121 contig27end:+48718 None:intergenic
GATTTGGCTGAGAACAACAA+AGG 0.683242 contig27end:-49313 MsG0080048352.01.T01:CDS
AGGTATATGATGTACCAACA+AGG 0.704257 contig27end:-49373 None:intergenic
CTAGAATTGCAGGTCCACCA+GGG 0.711261 contig27end:+48932 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAAATAGGTTTCTCAATTTC+TGG + contig27end:48912-48931 None:intergenic 25.0%
! TCAAAGAATCAATAAAGCAT+TGG - contig27end:49047-49066 MsG0080048352.01.T01:intron 25.0%
!! CTGATTACAATTCAATCTTT+TGG - contig27end:49097-49116 MsG0080048352.01.T01:intron 25.0%
TTGTAATCAGAAATTCCCAA+TGG + contig27end:49087-49106 None:intergenic 30.0%
!! AATCAATAAAGCATTGGTTG+AGG - contig27end:49053-49072 MsG0080048352.01.T01:intron 30.0%
!! TTGATTCTTTGAAACAATCC+CGG + contig27end:49039-49058 None:intergenic 30.0%
!! TTTCATCTTTTCAGGCTTTA+AGG + contig27end:49175-49194 None:intergenic 30.0%
!!! AACCTATTTTTGAGATGGTT+TGG - contig27end:48922-48941 MsG0080048352.01.T01:CDS 30.0%
!!! CTTGAGTTTGGTGTTTTATT+TGG - contig27end:49312-49331 MsG0080048352.01.T01:CDS 30.0%
!!! TGAGAAACCTATTTTTGAGA+TGG - contig27end:48917-48936 MsG0080048352.01.T01:CDS 30.0%
!!! TTTGGTGTTTTATTTGGCTT+TGG - contig27end:49318-49337 MsG0080048352.01.T01:CDS 30.0%
GTCCAAACCATCTCAAAAAT+AGG + contig27end:48927-48946 None:intergenic 35.0%
! TCTACTTGATCTAGAATTGC+AGG + contig27end:49141-49160 None:intergenic 35.0%
!! TGATTCTTTGAAACAATCCC+GGG + contig27end:49038-49057 None:intergenic 35.0%
!!! TGTTTTATTTGGCTTTGGAC+CGG - contig27end:49323-49342 MsG0080048352.01.T01:CDS 35.0%
AATTGCTCCAGATAGTGAAG+GGG - contig27end:48956-48975 MsG0080048352.01.T01:CDS 40.0%
ACAATTGCTCCAGATAGTGA+AGG - contig27end:48954-48973 MsG0080048352.01.T01:CDS 40.0%
ACCTTCTTAAAGATGTTCCC+GGG - contig27end:49018-49037 MsG0080048352.01.T01:CDS 40.0%
AGAAAGAAGTCAGCTCAAGA+TGG - contig27end:49267-49286 MsG0080048352.01.T01:CDS 40.0%
ATATTCACTGAGCACTTCTC+TGG + contig27end:49202-49221 None:intergenic 40.0%
CAAATAGTGCTTGTCCAACA+AGG + contig27end:48848-48867 None:intergenic 40.0%
CAATTGCTCCAGATAGTGAA+GGG - contig27end:48955-48974 MsG0080048352.01.T01:CDS 40.0%
CACCTTCTTAAAGATGTTCC+CGG - contig27end:49017-49036 MsG0080048352.01.T01:CDS 40.0%
CTTGTTGGACAAGCACTATT+TGG - contig27end:48846-48865 MsG0080048352.01.T01:CDS 40.0%
GATTTGGCTGAGAACAACAA+AGG - contig27end:48747-48766 MsG0080048352.01.T01:CDS 40.0%
GCTTCGTTTGGCTAAAGATT+TGG - contig27end:48731-48750 MsG0080048352.01.T01:CDS 40.0%
TGTCCAAGTGAGTATCACTA+GGG + contig27end:48824-48843 None:intergenic 40.0%
! GTTGAGGCTTTTGAACCATT+GGG - contig27end:49069-49088 MsG0080048352.01.T01:intron 40.0%
!! AGAGAAGTGCTCAGTGAATA+TGG - contig27end:49201-49220 MsG0080048352.01.T01:CDS 40.0%
!! GGTTTCTCAATTTCTGGTAC+TGG + contig27end:48906-48925 None:intergenic 40.0%
!!! GTTTTATTTGGCTTTGGACC+GGG - contig27end:49324-49343 MsG0080048352.01.T01:CDS 40.0%
ACGGTTTCAATGGTAAGACC+CGG + contig27end:49345-49364 None:intergenic 45.0%
ATGTTAGTCCAGCTTCACGA+AGG + contig27end:48995-49014 None:intergenic 45.0%
CTGTCCAAGTGAGTATCACT+AGG + contig27end:48825-48844 None:intergenic 45.0%
GCGCAAAACAACGGTTTCAA+TGG + contig27end:49355-49374 None:intergenic 45.0%
GGACAAGCACTATTTGGAGA+TGG - contig27end:48852-48871 MsG0080048352.01.T01:CDS 45.0%
GTCACTGCAGTTACATTTCG+CGG - contig27end:48798-48817 MsG0080048352.01.T01:CDS 45.0%
TTCACGAAGGTGACCATCAA+TGG + contig27end:48982-49001 None:intergenic 45.0%
! ATCTTTTGGATTGCACACCC+TGG - contig27end:49111-49130 MsG0080048352.01.T01:intron 45.0%
! CTGGTGGCTTTCATCTTTTC+AGG + contig27end:49183-49202 None:intergenic 45.0%
! GGTTGAGGCTTTTGAACCAT+TGG - contig27end:49068-49087 MsG0080048352.01.T01:intron 45.0%
! TACCAACAAGGTTGCTTTGC+AGG - contig27end:48699-48718 MsG0080048352.01.T01:CDS 45.0%
! TCCCGGGAACATCTTTAAGA+AGG + contig27end:49022-49041 None:intergenic 45.0%
!! TCAAGATGGACTGAAGACCA+CGG - contig27end:49281-49300 MsG0080048352.01.T01:CDS 45.0%
AAACTCAAGTCCTTCTCCCG+TGG + contig27end:49301-49320 None:intergenic 50.0%
ACGGGAGAAGGACTTGAGTT+TGG - contig27end:49300-49319 MsG0080048352.01.T01:CDS 50.0%
AGCGACACTGCGCAAAACAA+CGG + contig27end:49364-49383 None:intergenic 50.0%
CTAGAATTGCAGGTCCACCA+GGG + contig27end:49131-49150 None:intergenic 50.0%
CTCCTGCAAAGCAACCTTGT+TGG + contig27end:48704-48723 None:intergenic 50.0%
GATAGTGAAGGGGCCATTGA+TGG - contig27end:48966-48985 MsG0080048352.01.T01:CDS 50.0%
TCAATGGCCCCTTCACTATC+TGG + contig27end:48966-48985 None:intergenic 50.0%
TTCACTGAGCACTTCTCTGG+TGG + contig27end:49199-49218 None:intergenic 50.0%
! ACTCACTTGGACAGCCTTGT+TGG - contig27end:48831-48850 MsG0080048352.01.T01:CDS 50.0%
! CAACAAGGTTGCTTTGCAGG+AGG - contig27end:48702-48721 MsG0080048352.01.T01:CDS 50.0%
! TCTAGAATTGCAGGTCCACC+AGG + contig27end:49132-49151 None:intergenic 50.0%
! TTTTGGATTGCACACCCTGG+TGG - contig27end:49114-49133 MsG0080048352.01.T01:intron 50.0%
!! CAACAAAGGTGCTCGTGTGT+TGG - contig27end:48761-48780 MsG0080048352.01.T01:CDS 50.0%
!! CAAGATGGACTGAAGACCAC+GGG - contig27end:49282-49301 MsG0080048352.01.T01:CDS 50.0%
CGGCCCTAGTGATACTCACT+TGG - contig27end:48818-48837 MsG0080048352.01.T01:CDS 55.0%
GATGGTCACCTTCGTGAAGC+TGG - contig27end:48984-49003 MsG0080048352.01.T01:CDS 55.0%
! AGGTTGCTTTGCAGGAGGCA+CGG - contig27end:48707-48726 MsG0080048352.01.T01:CDS 55.0%
!! GGAGCTGCTGCACTGATTGT+TGG - contig27end:48873-48892 MsG0080048352.01.T01:CDS 55.0%
GGACTGAAGACCACGGGAGA+AGG - contig27end:49288-49307 MsG0080048352.01.T01:CDS 60.0%
! AGGAGGCACGGTGCTTCGTT+TGG - contig27end:48719-48738 MsG0080048352.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
contig27end gene 48693 49389 48693 ID=MsG0080048352.01;Name=MsG0080048352.01
contig27end mRNA 48693 49389 48693 ID=MsG0080048352.01.T01;Parent=MsG0080048352.01;Name=MsG0080048352.01.T01;_AED=0.49;_eAED=0.49;_QI=0|0|0|1|1|1|2|0|201
contig27end exon 49144 49389 49144 ID=MsG0080048352.01.T01:exon:21971;Parent=MsG0080048352.01.T01
contig27end exon 48693 49052 48693 ID=MsG0080048352.01.T01:exon:21972;Parent=MsG0080048352.01.T01
contig27end CDS 49144 49389 49144 ID=MsG0080048352.01.T01:cds;Parent=MsG0080048352.01.T01
contig27end CDS 48693 49052 48693 ID=MsG0080048352.01.T01:cds;Parent=MsG0080048352.01.T01
Gene Sequence

>MsG0080048352.01.T01

ATGATGTACCAACAAGGTTGCTTTGCAGGAGGCACGGTGCTTCGTTTGGCTAAAGATTTGGCTGAGAACAACAAAGGTGCTCGTGTGTTGGTTGTCTGTTCTGAAGTCACTGCAGTTACATTTCGCGGCCCTAGTGATACTCACTTGGACAGCCTTGTTGGACAAGCACTATTTGGAGATGGAGCTGCTGCACTGATTGTTGGTTCAGATCCAGTACCAGAAATTGAGAAACCTATTTTTGAGATGATGTTCCCGGGATTGTTTCAAAGAATCAATAAAGCATTGGTTGAGGCTTTTGAACCATTGGGAATTTCTGATTACAATTCAATCTTTTGGATTGCACACCCTGGTGGACCTGCAATTCTAGATCAAGTAGAGCAAAAGTTAGCCTTAAAGCCTGAAAAGATGAAAGCCACCAGAGAAGTGCTCAGTGAATATGGAAATATGTCAAGTGCATGTGTTTTGTTTATCTTAGATGAAATGAGAAAGAAGTCAGCTCAAGATGGACTGAAGACCACGGGAGAAGGACTTGAGTTTGGTGTTTTATTTGGCTTTGGACCGGGTCTTACCATTGAAACCGTTGTTTTGCGCAGTGTCGCTATATGA

Protein sequence

>MsG0080048352.01.T01

MMYQQGCFAGGTVLRLAKDLAENNKGARVLVVCSEVTAVTFRGPSDTHLDSLVGQALFGDGAAALIVGSDPVPEIEKPIFEMMFPGLFQRINKALVEAFEPLGISDYNSIFWIAHPGGPAILDQVEQKLALKPEKMKATREVLSEYGNMSSACVLFILDEMRKKSAQDGLKTTGEGLEFGVLFGFGPGLTIETVVLRSVAI*