AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480021960.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021960.01.T01 MTR_4g079760 95.000 260 9 1 1 260 1 256 0.0 502
MsG0480021960.01.T01 MTR_2g091190 73.077 260 57 3 1 260 1 247 4.68e-114 328
MsG0480021960.01.T01 MTR_2g015890 48.837 215 105 3 25 238 19 229 6.32e-62 196
MsG0480021960.01.T01 MTR_2g015890 51.266 158 73 2 25 181 19 173 2.02e-46 154
MsG0480021960.01.T01 MTR_4g087920 40.964 249 138 6 6 248 10 255 1.19e-42 146
MsG0480021960.01.T01 MTR_2g015890 48.889 135 65 2 104 238 1 131 2.18e-35 124
MsG0480021960.01.T01 MTR_1g093750 41.667 192 101 2 68 255 154 338 3.17e-34 126
MsG0480021960.01.T01 MTR_3g070970 38.265 196 106 4 64 248 65 256 1.49e-33 122
MsG0480021960.01.T01 MTR_3g096568 71.053 76 22 0 140 215 236 311 3.53e-33 123
MsG0480021960.01.T01 MTR_5g066080 39.634 164 72 3 64 201 28 190 8.30e-21 89.0
MsG0480021960.01.T01 MTR_5g032375 34.356 163 90 3 60 209 33 191 2.48e-20 86.7
MsG0480021960.01.T01 MTR_2g015890 53.846 78 33 1 104 181 1 75 6.96e-20 82.8
MsG0480021960.01.T01 MTR_8g032210 80.357 56 9 2 42 97 41 94 6.61e-19 80.1
MsG0480021960.01.T01 MTR_1g018820 76.316 38 9 0 103 140 58 95 1.41e-12 62.8
MsG0480021960.01.T01 MTR_5g014520 27.568 185 93 6 47 201 133 306 1.18e-11 64.3
MsG0480021960.01.T01 MTR_8g064700 28.814 177 90 5 79 225 248 418 5.34e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021960.01.T01 AT1G68810 37.891 256 134 9 4 249 111 351 5.01e-33 124
MsG0480021960.01.T01 AT3G56770 39.535 172 95 4 67 236 40 204 1.84e-28 108
MsG0480021960.01.T01 AT3G25710 41.830 153 88 1 68 220 128 279 7.23e-28 109
MsG0480021960.01.T01 AT2G40200 35.294 187 111 4 74 253 65 248 3.17e-26 103
MsG0480021960.01.T01 AT2G41130 36.199 221 126 5 25 236 13 227 3.87e-25 100
MsG0480021960.01.T01 AT4G38070 34.752 141 85 2 61 201 81 214 3.82e-17 79.0
MsG0480021960.01.T01 AT4G37850 24.865 185 106 5 74 233 151 327 1.42e-11 63.9
MsG0480021960.01.T01 AT4G37850 24.865 185 106 5 74 233 151 327 1.42e-11 63.9

Find 41 sgRNAs with CRISPR-Local

Find 92 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAACTTTCTCTTTGGTTT+TGG 0.189232 4:-66479331 MsG0480021960.01.T01:CDS
GATTGGGGTTATGATATATT+TGG 0.190751 4:-66479423 MsG0480021960.01.T01:CDS
GACATTTGAAAGAGCTAAAA+AGG 0.203088 4:-66478370 MsG0480021960.01.T01:CDS
AAAGCAGATATTGCAACTTT+TGG 0.234706 4:-66478161 MsG0480021960.01.T01:CDS
AGTGATGCTTTAATTGAAAA+AGG 0.247436 4:+66478257 None:intergenic
TTATGGTTCAACTTTCTCTT+TGG 0.279286 4:-66479337 MsG0480021960.01.T01:CDS
GAAGTAAACAATGAGGTAAT+TGG 0.285315 4:-66479366 MsG0480021960.01.T01:CDS
TGTAGAGGCACCTGTTAAAA+TGG 0.303301 4:-66479289 MsG0480021960.01.T01:CDS
GAATACAGACAGTTTCTTGC+TGG 0.381216 4:-66478077 MsG0480021960.01.T01:CDS
GAGGTAATTGGAAGTGGTTA+TGG 0.384357 4:-66479354 MsG0480021960.01.T01:CDS
CTTATTTCATCATTGTCCTT+TGG 0.388296 4:+66478314 None:intergenic
TGTCATTCCAGGTGCTTTGA+AGG 0.393290 4:-66479154 MsG0480021960.01.T01:intron
GGAGATGCTACTGAGAGAAT+TGG 0.414764 4:-66479402 MsG0480021960.01.T01:CDS
GGAAATGGAAGGTTATGATT+GGG 0.418530 4:-66479439 MsG0480021960.01.T01:CDS
ACACTTCGTTGTGTCATTCC+AGG 0.420229 4:-66479165 MsG0480021960.01.T01:CDS
TGGAAATGGAAGGTTATGAT+TGG 0.437370 4:-66479440 MsG0480021960.01.T01:CDS
GAACAAGAGGGAGGTTGGAA+TGG 0.468944 4:-66478284 MsG0480021960.01.T01:CDS
CAAGCTCTTAAGTCTGTACT+TGG 0.491840 4:-66478044 MsG0480021960.01.T01:CDS
AACAATGAGGTAATTGGAAG+TGG 0.504571 4:-66479360 MsG0480021960.01.T01:CDS
ACCTGTTAAAATGGAAGGAA+AGG 0.510809 4:-66479280 MsG0480021960.01.T01:CDS
TTGAAGAACAAGAGGGAGGT+TGG 0.512376 4:-66478289 MsG0480021960.01.T01:CDS
AATAAGCGTTGAAGAACAAG+AGG 0.524950 4:-66478297 MsG0480021960.01.T01:CDS
CTTATATTAGACAATAAACC+TGG 0.525756 4:+66478218 None:intergenic
GAGGCACCTGTTAAAATGGA+AGG 0.536082 4:-66479285 MsG0480021960.01.T01:CDS
CTATGTTGTGAATATCAACC+AGG 0.546737 4:-66478236 MsG0480021960.01.T01:CDS
GAAATGGAAGGTTATGATTG+GGG 0.551297 4:-66479438 MsG0480021960.01.T01:CDS
ATGGACAAAGCATCATTACT+TGG 0.558251 4:-66478404 MsG0480021960.01.T01:CDS
CAGAGAGGAGGAGAAGAGCT+AGG 0.569549 4:-66479206 MsG0480021960.01.T01:CDS
CAAAGCATCATTACTTGGTG+AGG 0.575226 4:-66478399 MsG0480021960.01.T01:CDS
CAAGTACAGACTTAAGAGCT+TGG 0.585666 4:+66478045 None:intergenic
ATCATAGTGAGGCAGAGAGG+AGG 0.598403 4:-66479218 MsG0480021960.01.T01:CDS
CCTGTTAAAATGGAAGGAAA+GGG 0.600881 4:-66479279 MsG0480021960.01.T01:CDS
GAACTAACCTTCAAAGCACC+TGG 0.603639 4:+66479147 None:intergenic
GGAGAGAGGGGAGCTTGTAG+AGG 0.606852 4:-66479304 MsG0480021960.01.T01:CDS
TACTTGGCTATGGAAATGGA+AGG 0.619525 4:-66479450 None:intergenic
TGAAGGTTTAATGATACCAA+AGG 0.625000 4:-66478330 MsG0480021960.01.T01:CDS
AATGAAGCACAAGCATGTGA+AGG 0.642340 4:-66478347 MsG0480021960.01.T01:CDS
AGAATCATAGTGAGGCAGAG+AGG 0.654591 4:-66479221 MsG0480021960.01.T01:CDS
AGCTTTGAAGAATCATAGTG+AGG 0.662555 4:-66479229 MsG0480021960.01.T01:CDS
AGCGTTGAAGAACAAGAGGG+AGG 0.722418 4:-66478293 MsG0480021960.01.T01:CDS
ATAAGCGTTGAAGAACAAGA+GGG 0.752312 4:-66478296 MsG0480021960.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTCTTAATAACCAATTATAT+TGG - Chr4:66478392-66478411 MsG0480021960.01.T01:CDS 15.0%
!! ATCTTATAAGTGCTTAATTT+AGG + Chr4:66478343-66478362 None:intergenic 20.0%
!!! CTTATTTTCATAAGCATTTT+AGG + Chr4:66478643-66478662 None:intergenic 20.0%
!!! TTTTCTCAATGATTAAAGAA+AGG + Chr4:66478294-66478313 None:intergenic 20.0%
! AGTGATGCTTTAATTGAAAA+AGG + Chr4:66479140-66479159 None:intergenic 25.0%
! ATACTTCACACCAATATAAT+TGG + Chr4:66478405-66478424 None:intergenic 25.0%
! CTTATATTAGACAATAAACC+TGG + Chr4:66479179-66479198 None:intergenic 25.0%
! TAACTATCTCTCTAACAAAA+AGG - Chr4:66478565-66478584 MsG0480021960.01.T01:intron 25.0%
! TGTTGAATTTAAGTGTTAAG+TGG + Chr4:66478860-66478879 None:intergenic 25.0%
! TTAAGTTTAGCATATAGATG+TGG + Chr4:66478766-66478785 None:intergenic 25.0%
ACTGAGAGAATTGGTAAAAA+TGG - Chr4:66478001-66478020 MsG0480021960.01.T01:CDS 30.0%
CTCGTATATATCTTTCATTC+AGG - Chr4:66478809-66478828 MsG0480021960.01.T01:intron 30.0%
CTTATTTCATCATTGTCCTT+TGG + Chr4:66479083-66479102 None:intergenic 30.0%
GAAGTAAACAATGAGGTAAT+TGG - Chr4:66478028-66478047 MsG0480021960.01.T01:CDS 30.0%
GAATGAAAGATATATACGAG+AGG + Chr4:66478809-66478828 None:intergenic 30.0%
GACATTTGAAAGAGCTAAAA+AGG - Chr4:66479024-66479043 MsG0480021960.01.T01:intron 30.0%
GATTGGGGTTATGATATATT+TGG - Chr4:66477971-66477990 MsG0480021960.01.T01:CDS 30.0%
GTCATAAGCTCATATGTATT+GGG - Chr4:66478676-66478695 MsG0480021960.01.T01:intron 30.0%
TCATAAGCTCATATGTATTG+GGG - Chr4:66478677-66478696 MsG0480021960.01.T01:intron 30.0%
TGAAGGTTTAATGATACCAA+AGG - Chr4:66479064-66479083 MsG0480021960.01.T01:intron 30.0%
TGTCATAAGCTCATATGTAT+TGG - Chr4:66478675-66478694 MsG0480021960.01.T01:intron 30.0%
TTATGGTTCAACTTTCTCTT+TGG - Chr4:66478057-66478076 MsG0480021960.01.T01:CDS 30.0%
! AAAGCAGATATTGCAACTTT+TGG - Chr4:66479233-66479252 MsG0480021960.01.T01:CDS 30.0%
! ATTTAGGTTCTATCCAAACA+TGG + Chr4:66478327-66478346 None:intergenic 30.0%
! TGACTAGTTAGATTTCATAG+TGG + Chr4:66478456-66478475 None:intergenic 30.0%
! TTTCCTTTTTATGACACAGA+TGG - Chr4:66478971-66478990 MsG0480021960.01.T01:intron 30.0%
!! TCATAGTGGATATTAGTCAT+CGG + Chr4:66478442-66478461 None:intergenic 30.0%
!! TTCAACTTTCTCTTTGGTTT+TGG - Chr4:66478063-66478082 MsG0480021960.01.T01:CDS 30.0%
!!! TGGTTTTGAAGTAAACAATG+AGG - Chr4:66478021-66478040 MsG0480021960.01.T01:CDS 30.0%
!!! TTTCTCTTTGGTTTTGGATA+GGG - Chr4:66478069-66478088 MsG0480021960.01.T01:CDS 30.0%
AAAGCCATTAACTCCATGTT+TGG - Chr4:66478311-66478330 MsG0480021960.01.T01:CDS 35.0%
AACAATGAGGTAATTGGAAG+TGG - Chr4:66478034-66478053 MsG0480021960.01.T01:CDS 35.0%
ACCTGTTAAAATGGAAGGAA+AGG - Chr4:66478114-66478133 MsG0480021960.01.T01:CDS 35.0%
ACTACAATAGACCGATGATT+AGG - Chr4:66478720-66478739 MsG0480021960.01.T01:intron 35.0%
ATCCGAGTCTGATATCATAT+AGG - Chr4:66478532-66478551 MsG0480021960.01.T01:intron 35.0%
ATCTAACTAGTCACCTTTAG+TGG - Chr4:66478463-66478482 MsG0480021960.01.T01:intron 35.0%
CACCTATATGATATCAGACT+CGG + Chr4:66478537-66478556 None:intergenic 35.0%
CCTGTTAAAATGGAAGGAAA+GGG - Chr4:66478115-66478134 MsG0480021960.01.T01:CDS 35.0%
CTATCCAAACATGGAGTTAA+TGG + Chr4:66478318-66478337 None:intergenic 35.0%
CTATGTTGTGAATATCAACC+AGG - Chr4:66479158-66479177 MsG0480021960.01.T01:CDS 35.0%
CTCTTAATGGTCCTAATCAT+CGG + Chr4:66478734-66478753 None:intergenic 35.0%
GAAATGGAAGGTTATGATTG+GGG - Chr4:66477956-66477975 MsG0480021960.01.T01:CDS 35.0%
GGAAAAACTTTGATTAGGAG+GGG + Chr4:66478494-66478513 None:intergenic 35.0%
GGAAATGGAAGGTTATGATT+GGG - Chr4:66477955-66477974 MsG0480021960.01.T01:CDS 35.0%
GGGAAAAACTTTGATTAGGA+GGG + Chr4:66478495-66478514 None:intergenic 35.0%
TAAGAGCAAGAAAAAGAAGG+AGG - Chr4:66479399-66479418 MsG0480021960.01.T01:CDS 35.0%
TCTAACTAGTCACCTTTAGT+GGG - Chr4:66478464-66478483 MsG0480021960.01.T01:intron 35.0%
TCTCGGGAAAAACTTTGATT+AGG + Chr4:66478499-66478518 None:intergenic 35.0%
TGCTAAGAGCAAGAAAAAGA+AGG - Chr4:66479396-66479415 MsG0480021960.01.T01:CDS 35.0%
TGGAAATGGAAGGTTATGAT+TGG - Chr4:66477954-66477973 MsG0480021960.01.T01:CDS 35.0%
TGTCCATCTGTGTCATAAAA+AGG + Chr4:66478977-66478996 None:intergenic 35.0%
! ATGGACAAAGCATCATTACT+TGG - Chr4:66478990-66479009 MsG0480021960.01.T01:intron 35.0%
! TGGTAGATTTTCTGTTTCAC+AGG - Chr4:66479370-66479389 MsG0480021960.01.T01:CDS 35.0%
!! AATAAGCGTTGAAGAACAAG+AGG - Chr4:66479097-66479116 MsG0480021960.01.T01:intron 35.0%
!! AGCTTTGAAGAATCATAGTG+AGG - Chr4:66478165-66478184 MsG0480021960.01.T01:CDS 35.0%
!! ATAAGCGTTGAAGAACAAGA+GGG - Chr4:66479098-66479117 MsG0480021960.01.T01:intron 35.0%
!!! CTTTCTCTTTGGTTTTGGAT+AGG - Chr4:66478068-66478087 MsG0480021960.01.T01:CDS 35.0%
AATGAAGCACAAGCATGTGA+AGG - Chr4:66479047-66479066 MsG0480021960.01.T01:intron 40.0%
CAAGCTCTTAAGTCTGTACT+TGG - Chr4:66479350-66479369 MsG0480021960.01.T01:CDS 40.0%
CAAGTACAGACTTAAGAGCT+TGG + Chr4:66479352-66479371 None:intergenic 40.0%
CGGGAAAAACTTTGATTAGG+AGG + Chr4:66478496-66478515 None:intergenic 40.0%
GAATACAGACAGTTTCTTGC+TGG - Chr4:66479317-66479336 MsG0480021960.01.T01:CDS 40.0%
GAGGTAATTGGAAGTGGTTA+TGG - Chr4:66478040-66478059 MsG0480021960.01.T01:CDS 40.0%
GATCCTTTAAGCAAAGTCTC+GGG + Chr4:66478515-66478534 None:intergenic 40.0%
GGATCCTTTAAGCAAAGTCT+CGG + Chr4:66478516-66478535 None:intergenic 40.0%
TTTCCCGAGACTTTGCTTAA+AGG - Chr4:66478509-66478528 MsG0480021960.01.T01:intron 40.0%
! CAAAGCATCATTACTTGGTG+AGG - Chr4:66478995-66479014 MsG0480021960.01.T01:intron 40.0%
! GCAGATATTGCAACTTTTGG+AGG - Chr4:66479236-66479255 MsG0480021960.01.T01:CDS 40.0%
!! CCCTTTCCTTCCATTTTAAC+AGG + Chr4:66478118-66478137 None:intergenic 40.0%
!! GTGGTGTTGATGTCTCTTAA+TGG + Chr4:66478747-66478766 None:intergenic 40.0%
!! TGTAGAGGCACCTGTTAAAA+TGG - Chr4:66478105-66478124 MsG0480021960.01.T01:CDS 40.0%
AGAATCATAGTGAGGCAGAG+AGG - Chr4:66478173-66478192 MsG0480021960.01.T01:CDS 45.0%
ATTAGTCATCGGCAACAACG+CGG + Chr4:66478431-66478450 None:intergenic 45.0%
CTCATATGTATTGGGGAGTC+CGG - Chr4:66478684-66478703 MsG0480021960.01.T01:intron 45.0%
GGAGATGCTACTGAGAGAAT+TGG - Chr4:66477992-66478011 MsG0480021960.01.T01:CDS 45.0%
TCATATGTATTGGGGAGTCC+GGG - Chr4:66478685-66478704 MsG0480021960.01.T01:intron 45.0%
TGTAGTTTCTGACACTCTCC+CGG + Chr4:66478706-66478725 None:intergenic 45.0%
TGTCATTCCAGGTGCTTTGA+AGG - Chr4:66478240-66478259 MsG0480021960.01.T01:CDS 45.0%
TTGAAGAACAAGAGGGAGGT+TGG - Chr4:66479105-66479124 MsG0480021960.01.T01:intron 45.0%
! ACACTTCGTTGTGTCATTCC+AGG - Chr4:66478229-66478248 MsG0480021960.01.T01:CDS 45.0%
! GAACTAACCTTCAAAGCACC+TGG + Chr4:66478250-66478269 None:intergenic 45.0%
! GAGGCACCTGTTAAAATGGA+AGG - Chr4:66478109-66478128 MsG0480021960.01.T01:CDS 45.0%
!!! TGGTTTTGGATAGGGAGAGA+GGG - Chr4:66478077-66478096 MsG0480021960.01.T01:CDS 45.0%
!!! TTGGTTTTGGATAGGGAGAG+AGG - Chr4:66478076-66478095 MsG0480021960.01.T01:CDS 45.0%
ATCATAGTGAGGCAGAGAGG+AGG - Chr4:66478176-66478195 MsG0480021960.01.T01:CDS 50.0%
GAACAAGAGGGAGGTTGGAA+TGG - Chr4:66479110-66479129 MsG0480021960.01.T01:intron 50.0%
! AGCGTTGAAGAACAAGAGGG+AGG - Chr4:66479101-66479120 MsG0480021960.01.T01:intron 50.0%
!!! GGTTTTGGATAGGGAGAGAG+GGG - Chr4:66478078-66478097 MsG0480021960.01.T01:CDS 50.0%
CAGAGAGGAGGAGAAGAGCT+AGG - Chr4:66478188-66478207 MsG0480021960.01.T01:CDS 55.0%
AGGAGGGGTGAGCCCACTAA+AGG + Chr4:66478479-66478498 None:intergenic 60.0%
AGTCATCGGCAACAACGCGG+TGG + Chr4:66478428-66478447 None:intergenic 60.0%
GGAGAGAGGGGAGCTTGTAG+AGG - Chr4:66478090-66478109 MsG0480021960.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr4 gene 66477953 66479463 66477953 ID=MsG0480021960.01;Name=MsG0480021960.01
Chr4 mRNA 66477953 66479463 66477953 ID=MsG0480021960.01.T01;Parent=MsG0480021960.01;Name=MsG0480021960.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|1|2|0|260
Chr4 exon 66479155 66479463 66479155 ID=MsG0480021960.01.T01:exon:18262;Parent=MsG0480021960.01.T01
Chr4 exon 66477953 66478426 66477953 ID=MsG0480021960.01.T01:exon:18261;Parent=MsG0480021960.01.T01
Chr4 CDS 66479155 66479463 66479155 ID=MsG0480021960.01.T01:cds;Parent=MsG0480021960.01.T01
Chr4 CDS 66477953 66478426 66477953 ID=MsG0480021960.01.T01:cds;Parent=MsG0480021960.01.T01
Gene Sequence

>MsG0480021960.01.T01

ATGGAAATGGAAGGTTATGATTGGGGTTATGATATATTTGGAGATGCTACTGAGAGAATTGGTAAAAATGGTTTTGAAGTAAACAATGAGGTAATTGGAAGTGGTTATGGTTCAACTTTCTCTTTGGTTTTGGATAGGGAGAGAGGGGAGCTTGTAGAGGCACCTGTTAAAATGGAAGGAAAGGGTGTGTCAACTACTGAGAGAAGTGTTGAAGCTTTGAAGAATCATAGTGAGGCAGAGAGGAGGAGAAGAGCTAGGATTAATGCACATCTTGATACACTTCGTTGTGTCATTCCAGGTGCTTTGAAGATGGACAAAGCATCATTACTTGGTGAGGTTATTAGACATTTGAAAGAGCTAAAAAGGAATGAAGCACAAGCATGTGAAGGTTTAATGATACCAAAGGACAATGATGAAATAAGCGTTGAAGAACAAGAGGGAGGTTGGAATGGTTTTCCTTTTTCAATTAAAGCATCACTATGTTGTGAATATCAACCAGGTTTATTGTCTAATATAAGACAAGCACTAGATGCTCTTCATCTCATCATCATGAAAGCAGATATTGCAACTTTTGGAGGCAGAATGAAGAATGTCTTTGTTGTAATAAGCTGTGAAGAACAAAACTTTGATGTTGCTGAATACAGACAGTTTCTTGCTGGTTCTGTTCACCAAGCTCTTAAGTCTGTACTTGGTAGATTTTCTGTTTCACAGGATATGCTAAGAGCAAGAAAAAGAAGGAGGTTTTCTATATTCAGTTCTTCATCTTTAGAAGATTTCTTATAA
Protein sequence

>MsG0480021960.01.T01

MEMEGYDWGYDIFGDATERIGKNGFEVNNEVIGSGYGSTFSLVLDRERGELVEAPVKMEGKGVSTTERSVEALKNHSEAERRRRARINAHLDTLRCVIPGALKMDKASLLGEVIRHLKELKRNEAQACEGLMIPKDNDEISVEEQEGGWNGFPFSIKASLCCEYQPGLLSNIRQALDALHLIIMKADIATFGGRMKNVFVVISCEEQNFDVAEYRQFLAGSVHQALKSVLGRFSVSQDMLRARKRRRFSIFSSSSLEDFL*