AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580029925.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029925.01.T01 MTR_5g094850 92.638 163 12 0 1 163 1 163 1.63e-102 302
MsG0580029925.01.T01 MTR_5g094850 92.638 163 12 0 1 163 1 163 7.59e-102 301
MsG0580029925.01.T01 MTR_5g094960 67.702 161 34 1 1 161 3 145 1.24e-63 202
MsG0580029925.01.T01 MTR_5g095390 69.872 156 35 4 1 155 1 145 6.58e-63 197
MsG0580029925.01.T01 MTR_5g094920 65.031 163 36 3 1 163 3 144 2.18e-59 193
MsG0580029925.01.T01 MTR_5g094990 56.150 187 39 4 1 162 3 171 6.06e-54 177
MsG0580029925.01.T01 MTR_5g094950 48.421 190 70 3 1 163 3 191 4.81e-43 150
MsG0580029925.01.T01 MTR_5g095050 43.094 181 78 4 2 161 4 180 3.84e-30 114
MsG0580029925.01.T01 MTR_5g094910 48.780 164 29 6 1 163 3 112 2.18e-29 110
MsG0580029925.01.T01 MTR_5g095370 45.000 160 69 4 2 157 4 148 2.05e-27 102
MsG0580029925.01.T01 MTR_5g094970 52.033 123 36 2 61 161 8 129 6.52e-26 100
MsG0580029925.01.T01 MTR_5g095400 46.667 135 58 2 21 152 7 130 6.29e-22 91.7
MsG0580029925.01.T01 MTR_5g095310 44.697 132 59 2 25 153 2 122 6.10e-20 85.1
MsG0580029925.01.T01 MTR_5g095430 44.275 131 59 2 25 152 2 121 1.28e-19 85.1
MsG0580029925.01.T01 MTR_5g095360 52.500 80 37 1 67 145 7 86 4.45e-17 73.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 28 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGTTAGGCTTTGTGGAAT+TGG 0.253558 5:+104034613 None:intergenic
TTCAAGCTTGTTAGGCTTTG+TGG 0.304052 5:+104034607 None:intergenic
GAACAAAGATTGTGAATTAG+AGG 0.308428 5:-104034175 None:intergenic
TGGTGACCCAGGTTCAGTTT+TGG 0.318302 5:+104034643 None:intergenic
TGATAGTGTTGAAGCTGTTT+TGG 0.323247 5:-104034525 MsG0580029925.01.T01:CDS
AGAAAAGAAGAACAGTGAAT+TGG 0.350218 5:-104034261 MsG0580029925.01.T01:CDS
GTCTATTCATGATCTTGTTA+TGG 0.368869 5:-104034579 MsG0580029925.01.T01:CDS
GTTGCAACAAAGCTTTGAAA+TGG 0.369757 5:-104034465 MsG0580029925.01.T01:CDS
GAGAGGAAATTTGTGAGAAA+GGG 0.390161 5:-104034367 MsG0580029925.01.T01:CDS
AGAGAGGAAATTTGTGAGAA+AGG 0.411748 5:-104034368 MsG0580029925.01.T01:CDS
GACTTGTCTTCAAGCTTGTT+AGG 0.440389 5:+104034599 None:intergenic
AAAGAAGAACAGTGAATTGG+AGG 0.470347 5:-104034258 MsG0580029925.01.T01:CDS
GGTTGAAATTAAGAATTTGA+AGG 0.477261 5:-104034237 MsG0580029925.01.T01:CDS
GGCTTTGTGGAATTGGAACC+TGG 0.477680 5:+104034620 None:intergenic
GCTTAGAGAGGAGTTTCACT+TGG 0.499506 5:-104034432 MsG0580029925.01.T01:CDS
ATGCAACCCAAAACTGAACC+TGG 0.500861 5:-104034650 MsG0580029925.01.T01:CDS
TTCACTTGGAGAGACTTTCA+AGG 0.504313 5:-104034418 MsG0580029925.01.T01:CDS
ACTACGTGGAACTTGTCAAT+GGG 0.522509 5:-104034555 MsG0580029925.01.T01:CDS
TACTACGTGGAACTTGTCAA+TGG 0.523079 5:-104034556 MsG0580029925.01.T01:CDS
TTGGAACCTGGTGGTGACCC+AGG 0.547983 5:+104034632 None:intergenic
GGAGAGATTAAAGCTTAGAG+AGG 0.551503 5:-104034444 MsG0580029925.01.T01:CDS
TCACTTGGAGAGACTTTCAA+GGG 0.554056 5:-104034417 MsG0580029925.01.T01:CDS
ACTGAACCTGGGTCACCACC+AGG 0.584855 5:-104034638 MsG0580029925.01.T01:CDS
GTCTGAATTTAAGAAAAGAG+AGG 0.635967 5:-104034384 MsG0580029925.01.T01:CDS
TGCAACCCAAAACTGAACCT+GGG 0.640722 5:-104034649 MsG0580029925.01.T01:CDS
GAGGGATATGAGACTCAGAG+AGG 0.679885 5:-104034498 MsG0580029925.01.T01:CDS
GATCTTGTTATGGTACTACG+TGG 0.742209 5:-104034569 MsG0580029925.01.T01:CDS
TTTGTGGAATTGGAACCTGG+TGG 0.802029 5:+104034623 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GGTTGAAATTAAGAATTTGA+AGG - Chr5:104034591-104034610 MsG0580029925.01.T01:CDS 25.0%
AGAAAAGAAGAACAGTGAAT+TGG - Chr5:104034567-104034586 MsG0580029925.01.T01:CDS 30.0%
GTCTATTCATGATCTTGTTA+TGG - Chr5:104034249-104034268 MsG0580029925.01.T01:CDS 30.0%
GTCTGAATTTAAGAAAAGAG+AGG - Chr5:104034444-104034463 MsG0580029925.01.T01:CDS 30.0%
!! AGCTCTTTTGAAAGAAGTTA+AGG - Chr5:104034507-104034526 MsG0580029925.01.T01:CDS 30.0%
AAAGAAGAACAGTGAATTGG+AGG - Chr5:104034570-104034589 MsG0580029925.01.T01:CDS 35.0%
AGAGAGGAAATTTGTGAGAA+AGG - Chr5:104034460-104034479 MsG0580029925.01.T01:CDS 35.0%
GAGAGGAAATTTGTGAGAAA+GGG - Chr5:104034461-104034480 MsG0580029925.01.T01:CDS 35.0%
!! GTTGCAACAAAGCTTTGAAA+TGG - Chr5:104034363-104034382 MsG0580029925.01.T01:CDS 35.0%
!! TGATAGTGTTGAAGCTGTTT+TGG - Chr5:104034303-104034322 MsG0580029925.01.T01:CDS 35.0%
ACTACGTGGAACTTGTCAAT+GGG - Chr5:104034273-104034292 MsG0580029925.01.T01:CDS 40.0%
GGAGAGATTAAAGCTTAGAG+AGG - Chr5:104034384-104034403 MsG0580029925.01.T01:CDS 40.0%
TACTACGTGGAACTTGTCAA+TGG - Chr5:104034272-104034291 MsG0580029925.01.T01:CDS 40.0%
TCACTTGGAGAGACTTTCAA+GGG - Chr5:104034411-104034430 MsG0580029925.01.T01:CDS 40.0%
TTCACTTGGAGAGACTTTCA+AGG - Chr5:104034410-104034429 MsG0580029925.01.T01:CDS 40.0%
! CTTGTTAGGCTTTGTGGAAT+TGG + Chr5:104034218-104034237 None:intergenic 40.0%
! GACTTGTCTTCAAGCTTGTT+AGG + Chr5:104034232-104034251 None:intergenic 40.0%
! GATCTTGTTATGGTACTACG+TGG - Chr5:104034259-104034278 MsG0580029925.01.T01:CDS 40.0%
!! TTCAAGCTTGTTAGGCTTTG+TGG + Chr5:104034224-104034243 None:intergenic 40.0%
!!! TGAAGCTGTTTTGGAGAAGA+GGG - Chr5:104034312-104034331 MsG0580029925.01.T01:CDS 40.0%
!!! TTGAAGCTGTTTTGGAGAAG+AGG - Chr5:104034311-104034330 MsG0580029925.01.T01:CDS 40.0%
ATGCAACCCAAAACTGAACC+TGG - Chr5:104034178-104034197 MsG0580029925.01.T01:CDS 45.0%
GCTTAGAGAGGAGTTTCACT+TGG - Chr5:104034396-104034415 MsG0580029925.01.T01:CDS 45.0%
TGCAACCCAAAACTGAACCT+GGG - Chr5:104034179-104034198 MsG0580029925.01.T01:CDS 45.0%
TTTGTGGAATTGGAACCTGG+TGG + Chr5:104034208-104034227 None:intergenic 45.0%
GAGGGATATGAGACTCAGAG+AGG - Chr5:104034330-104034349 MsG0580029925.01.T01:CDS 50.0%
! GGCTTTGTGGAATTGGAACC+TGG + Chr5:104034211-104034230 None:intergenic 50.0%
! GGTGACCCAGGTTCAGTTTT+GGG + Chr5:104034187-104034206 None:intergenic 50.0%
! TGGTGACCCAGGTTCAGTTT+TGG + Chr5:104034188-104034207 None:intergenic 50.0%
ACTGAACCTGGGTCACCACC+AGG - Chr5:104034190-104034209 MsG0580029925.01.T01:CDS 60.0%
! TTGGAACCTGGTGGTGACCC+AGG + Chr5:104034199-104034218 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr5 gene 104034178 104034672 104034178 ID=MsG0580029925.01;Name=MsG0580029925.01
Chr5 mRNA 104034178 104034672 104034178 ID=MsG0580029925.01.T01;Parent=MsG0580029925.01;Name=MsG0580029925.01.T01;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|164
Chr5 exon 104034178 104034672 104034178 ID=MsG0580029925.01.T01:exon:35332;Parent=MsG0580029925.01.T01
Chr5 CDS 104034178 104034672 104034178 ID=MsG0580029925.01.T01:cds;Parent=MsG0580029925.01.T01
Gene Sequence

>MsG0580029925.01.T01

ATGCAACCCAAAACTGAACCTGGGTCACCACCAGGTTCCAATTCCACAAAGCCTAACAAGCTTGAAGACAAGTCTATTCATGATCTTGTTATGGTACTACGTGGAACTTGTCAATGGGAAACTTTTGATAGTGTTGAAGCTGTTTTGGAGAAGAGGGATATGAGACTCAGAGAGGAGAATCAAAAGTTGCAACAAAGCTTTGAAATGGAGAGATTAAAGCTTAGAGAGGAGTTTCACTTGGAGAGACTTTCAAGGGTGTATGCTGAGTCTGAATTTAAGAAAAGAGAGGAAATTTGTGAGAAAGGGAAGAAAGTGCAAGAAAGTTATGAAGCTCTTTTGAAAGAAGTTAAGGTAAATAGATTAGCTGATAGAAAAACTAATGAAGAGTTAGAAAAGAAGAACAGTGAATTGGAGGTTGAAATTAAGAATTTGAAGGAGAAATGTGTTGATCGTAGCAATGAAGTTGATGTCTTAAGAACAAAGATTGTGAATTAG

Protein sequence

>MsG0580029925.01.T01

MQPKTEPGSPPGSNSTKPNKLEDKSIHDLVMVLRGTCQWETFDSVEAVLEKRDMRLREENQKLQQSFEMERLKLREEFHLERLSRVYAESEFKKREEICEKGKKVQESYEALLKEVKVNRLADRKTNEELEKKNSELEVEIKNLKEKCVDRSNEVDVLRTKIVN*