AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380012064.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012064.01.T01 MTR_3g013440 95.455 88 4 0 1 88 1 88 1.87e-59 177
MsG0380012064.01.T01 MTR_7g089210 71.053 76 21 1 12 87 14 88 1.30e-33 111
MsG0380012064.01.T01 MTR_1g022290 58.621 87 29 3 4 84 1 86 1.03e-30 104
MsG0380012064.01.T01 MTR_3g111880 58.427 89 32 2 4 88 1 88 1.47e-30 103
MsG0380012064.01.T01 MTR_6g004250 62.667 75 27 1 1 75 1 74 5.85e-30 102
MsG0380012064.01.T01 MTR_3g116720 64.198 81 22 2 1 75 1 80 7.53e-30 102
MsG0380012064.01.T01 MTR_8g077380 57.353 68 27 1 7 74 2 67 2.68e-23 85.1
MsG0380012064.01.T01 MTR_8g077390 57.353 68 27 1 7 74 2 67 2.68e-23 85.1
MsG0380012064.01.T01 MTR_8g077360 57.353 68 27 1 7 74 2 67 2.72e-23 85.1
MsG0380012064.01.T01 MTR_5g020540 59.375 64 24 1 8 71 2 63 6.57e-23 84.0
MsG0380012064.01.T01 MTR_8g077420 59.375 64 24 1 8 71 3 64 1.03e-22 83.6
MsG0380012064.01.T01 MTR_5g020170 48.649 74 37 1 1 74 10 82 7.49e-21 79.7
MsG0380012064.01.T01 MTR_5g081860 49.315 73 36 1 1 73 18 89 5.22e-17 73.6
MsG0380012064.01.T01 MTR_5g069710 46.429 84 33 2 9 81 28 110 1.02e-15 70.5
MsG0380012064.01.T01 MTR_3g462790 50.704 71 34 1 3 73 36 105 6.98e-15 68.6
MsG0380012064.01.T01 MTR_1g033600 42.667 75 42 1 1 75 3 76 9.39e-15 65.5
MsG0380012064.01.T01 MTR_7g067080 44.706 85 37 2 10 85 35 118 1.03e-14 67.8
MsG0380012064.01.T01 MTR_1g086180 52.632 57 27 0 10 66 11 67 1.14e-14 63.9
MsG0380012064.01.T01 MTR_7g110580 54.237 59 27 0 10 68 8 66 1.39e-14 63.5
MsG0380012064.01.T01 MTR_3g111920 41.667 72 41 1 9 80 2 72 2.67e-14 62.8
MsG0380012064.01.T01 MTR_8g063600 46.575 73 38 1 1 73 1 72 4.65e-14 65.9
MsG0380012064.01.T01 MTR_8g063870 49.254 67 33 1 7 73 5 70 6.47e-14 65.5
MsG0380012064.01.T01 MTR_4g111975 44.737 76 37 3 4 75 1 75 1.66e-12 61.6
MsG0380012064.01.T01 MTR_1g111830 40.909 66 38 1 10 75 24 88 4.51e-12 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012064.01.T01 AT2G21650 59.302 86 27 2 10 88 14 98 9.41e-31 105
MsG0380012064.01.T01 AT4G39250 57.647 85 29 2 10 88 14 97 4.42e-30 103
MsG0380012064.01.T01 AT1G75250 51.000 100 43 2 3 97 5 103 3.12e-28 99.4
MsG0380012064.01.T01 AT1G75250 63.158 76 25 2 1 74 1 75 3.45e-26 93.2
MsG0380012064.01.T01 AT1G19510 60.938 64 24 1 13 76 15 77 4.18e-22 83.2
MsG0380012064.01.T01 AT2G18328 62.500 64 23 1 13 76 14 76 5.28e-22 82.0
MsG0380012064.01.T01 AT4G36570 68.889 45 13 1 10 54 12 55 9.28e-17 68.2
MsG0380012064.01.T01 AT5G58900 50.685 73 35 1 1 73 25 96 2.54e-16 72.0
MsG0380012064.01.T01 AT2G38090 50.649 77 31 2 10 80 29 104 3.03e-16 72.0
MsG0380012064.01.T01 AT5G05790 49.351 77 36 2 7 81 28 103 3.74e-16 71.6
MsG0380012064.01.T01 AT5G05790 49.351 77 36 2 7 81 28 103 3.74e-16 71.6
MsG0380012064.01.T01 AT3G11280 48.438 64 32 1 10 73 33 95 3.01e-13 63.5
MsG0380012064.01.T01 AT3G11280 48.438 64 32 1 10 73 33 95 3.01e-13 63.5
MsG0380012064.01.T01 AT5G23650 48.571 70 35 1 4 73 7 75 4.38e-13 63.5
MsG0380012064.01.T01 AT5G08520 45.070 71 38 1 10 80 12 81 1.46e-11 58.9
MsG0380012064.01.T01 AT5G04760 39.706 68 39 1 6 73 2 67 4.68e-11 57.0

Find 24 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCCAATGTTCTTGTAATT+TGG 0.053146 3:-10406289 None:intergenic
CTCCAATGTTCTTGTAATTT+GGG 0.244052 3:-10406288 None:intergenic
GACACTATGAACACCTTCTA+AGG 0.262540 3:+10406230 MsG0380012064.01.T01:CDS
TATGCCTAACATCCCTTAGA+AGG 0.404703 3:-10406243 None:intergenic
CAATGTCAGCATCTGGTTCA+TGG 0.413232 3:+10406086 MsG0380012064.01.T01:CDS
GATGTTAGGCATATTGAATC+AGG 0.424945 3:+10406253 MsG0380012064.01.T01:CDS
AACACCTTCTAAGGGATGTT+AGG 0.467379 3:+10406239 MsG0380012064.01.T01:CDS
TAGTGTCTCTTAACATCCTC+AGG 0.475467 3:-10406214 None:intergenic
CCAAATTACAAGAACATTGG+AGG 0.482774 3:+10406289 MsG0380012064.01.T01:CDS
ATGGCATCAATGTCAGCATC+TGG 0.486683 3:+10406079 MsG0380012064.01.T01:CDS
ACCAACAGCTTGAGCAACAT+TGG 0.499603 3:-10406179 None:intergenic
TTCCCAAATTACAAGAACAT+TGG 0.502964 3:+10406286 MsG0380012064.01.T01:CDS
AGGACAATAAAGCATTTGAA+AGG 0.506069 3:+10406116 MsG0380012064.01.T01:CDS
TCCAATGTTGCTCAAGCTGT+TGG 0.520440 3:+10406178 MsG0380012064.01.T01:CDS
GGACAATAAAGCATTTGAAA+GGG 0.535274 3:+10406117 MsG0380012064.01.T01:CDS
GCAACATTGGACCAACGGTC+AGG 0.535547 3:-10406166 None:intergenic
AATGTTGCTCAAGCTGTTGG+TGG 0.546053 3:+10406181 MsG0380012064.01.T01:CDS
GTTGCTCAAGCTGTTGGTGG+TGG 0.554528 3:+10406184 MsG0380012064.01.T01:CDS
ATCTGGTTCATGGAGTGCTA+AGG 0.583163 3:+10406096 MsG0380012064.01.T01:CDS
ATAAAGACACACCTGACCGT+TGG 0.596639 3:+10406155 MsG0380012064.01.T01:CDS
ACACTATGAACACCTTCTAA+GGG 0.610400 3:+10406231 MsG0380012064.01.T01:CDS
CTTGAGCAACATTGGACCAA+CGG 0.640722 3:-10406171 None:intergenic
GAACATTGGAGGCTATGATG+AGG 0.660409 3:+10406300 MsG0380012064.01.T01:CDS
TGGTGGTGGAAAGACTCCTG+AGG 0.678384 3:+10406198 MsG0380012064.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CTCCAATGTTCTTGTAATTT+GGG - Chr3:10406291-10406310 None:intergenic 30.0%
TTCCCAAATTACAAGAACAT+TGG + Chr3:10406286-10406305 MsG0380012064.01.T01:CDS 30.0%
! AGGACAATAAAGCATTTGAA+AGG + Chr3:10406116-10406135 MsG0380012064.01.T01:CDS 30.0%
! GGACAATAAAGCATTTGAAA+GGG + Chr3:10406117-10406136 MsG0380012064.01.T01:CDS 30.0%
ACACTATGAACACCTTCTAA+GGG + Chr3:10406231-10406250 MsG0380012064.01.T01:CDS 35.0%
CCAAATTACAAGAACATTGG+AGG + Chr3:10406289-10406308 MsG0380012064.01.T01:CDS 35.0%
CCTCCAATGTTCTTGTAATT+TGG - Chr3:10406292-10406311 None:intergenic 35.0%
GATGTTAGGCATATTGAATC+AGG + Chr3:10406253-10406272 MsG0380012064.01.T01:CDS 35.0%
GACACTATGAACACCTTCTA+AGG + Chr3:10406230-10406249 MsG0380012064.01.T01:CDS 40.0%
GAGGCTATGATGAGGAAAAA+AGG + Chr3:10406308-10406327 MsG0380012064.01.T01:CDS 40.0%
TAGTGTCTCTTAACATCCTC+AGG - Chr3:10406217-10406236 None:intergenic 40.0%
TATGCCTAACATCCCTTAGA+AGG - Chr3:10406246-10406265 None:intergenic 40.0%
! AACACCTTCTAAGGGATGTT+AGG + Chr3:10406239-10406258 MsG0380012064.01.T01:CDS 40.0%
AATGTTGCTCAAGCTGTTGG+TGG + Chr3:10406181-10406200 MsG0380012064.01.T01:CDS 45.0%
ACCAACAGCTTGAGCAACAT+TGG - Chr3:10406182-10406201 None:intergenic 45.0%
ATAAAGACACACCTGACCGT+TGG + Chr3:10406155-10406174 MsG0380012064.01.T01:CDS 45.0%
ATGGCATCAATGTCAGCATC+TGG + Chr3:10406079-10406098 MsG0380012064.01.T01:CDS 45.0%
CTTGAGCAACATTGGACCAA+CGG - Chr3:10406174-10406193 None:intergenic 45.0%
GAACATTGGAGGCTATGATG+AGG + Chr3:10406300-10406319 MsG0380012064.01.T01:CDS 45.0%
TCCAATGTTGCTCAAGCTGT+TGG + Chr3:10406178-10406197 MsG0380012064.01.T01:CDS 45.0%
! ATCTGGTTCATGGAGTGCTA+AGG + Chr3:10406096-10406115 MsG0380012064.01.T01:CDS 45.0%
! CAATGTCAGCATCTGGTTCA+TGG + Chr3:10406086-10406105 MsG0380012064.01.T01:CDS 45.0%
GCAACATTGGACCAACGGTC+AGG - Chr3:10406169-10406188 None:intergenic 55.0%
! GTTGCTCAAGCTGTTGGTGG+TGG + Chr3:10406184-10406203 MsG0380012064.01.T01:CDS 55.0%
!! TGGTGGTGGAAAGACTCCTG+AGG + Chr3:10406198-10406217 MsG0380012064.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr3 gene 10406079 10406372 10406079 ID=MsG0380012064.01;Name=MsG0380012064.01
Chr3 mRNA 10406079 10406372 10406079 ID=MsG0380012064.01.T01;Parent=MsG0380012064.01;Name=MsG0380012064.01.T01;_AED=0.41;_eAED=0.41;_QI=0|-1|0|1|-1|1|1|0|97
Chr3 exon 10406079 10406372 10406079 ID=MsG0380012064.01.T01:exon:1696;Parent=MsG0380012064.01.T01
Chr3 CDS 10406079 10406372 10406079 ID=MsG0380012064.01.T01:cds;Parent=MsG0380012064.01.T01
Gene Sequence

>MsG0380012064.01.T01

ATGGCATCAATGTCAGCATCTGGTTCATGGAGTGCTAAGGACAATAAAGCATTTGAAAGGGCACTAGCTGTTTTTGATAAAGACACACCTGACCGTTGGTCCAATGTTGCTCAAGCTGTTGGTGGTGGAAAGACTCCTGAGGATGTTAAGAGACACTATGAACACCTTCTAAGGGATGTTAGGCATATTGAATCAGGTCATGTTGCATTCCCAAATTACAAGAACATTGGAGGCTATGATGAGGAAAAAAGGTATTATACATTGTTTCAATTTTTTATTATAAACATATATTAG
Protein sequence

>MsG0380012064.01.T01

MASMSASGSWSAKDNKAFERALAVFDKDTPDRWSNVAQAVGGGKTPEDVKRHYEHLLRDVRHIESGHVAFPNYKNIGGYDEEKRYYTLFQFFIINIY*