AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007977.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007977.01.T01 MTR_2g436540 93.377 151 10 0 92 242 81 231 1.05e-99 290
MsG0280007977.01.T01 MTR_2g018710 31.410 312 124 11 14 242 19 323 8.82e-35 127
MsG0280007977.01.T01 MTR_2g086350 31.410 312 124 11 14 242 19 323 9.59e-35 127
MsG0280007977.01.T01 MTR_1g080080 31.410 312 124 11 14 242 19 323 1.08e-34 126
MsG0280007977.01.T01 MTR_2g435870 31.507 292 123 8 19 243 9 290 4.58e-34 124
MsG0280007977.01.T01 MTR_4g061370 30.645 310 136 8 2 243 1018 1316 1.22e-32 125
MsG0280007977.01.T01 MTR_5g054570 30.976 297 127 11 14 242 19 305 7.51e-32 119
MsG0280007977.01.T01 MTR_4g046743 30.112 269 135 7 14 242 19 274 4.93e-31 115
MsG0280007977.01.T01 MTR_5g055390 30.325 277 139 8 10 243 17 282 1.60e-29 112
MsG0280007977.01.T01 MTR_2g436180 36.408 206 91 7 68 243 1 196 7.32e-29 108
MsG0280007977.01.T01 MTR_1g016370 40.690 145 74 4 101 243 188 322 7.81e-25 100
MsG0280007977.01.T01 MTR_1g016370 34.653 101 38 2 13 85 17 117 2.60e-11 62.8
MsG0280007977.01.T01 MTR_3g110155 40.690 145 76 3 99 243 196 330 4.16e-24 98.6
MsG0280007977.01.T01 MTR_8g006585 40.690 145 76 3 99 243 196 330 4.16e-24 98.6
MsG0280007977.01.T01 MTR_8g006695 40.690 145 76 3 99 243 196 330 4.16e-24 98.6
MsG0280007977.01.T01 MTR_2g054730 35.172 145 82 4 101 243 19 153 1.40e-18 80.1
MsG0280007977.01.T01 MTR_8g054100 33.036 112 47 2 2 85 6 117 1.89e-12 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 50 sgRNAs with CRISPR-Local

Find 92 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATACGGGATACCGATTTAT+TGG 0.221213 2:+23884443 MsG0280007977.01.T01:CDS
GATCAATCTACTTTCATAAA+TGG 0.225444 2:-23884891 None:intergenic
AGGAAAGACATTGGAGATAA+AGG 0.272766 2:+23883834 MsG0280007977.01.T01:CDS
ATGCCTTGATGAAGTCAAAA+AGG 0.298025 2:+23883914 MsG0280007977.01.T01:CDS
TTGACATCCCATTCAGCCTT+TGG 0.309578 2:-23883867 None:intergenic
ATGAGCAAAGCTTGTTGAAT+TGG 0.320958 2:+23884841 MsG0280007977.01.T01:CDS
TTATTGGGAGGTGCTATTGC+TGG 0.381064 2:+23884459 MsG0280007977.01.T01:CDS
CTTAATTGCATGGAGGTCAT+TGG 0.389948 2:+23884729 MsG0280007977.01.T01:CDS
GTTTGTAGCATTACAAGTAC+TGG 0.394698 2:+23884815 MsG0280007977.01.T01:CDS
TTAAGCTCAGCAATCACTTC+AGG 0.402179 2:-23884711 None:intergenic
ATACGGGATACCGATTTATT+GGG 0.408881 2:+23884444 MsG0280007977.01.T01:CDS
TCATTGGAAGCGATCTTGAT+TGG 0.423771 2:+23884745 MsG0280007977.01.T01:CDS
TAGATATCGGGGAAGGATAC+GGG 0.437880 2:+23884428 MsG0280007977.01.T01:intron
CAACATCAGCTGACAACATC+GGG 0.459096 2:-23884772 None:intergenic
GTGTAAGACCAAAGGCTGAA+TGG 0.473181 2:+23883859 MsG0280007977.01.T01:CDS
AATAGCACCTCCCAATAAAT+CGG 0.477242 2:-23884454 None:intergenic
TGTAAGACCAAAGGCTGAAT+GGG 0.486012 2:+23883860 MsG0280007977.01.T01:CDS
GGAGGTGCTATTGCTGGAGT+TGG 0.495766 2:+23884465 MsG0280007977.01.T01:CDS
ATGGTATAAGTTGTTTGCTA+AGG 0.498533 2:+23884069 MsG0280007977.01.T01:CDS
TTAGGAGAGATTGGCAAGAA+TGG 0.506891 2:+23884050 MsG0280007977.01.T01:intron
TTTGCTAAGGAGACACTTGT+GGG 0.512651 2:+23884082 MsG0280007977.01.T01:CDS
ATGAAGGCACTGATAGTACC+TGG 0.520648 2:+23884678 MsG0280007977.01.T01:CDS
GTCGCACACAGCTGCTATGA+AGG 0.526769 2:+23884662 MsG0280007977.01.T01:CDS
CGCATCACTATCATTTCCAC+GGG 0.547701 2:-23884520 None:intergenic
GTGATGCGTGTAGCGTGAAG+AGG 0.550255 2:+23884535 MsG0280007977.01.T01:CDS
GCTACAAACATTTCCCTCGC+GGG 0.550949 2:-23884801 None:intergenic
CGTGTAGCGTGAAGAGGCGA+AGG 0.564658 2:+23884541 MsG0280007977.01.T01:CDS
GATTGCTGAGCTTAATTGCA+TGG 0.565046 2:+23884719 MsG0280007977.01.T01:CDS
ACGCATCACTATCATTTCCA+CGG 0.565136 2:-23884521 None:intergenic
TCAAGGTTTCTGATGCAGAA+AGG 0.566852 2:+23884601 MsG0280007977.01.T01:CDS
TTTGTAGCATTACAAGTACT+GGG 0.568955 2:+23884816 MsG0280007977.01.T01:CDS
AACATGAAGAGGAAAGACAT+TGG 0.569372 2:+23883825 MsG0280007977.01.T01:CDS
AGCGTGAAGAGGCGAAGGGT+TGG 0.570317 2:+23884546 MsG0280007977.01.T01:CDS
GGACAATGAGGAACATGAAG+AGG 0.574669 2:+23883814 None:intergenic
GTTTGCTAAGGAGACACTTG+TGG 0.579425 2:+23884081 MsG0280007977.01.T01:CDS
ACAACATCAGCTGACAACAT+CGG 0.591838 2:-23884773 None:intergenic
AAAGACATTGGAGATAAAGG+AGG 0.594640 2:+23883837 MsG0280007977.01.T01:CDS
TCTACTTTCATAAATGGCAG+AGG 0.608958 2:-23884885 None:intergenic
ACTTCAGGAATAGATGTCCC+AGG 0.611416 2:-23884696 None:intergenic
CGGGATACCGATTTATTGGG+AGG 0.611538 2:+23884447 MsG0280007977.01.T01:CDS
GATGTTGTTTAAGCCCGCGA+GGG 0.627996 2:+23884788 MsG0280007977.01.T01:CDS
TAGATGCACCTGATGAGTGG+TGG 0.638418 2:+23884128 MsG0280007977.01.T01:CDS
AGATGCACCTGATGAGTGGT+GGG 0.645494 2:+23884129 MsG0280007977.01.T01:CDS
TAAAGGAGGTGTAAGACCAA+AGG 0.652942 2:+23883851 MsG0280007977.01.T01:CDS
TGCTACAAACATTTCCCTCG+CGG 0.656038 2:-23884802 None:intergenic
TGAAGGCACTGATAGTACCT+GGG 0.672680 2:+23884679 MsG0280007977.01.T01:CDS
CTATAGATGCACCTGATGAG+TGG 0.677735 2:+23884125 MsG0280007977.01.T01:CDS
TGATGTTGTTTAAGCCCGCG+AGG 0.680542 2:+23884787 MsG0280007977.01.T01:CDS
GTGTAGCGTGAAGAGGCGAA+GGG 0.723526 2:+23884542 MsG0280007977.01.T01:CDS
TGCTGAGCTTAATTGCATGG+AGG 0.754574 2:+23884722 MsG0280007977.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTAGTTAATTCAATGTAAAA+TGG - Chr2:23884289-23884308 None:intergenic 20.0%
!! TGAGAAGAATAAAAATATCA+AGG + Chr2:23884584-23884603 MsG0280007977.01.T01:CDS 20.0%
! AATAAGCAATTAACAACAAG+TGG + Chr2:23884020-23884039 MsG0280007977.01.T01:intron 25.0%
!! TTATTTTCATCTATGCCATT+AGG - Chr2:23884373-23884392 None:intergenic 25.0%
!!! TGATTAGTTTATAAACATGC+AGG + Chr2:23884227-23884246 MsG0280007977.01.T01:intron 25.0%
ACAACAAGTGGTATAATCTT+AGG + Chr2:23884032-23884051 MsG0280007977.01.T01:intron 30.0%
CCAACTTTAATGAGAAAACT+GGG + Chr2:23883986-23884005 MsG0280007977.01.T01:intron 30.0%
TCCAACTTTAATGAGAAAAC+TGG + Chr2:23883985-23884004 MsG0280007977.01.T01:intron 30.0%
TGAATTAACTACTCTGTTCA+AGG + Chr2:23884297-23884316 MsG0280007977.01.T01:intron 30.0%
TTTGTAGCATTACAAGTACT+GGG + Chr2:23884816-23884835 MsG0280007977.01.T01:CDS 30.0%
! ATGGTATAAGTTGTTTGCTA+AGG + Chr2:23884069-23884088 MsG0280007977.01.T01:CDS 30.0%
AAAGACATTGGAGATAAAGG+AGG + Chr2:23883837-23883856 MsG0280007977.01.T01:CDS 35.0%
AACATGAAGAGGAAAGACAT+TGG + Chr2:23883825-23883844 MsG0280007977.01.T01:CDS 35.0%
AACTACTCTGTTCAAGGATA+TGG + Chr2:23884303-23884322 MsG0280007977.01.T01:intron 35.0%
AATAGCACCTCCCAATAAAT+CGG - Chr2:23884457-23884476 None:intergenic 35.0%
AGGAAAGACATTGGAGATAA+AGG + Chr2:23883834-23883853 MsG0280007977.01.T01:CDS 35.0%
AGTATGGAAAGTTTAGGCAA+AGG + Chr2:23884258-23884277 MsG0280007977.01.T01:intron 35.0%
ATCCACAGTATGGAAAGTTT+AGG + Chr2:23884252-23884271 MsG0280007977.01.T01:intron 35.0%
ATGCCTTGATGAAGTCAAAA+AGG + Chr2:23883914-23883933 MsG0280007977.01.T01:CDS 35.0%
CTTTAATGAGAAAACTGGGA+AGG + Chr2:23883990-23884009 MsG0280007977.01.T01:intron 35.0%
GGTATAATCTTAGGAGAGAT+TGG + Chr2:23884041-23884060 MsG0280007977.01.T01:intron 35.0%
GTATGGAAAGTTTAGGCAAA+GGG + Chr2:23884259-23884278 MsG0280007977.01.T01:intron 35.0%
GTTTGTAGCATTACAAGTAC+TGG + Chr2:23884815-23884834 MsG0280007977.01.T01:CDS 35.0%
TCTACTTTCATAAATGGCAG+AGG - Chr2:23884888-23884907 None:intergenic 35.0%
TGCCTTGATGAAGTCAAAAA+GGG + Chr2:23883915-23883934 MsG0280007977.01.T01:CDS 35.0%
TGGAACAACCCTTACAAAAA+AGG + Chr2:23883947-23883966 MsG0280007977.01.T01:CDS 35.0%
! CCCAGTTTTCTCATTAAAGT+TGG - Chr2:23883989-23884008 None:intergenic 35.0%
! TTTTCATCTATGCCATTAGG+TGG - Chr2:23884370-23884389 None:intergenic 35.0%
!! ATAAATTTTAGCACATCCCG+TGG + Chr2:23884504-23884523 MsG0280007977.01.T01:CDS 35.0%
!! ATACGGGATACCGATTTATT+GGG + Chr2:23884444-23884463 MsG0280007977.01.T01:CDS 35.0%
!! ATGAGCAAAGCTTGTTGAAT+TGG + Chr2:23884841-23884860 MsG0280007977.01.T01:CDS 35.0%
!!! AGATTCCAGCCTTTTTTGTA+AGG - Chr2:23883959-23883978 None:intergenic 35.0%
!!! GATTCCAGCCTTTTTTGTAA+GGG - Chr2:23883958-23883977 None:intergenic 35.0%
ACAACATCAGCTGACAACAT+CGG - Chr2:23884776-23884795 None:intergenic 40.0%
ACAACCCTTACAAAAAAGGC+TGG + Chr2:23883951-23883970 MsG0280007977.01.T01:CDS 40.0%
ACGCATCACTATCATTTCCA+CGG - Chr2:23884524-23884543 None:intergenic 40.0%
AGAGTGGTGGTATAGATATC+GGG + Chr2:23884416-23884435 MsG0280007977.01.T01:intron 40.0%
ATAGATATCGGGGAAGGATA+CGG + Chr2:23884427-23884446 MsG0280007977.01.T01:intron 40.0%
CGATACTAGAAAGGTTGCAT+TGG + Chr2:23884327-23884346 MsG0280007977.01.T01:intron 40.0%
CTTAATTGCATGGAGGTCAT+TGG + Chr2:23884729-23884748 MsG0280007977.01.T01:CDS 40.0%
GAGAGTGGTGGTATAGATAT+CGG + Chr2:23884415-23884434 MsG0280007977.01.T01:intron 40.0%
GATTGCTGAGCTTAATTGCA+TGG + Chr2:23884719-23884738 MsG0280007977.01.T01:CDS 40.0%
GGATATGGTCGATACTAGAA+AGG + Chr2:23884318-23884337 MsG0280007977.01.T01:intron 40.0%
GTCAAAAAGGGAGAACACAA+TGG + Chr2:23883927-23883946 MsG0280007977.01.T01:CDS 40.0%
TCAAGGTTTCTGATGCAGAA+AGG + Chr2:23884601-23884620 MsG0280007977.01.T01:CDS 40.0%
TCATTGGAAGCGATCTTGAT+TGG + Chr2:23884745-23884764 MsG0280007977.01.T01:CDS 40.0%
TGCCTAAACTTTCCATACTG+TGG - Chr2:23884257-23884276 None:intergenic 40.0%
TGTAAGACCAAAGGCTGAAT+GGG + Chr2:23883860-23883879 MsG0280007977.01.T01:CDS 40.0%
TTAAGCTCAGCAATCACTTC+AGG - Chr2:23884714-23884733 None:intergenic 40.0%
TTAGGAGAGATTGGCAAGAA+TGG + Chr2:23884050-23884069 MsG0280007977.01.T01:intron 40.0%
TTTGCTAAGGAGACACTTGT+GGG + Chr2:23884082-23884101 MsG0280007977.01.T01:CDS 40.0%
! TAAAGGAGGTGTAAGACCAA+AGG + Chr2:23883851-23883870 MsG0280007977.01.T01:CDS 40.0%
!! GATACGGGATACCGATTTAT+TGG + Chr2:23884443-23884462 MsG0280007977.01.T01:CDS 40.0%
!!! CTCCCTTTTTGACTTCATCA+AGG - Chr2:23883920-23883939 None:intergenic 40.0%
ACTTCAGGAATAGATGTCCC+AGG - Chr2:23884699-23884718 None:intergenic 45.0%
ATTAGGTGGTATCCCAGAAG+AGG - Chr2:23884356-23884375 None:intergenic 45.0%
CAACATCAGCTGACAACATC+GGG - Chr2:23884775-23884794 None:intergenic 45.0%
CATGCAGGAAATCCACAGTA+TGG + Chr2:23884242-23884261 MsG0280007977.01.T01:intron 45.0%
CGCATCACTATCATTTCCAC+GGG - Chr2:23884523-23884542 None:intergenic 45.0%
CTATAGATGCACCTGATGAG+TGG + Chr2:23884125-23884144 MsG0280007977.01.T01:CDS 45.0%
GAGTGGTGGTATAGATATCG+GGG + Chr2:23884417-23884436 MsG0280007977.01.T01:intron 45.0%
GTGTAAGACCAAAGGCTGAA+TGG + Chr2:23883859-23883878 MsG0280007977.01.T01:CDS 45.0%
TACCACCACTCTCAAAGCAT+AGG - Chr2:23884408-23884427 None:intergenic 45.0%
TAGATATCGGGGAAGGATAC+GGG + Chr2:23884428-23884447 MsG0280007977.01.T01:intron 45.0%
TGCTACAAACATTTCCCTCG+CGG - Chr2:23884805-23884824 None:intergenic 45.0%
TGCTGAGCTTAATTGCATGG+AGG + Chr2:23884722-23884741 MsG0280007977.01.T01:CDS 45.0%
TTAGGTGGTATCCCAGAAGA+GGG - Chr2:23884355-23884374 None:intergenic 45.0%
TTGACATCCCATTCAGCCTT+TGG - Chr2:23883870-23883889 None:intergenic 45.0%
! AGTGGTGGGAGAAAAACAAC+TGG + Chr2:23884143-23884162 MsG0280007977.01.T01:CDS 45.0%
! GTTTGCTAAGGAGACACTTG+TGG + Chr2:23884081-23884100 MsG0280007977.01.T01:CDS 45.0%
! TTGCATTGGTACCCTCTTCT+GGG + Chr2:23884341-23884360 MsG0280007977.01.T01:intron 45.0%
! TTTTTCTCCCACCACTCATC+AGG - Chr2:23884139-23884158 None:intergenic 45.0%
!! ATGAAGGCACTGATAGTACC+TGG + Chr2:23884678-23884697 MsG0280007977.01.T01:CDS 45.0%
!! TATCGCCTATGCTTTGAGAG+TGG + Chr2:23884400-23884419 MsG0280007977.01.T01:intron 45.0%
!! TCTTCTGGGATACCACCTAA+TGG + Chr2:23884355-23884374 MsG0280007977.01.T01:intron 45.0%
!! TGAAGGCACTGATAGTACCT+GGG + Chr2:23884679-23884698 MsG0280007977.01.T01:CDS 45.0%
!! TTATTGGGAGGTGCTATTGC+TGG + Chr2:23884459-23884478 MsG0280007977.01.T01:CDS 45.0%
AGATGCACCTGATGAGTGGT+GGG + Chr2:23884129-23884148 MsG0280007977.01.T01:CDS 50.0%
GCTACAAACATTTCCCTCGC+GGG - Chr2:23884804-23884823 None:intergenic 50.0%
GGTGGTATAGATATCGGGGA+AGG + Chr2:23884421-23884440 MsG0280007977.01.T01:intron 50.0%
TAGATGCACCTGATGAGTGG+TGG + Chr2:23884128-23884147 MsG0280007977.01.T01:CDS 50.0%
! GATGTTGTTTAAGCCCGCGA+GGG + Chr2:23884788-23884807 MsG0280007977.01.T01:CDS 50.0%
! GTTGCATTGGTACCCTCTTC+TGG + Chr2:23884340-23884359 MsG0280007977.01.T01:intron 50.0%
! TGATGTTGTTTAAGCCCGCG+AGG + Chr2:23884787-23884806 MsG0280007977.01.T01:CDS 50.0%
!! CGGGATACCGATTTATTGGG+AGG + Chr2:23884447-23884466 MsG0280007977.01.T01:CDS 50.0%
GTCGCACACAGCTGCTATGA+AGG + Chr2:23884662-23884681 MsG0280007977.01.T01:CDS 55.0%
GTGATGCGTGTAGCGTGAAG+AGG + Chr2:23884535-23884554 MsG0280007977.01.T01:CDS 55.0%
GTGTAGCGTGAAGAGGCGAA+GGG + Chr2:23884542-23884561 MsG0280007977.01.T01:CDS 55.0%
!! CGCCTATGCTTTGAGAGTGG+TGG + Chr2:23884403-23884422 MsG0280007977.01.T01:intron 55.0%
!! GGAGGTGCTATTGCTGGAGT+TGG + Chr2:23884465-23884484 MsG0280007977.01.T01:CDS 55.0%
AGCGTGAAGAGGCGAAGGGT+TGG + Chr2:23884546-23884565 MsG0280007977.01.T01:CDS 60.0%
CGTGTAGCGTGAAGAGGCGA+AGG + Chr2:23884541-23884560 MsG0280007977.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 23883819 23884911 23883819 ID=MsG0280007977.01;Name=MsG0280007977.01
Chr2 mRNA 23883819 23884911 23883819 ID=MsG0280007977.01.T01;Parent=MsG0280007977.01;Name=MsG0280007977.01.T01;_AED=0.26;_eAED=0.27;_QI=0|0|0|1|0.5|0.33|3|0|244
Chr2 exon 23883819 23883978 23883819 ID=MsG0280007977.01.T01:exon:34637;Parent=MsG0280007977.01.T01
Chr2 exon 23884059 23884164 23884059 ID=MsG0280007977.01.T01:exon:34638;Parent=MsG0280007977.01.T01
Chr2 exon 23884443 23884911 23884443 ID=MsG0280007977.01.T01:exon:34639;Parent=MsG0280007977.01.T01
Chr2 CDS 23883819 23883978 23883819 ID=MsG0280007977.01.T01:cds;Parent=MsG0280007977.01.T01
Chr2 CDS 23884059 23884164 23884059 ID=MsG0280007977.01.T01:cds;Parent=MsG0280007977.01.T01
Chr2 CDS 23884443 23884911 23884443 ID=MsG0280007977.01.T01:cds;Parent=MsG0280007977.01.T01
Gene Sequence

>MsG0280007977.01.T01

ATGAGGAACATGAAGAGGAAAGACATTGGAGATAAAGGAGGTGTAAGACCAAAGGCTGAATGGGATGTCAATACAGTCAAATTGTATATCAAATTATGCCTTGATGAAGTCAAAAAGGGAGAACACAATGGAACAACCCTTACAAAAAAGGCTGGAATCTATTGGCAAGAATGGTATAAGTTGTTTGCTAAGGAGACACTTGTGGGACAAGATAGTGCAAAGAACGCTATAGATGCACCTGATGAGTGGTGGGAGAAAAACAACTGGATACGGGATACCGATTTATTGGGAGGTGCTATTGCTGGAGTTGGTGCTTATTTTCAAGATATAAATTTTAGCACATCCCGTGGAAATGATAGTGATGCGTGTAGCGTGAAGAGGCGAAGGGTTGGATCTTTTGATAGAACTGAGAAGAATAAAAATATCAAGGTTTCTGATGCAGAAAGGATAGCTGATGCATTGAGTAGAATTGCATCTGTGTGTGAGTCGCACACAGCTGCTATGAAGGCACTGATAGTACCTGGGACATCTATTCCTGAAGTGATTGCTGAGCTTAATTGCATGGAGGTCATTGGAAGCGATCTTGATTGGCATTCCCGATGTTGTCAGCTGATGTTGTTTAAGCCCGCGAGGGAAATGTTTGTAGCATTACAAGTACTGGGAAATGAGCAAAGCTTGTTGAATTGGCTTAAATATGCAGCATATACACCTCTGCCATTTATGAAAGTAGATTGA
Protein sequence

>MsG0280007977.01.T01

MRNMKRKDIGDKGGVRPKAEWDVNTVKLYIKLCLDEVKKGEHNGTTLTKKAGIYWQEWYKLFAKETLVGQDSAKNAIDAPDEWWEKNNWIRDTDLLGGAIAGVGAYFQDINFSTSRGNDSDACSVKRRRVGSFDRTEKNKNIKVSDAERIADALSRIASVCESHTAAMKALIVPGTSIPEVIAELNCMEVIGSDLDWHSRCCQLMLFKPAREMFVALQVLGNEQSLLNWLKYAAYTPLPFMKVD*