AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene066094


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066094.t1 MTR_4g107840 96.098 205 8 0 8 212 40 244 2.43e-144 402
MS.gene066094.t1 MTR_8g469150 40.566 212 117 3 3 212 72 276 1.46e-46 155
MS.gene066094.t1 MTR_7g009330 41.176 204 111 3 11 212 81 277 7.47e-46 153
MS.gene066094.t1 MTR_8g469150 40.306 196 109 2 3 196 72 261 4.33e-43 146
MS.gene066094.t1 MTR_6g011390 37.209 215 122 4 2 212 73 278 4.50e-42 143
MS.gene066094.t1 MTR_5g015580 27.358 212 145 3 3 212 72 276 1.88e-25 100
MS.gene066094.t1 MTR_1g018205 25.943 212 148 3 3 212 73 277 1.58e-21 89.7
MS.gene066094.t1 MTR_4g128300 29.016 193 129 2 22 212 93 279 3.50e-21 89.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066094.t1 AT3G01280 41.951 205 110 3 10 212 79 276 6.00e-49 161
MS.gene066094.t1 AT5G15090 36.275 204 119 4 11 212 80 274 1.05e-38 135
MS.gene066094.t1 AT5G15090 36.275 204 119 4 11 212 80 274 1.05e-38 135
MS.gene066094.t1 AT5G57490 30.189 212 137 4 3 212 72 274 9.50e-29 108
MS.gene066094.t1 AT5G67500 30.189 212 139 3 3 212 72 276 8.22e-28 106
MS.gene066094.t1 AT5G67500 30.189 212 139 3 3 212 99 303 1.08e-27 107
MS.gene066094.t1 AT5G67500 29.064 203 135 3 3 203 72 267 3.16e-23 95.1
MS.gene066094.t1 AT3G49920 34.127 126 82 1 87 212 102 226 1.10e-15 73.2

Find 58 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGGCCGGCGAAATGGATTT+TGG 0.152016 8.4:+19369880 MS.gene066094:CDS
ACTGGATGCATTGGATTATT+AGG 0.191506 8.4:+19369290 MS.gene066094:CDS
CTCTCATTCAACAAGGATTT+TGG 0.192793 8.4:+19369839 MS.gene066094:CDS
CGAGCCTTTAGCAATGTTTC+AGG 0.209136 8.4:-19369790 None:intergenic
TTGCAATGGCCGTCTGGGTT+AGG 0.244222 8.4:-19369699 None:intergenic
AATAGATTCACTGGGATTAC+TGG 0.244615 8.4:+19369272 MS.gene066094:CDS
CTTGTGTTGCAATGGCCGTC+TGG 0.310688 8.4:-19369705 None:intergenic
TGCAATGGCCGTCTGGGTTA+GGG 0.312768 8.4:-19369698 None:intergenic
AAGAAATTCTACCTGGATTC+AGG 0.317980 8.4:+19369082 MS.gene066094:CDS
GACCCTGTTGTAAAATTATC+AGG 0.320742 8.4:+19369332 MS.gene066094:CDS
ACAGAATGCTTGTTCCTAAA+AGG 0.329840 8.4:-19369355 None:intergenic
GGGGTTTACTTCATGATAAA+TGG 0.338544 8.4:-19369677 None:intergenic
TAGAATTTCTTGAACTGTAA+TGG 0.369739 8.4:-19369070 None:intergenic
AAAGGCTCGCTTTGACAGTT+CGG 0.382952 8.4:+19369804 MS.gene066094:CDS
TGTAACTATGGCCGGCGAAA+TGG 0.408333 8.4:+19369873 MS.gene066094:CDS
AAGGCTCGCTTTGACAGTTC+GGG 0.409065 8.4:+19369805 MS.gene066094:CDS
AATGGTACCTTCCCGGAGTC+TGG 0.421783 8.4:-19369126 None:intergenic
ACCAAGTTGACTGCTGGCTT+CGG 0.424833 8.4:+19369422 MS.gene066094:CDS
GCAAGGCAACATTGGCTCCT+AGG 0.425523 8.4:-19369379 None:intergenic
ACAAAGTAATGGTACCTTCC+CGG 0.441553 8.4:-19369133 None:intergenic
AGCTTGTCACTCAAGGAAAC+TGG 0.442221 8.4:+19369736 MS.gene066094:CDS
ACTGGGATTACTGGATGCAT+TGG 0.448328 8.4:+19369281 MS.gene066094:CDS
CAGGGTCATATGCTCCATCT+TGG 0.460843 8.4:-19369316 None:intergenic
ACAAGGTCAATGAAGCTTCA+AGG 0.465289 8.4:-19369460 None:intergenic
GCCATGGAGACTCCAACCTT+TGG 0.474824 8.4:-19369922 None:intergenic
CAGTACTTGAATAGATTCAC+TGG 0.475573 8.4:+19369263 MS.gene066094:CDS
AACTTGGTTATCGATCTTGT+TGG 0.497298 8.4:-19369407 None:intergenic
TTTGACAGTTCGGGCAAAGT+AGG 0.498953 8.4:+19369814 MS.gene066094:CDS
GCAATGGCCGTCTGGGTTAG+GGG 0.501382 8.4:-19369697 None:intergenic
CAAGGCAACATTGGCTCCTA+GGG 0.505987 8.4:-19369378 None:intergenic
GCCGAAGCCAGCAGTCAACT+TGG 0.507792 8.4:-19369423 None:intergenic
TTGTGTTGCAATGGCCGTCT+GGG 0.533482 8.4:-19369704 None:intergenic
GGAACAAGCATTCTGTCCCT+AGG 0.535981 8.4:+19369362 MS.gene066094:CDS
AAGGAAACTGGTGTCACCAT+TGG 0.538400 8.4:+19369748 MS.gene066094:CDS
AAATGTACCGTACCAGACTC+CGG 0.544121 8.4:+19369114 MS.gene066094:CDS
CAATGGCCGTCTGGGTTAGG+GGG 0.545151 8.4:-19369696 None:intergenic
TTGAAAACAGTCCTGAATCC+AGG 0.545165 8.4:-19369093 None:intergenic
ACAGTTCAAGAAATTCTACC+TGG 0.548340 8.4:+19369075 MS.gene066094:CDS
TCGATAACCAAGTTGACTGC+TGG 0.549363 8.4:+19369416 MS.gene066094:CDS
GGCCCCAAAATCCATTTCGC+CGG 0.561250 8.4:-19369884 None:intergenic
CGATCTTGTTGGTATGTGCA+AGG 0.562305 8.4:-19369396 None:intergenic
AACCTTTGGAATCTTATCAT+CGG 0.566666 8.4:-19369908 None:intergenic
AAATGCATGCTGAGCACCAA+TGG 0.571123 8.4:-19369764 None:intergenic
GGATTATTAGGAAACCAAGA+TGG 0.572580 8.4:+19369302 MS.gene066094:CDS
TCCAAAGGTTGGAGTCTCCA+TGG 0.577690 8.4:+19369921 MS.gene066094:CDS
ATGCTTCACTTGTGTTGCAA+TGG 0.577920 8.4:-19369713 None:intergenic
GATGATAAGATTCCAAAGGT+TGG 0.579129 8.4:+19369910 MS.gene066094:CDS
AGATTAGGGTCTTAGAGCCA+TGG 0.589733 8.4:-19369938 None:intergenic
AATGTACCGTACCAGACTCC+GGG 0.592748 8.4:+19369115 MS.gene066094:CDS
CTTTGGAATCTTATCATCGG+TGG 0.598433 8.4:-19369905 None:intergenic
GAAGCATAGCTTGTCACTCA+AGG 0.598774 8.4:+19369729 MS.gene066094:CDS
TACCTTCCCGGAGTCTGGTA+CGG 0.603084 8.4:-19369121 None:intergenic
GGTCAATGAAGCTTCAAGGA+AGG 0.612698 8.4:-19369456 None:intergenic
AGTACTTGAATAGATTCACT+GGG 0.614520 8.4:+19369264 MS.gene066094:CDS
TGGTATGTGCAAGGCAACAT+TGG 0.624437 8.4:-19369387 None:intergenic
CACCGATGATAAGATTCCAA+AGG 0.660499 8.4:+19369906 MS.gene066094:CDS
TACCGTACCAGACTCCGGGA+AGG 0.677553 8.4:+19369119 MS.gene066094:CDS
GTAGGTGCTCTCATTCAACA+AGG 0.711960 8.4:+19369832 MS.gene066094:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAAATATTTCATATTATGC+AGG + chr8.4:19369626-19369645 MS.gene066094:intron 15.0%
!!! ATTTTTCTGATAAATTTAGT+CGG - chr8.4:19369508-19369527 None:intergenic 15.0%
!! AATTTATCAGAAAAATGGAT+AGG + chr8.4:19369512-19369531 MS.gene066094:intron 20.0%
!! GACTAAATTTATCAGAAAAA+TGG + chr8.4:19369507-19369526 MS.gene066094:intron 20.0%
!! TGATACTATACATAGTATAT+AGG - chr8.4:19369164-19369183 None:intergenic 20.0%
! TAGAATTTCTTGAACTGTAA+TGG - chr8.4:19369073-19369092 None:intergenic 25.0%
! TATAGGTAAGTACAAAGTAA+TGG - chr8.4:19369147-19369166 None:intergenic 25.0%
! TATGAATTCATTGTGATTTG+AGG - chr8.4:19369233-19369252 None:intergenic 25.0%
! TCAAATCACAATGAATTCAT+AGG + chr8.4:19369232-19369251 MS.gene066094:intron 25.0%
!!! TATGATGGATATATCTTACA+AGG - chr8.4:19369480-19369499 None:intergenic 25.0%
AATCACAATGAATTCATAGG+TGG + chr8.4:19369235-19369254 MS.gene066094:intron 30.0%
AGTACTTGAATAGATTCACT+GGG + chr8.4:19369264-19369283 MS.gene066094:CDS 30.0%
ATTTAGTCGGTAGTTTATGA+TGG - chr8.4:19369495-19369514 None:intergenic 30.0%
! GTAAAATTATCAGGCCTTTT+AGG + chr8.4:19369341-19369360 MS.gene066094:CDS 30.0%
! TTTTCCTGAAACATTGCTAA+AGG + chr8.4:19369786-19369805 MS.gene066094:CDS 30.0%
!! AACCTTTGGAATCTTATCAT+CGG - chr8.4:19369911-19369930 None:intergenic 30.0%
!!! AGATTTTTTGTAACTATGGC+CGG + chr8.4:19369865-19369884 MS.gene066094:CDS 30.0%
!!! GCAGAGATTTTTTGTAACTA+TGG + chr8.4:19369861-19369880 MS.gene066094:CDS 30.0%
AACTTGGTTATCGATCTTGT+TGG - chr8.4:19369410-19369429 None:intergenic 35.0%
AAGAAATTCTACCTGGATTC+AGG + chr8.4:19369082-19369101 MS.gene066094:CDS 35.0%
AATAGATTCACTGGGATTAC+TGG + chr8.4:19369272-19369291 MS.gene066094:CDS 35.0%
ACAGAATGCTTGTTCCTAAA+AGG - chr8.4:19369358-19369377 None:intergenic 35.0%
ACAGTTCAAGAAATTCTACC+TGG + chr8.4:19369075-19369094 MS.gene066094:CDS 35.0%
ACTGGATGCATTGGATTATT+AGG + chr8.4:19369290-19369309 MS.gene066094:CDS 35.0%
CAGTACTTGAATAGATTCAC+TGG + chr8.4:19369263-19369282 MS.gene066094:CDS 35.0%
GACCCTGTTGTAAAATTATC+AGG + chr8.4:19369332-19369351 MS.gene066094:CDS 35.0%
GATGATAAGATTCCAAAGGT+TGG + chr8.4:19369910-19369929 MS.gene066094:CDS 35.0%
GGATTATTAGGAAACCAAGA+TGG + chr8.4:19369302-19369321 MS.gene066094:CDS 35.0%
GGGGTTTACTTCATGATAAA+TGG - chr8.4:19369680-19369699 None:intergenic 35.0%
! AGGCCTGATAATTTTACAAC+AGG - chr8.4:19369338-19369357 None:intergenic 35.0%
! CTCTCATTCAACAAGGATTT+TGG + chr8.4:19369839-19369858 MS.gene066094:CDS 35.0%
! GGCCTGATAATTTTACAACA+GGG - chr8.4:19369337-19369356 None:intergenic 35.0%
ACAAAGTAATGGTACCTTCC+CGG - chr8.4:19369136-19369155 None:intergenic 40.0%
ACAAGGTCAATGAAGCTTCA+AGG - chr8.4:19369463-19369482 None:intergenic 40.0%
ATGCTTCACTTGTGTTGCAA+TGG - chr8.4:19369716-19369735 None:intergenic 40.0%
CACCGATGATAAGATTCCAA+AGG + chr8.4:19369906-19369925 MS.gene066094:CDS 40.0%
TTGAAAACAGTCCTGAATCC+AGG - chr8.4:19369096-19369115 None:intergenic 40.0%
!! CTTTGGAATCTTATCATCGG+TGG - chr8.4:19369908-19369927 None:intergenic 40.0%
AAAGGCTCGCTTTGACAGTT+CGG + chr8.4:19369804-19369823 MS.gene066094:CDS 45.0%
AAATGCATGCTGAGCACCAA+TGG - chr8.4:19369767-19369786 None:intergenic 45.0%
AAATGTACCGTACCAGACTC+CGG + chr8.4:19369114-19369133 MS.gene066094:CDS 45.0%
ACTGGGATTACTGGATGCAT+TGG + chr8.4:19369281-19369300 MS.gene066094:CDS 45.0%
AGCTTGTCACTCAAGGAAAC+TGG + chr8.4:19369736-19369755 MS.gene066094:CDS 45.0%
CGAGCCTTTAGCAATGTTTC+AGG - chr8.4:19369793-19369812 None:intergenic 45.0%
CGATCTTGTTGGTATGTGCA+AGG - chr8.4:19369399-19369418 None:intergenic 45.0%
GGTCAATGAAGCTTCAAGGA+AGG - chr8.4:19369459-19369478 None:intergenic 45.0%
GTAGGTGCTCTCATTCAACA+AGG + chr8.4:19369832-19369851 MS.gene066094:CDS 45.0%
TGGTATGTGCAAGGCAACAT+TGG - chr8.4:19369390-19369409 None:intergenic 45.0%
TTTGACAGTTCGGGCAAAGT+AGG + chr8.4:19369814-19369833 MS.gene066094:CDS 45.0%
! GAAGCATAGCTTGTCACTCA+AGG + chr8.4:19369729-19369748 MS.gene066094:CDS 45.0%
! TCGATAACCAAGTTGACTGC+TGG + chr8.4:19369416-19369435 MS.gene066094:CDS 45.0%
!! AAGGAAACTGGTGTCACCAT+TGG + chr8.4:19369748-19369767 MS.gene066094:CDS 45.0%
AAGGCTCGCTTTGACAGTTC+GGG + chr8.4:19369805-19369824 MS.gene066094:CDS 50.0%
AATGTACCGTACCAGACTCC+GGG + chr8.4:19369115-19369134 MS.gene066094:CDS 50.0%
AGTAAACCCCCTAACCCAGA+CGG + chr8.4:19369690-19369709 MS.gene066094:CDS 50.0%
CAGGGTCATATGCTCCATCT+TGG - chr8.4:19369319-19369338 None:intergenic 50.0%
GGAACAAGCATTCTGTCCCT+AGG + chr8.4:19369362-19369381 MS.gene066094:CDS 50.0%
TCCAAAGGTTGGAGTCTCCA+TGG + chr8.4:19369921-19369940 MS.gene066094:CDS 50.0%
TGTAACTATGGCCGGCGAAA+TGG + chr8.4:19369873-19369892 MS.gene066094:CDS 50.0%
TTGTGTTGCAATGGCCGTCT+GGG - chr8.4:19369707-19369726 None:intergenic 50.0%
!! ACCAAGTTGACTGCTGGCTT+CGG + chr8.4:19369422-19369441 MS.gene066094:CDS 50.0%
!! ATGGCCGGCGAAATGGATTT+TGG + chr8.4:19369880-19369899 MS.gene066094:CDS 50.0%
!! CAAGGCAACATTGGCTCCTA+GGG - chr8.4:19369381-19369400 None:intergenic 50.0%
!! TGGCCGGCGAAATGGATTTT+GGG + chr8.4:19369881-19369900 MS.gene066094:CDS 50.0%
AATGGTACCTTCCCGGAGTC+TGG - chr8.4:19369129-19369148 None:intergenic 55.0%
CTTGTGTTGCAATGGCCGTC+TGG - chr8.4:19369708-19369727 None:intergenic 55.0%
GCCATGGAGACTCCAACCTT+TGG - chr8.4:19369925-19369944 None:intergenic 55.0%
GGCCCCAAAATCCATTTCGC+CGG - chr8.4:19369887-19369906 None:intergenic 55.0%
TACCTTCCCGGAGTCTGGTA+CGG - chr8.4:19369124-19369143 None:intergenic 55.0%
TGCAATGGCCGTCTGGGTTA+GGG - chr8.4:19369701-19369720 None:intergenic 55.0%
TTGCAATGGCCGTCTGGGTT+AGG - chr8.4:19369702-19369721 None:intergenic 55.0%
!! GCAAGGCAACATTGGCTCCT+AGG - chr8.4:19369382-19369401 None:intergenic 55.0%
!! GGCCGGCGAAATGGATTTTG+GGG + chr8.4:19369882-19369901 MS.gene066094:CDS 55.0%
GCCGAAGCCAGCAGTCAACT+TGG - chr8.4:19369426-19369445 None:intergenic 60.0%
TACCGTACCAGACTCCGGGA+AGG + chr8.4:19369119-19369138 MS.gene066094:CDS 60.0%
! CAATGGCCGTCTGGGTTAGG+GGG - chr8.4:19369699-19369718 None:intergenic 60.0%
! GCAATGGCCGTCTGGGTTAG+GGG - chr8.4:19369700-19369719 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 19369039 19369957 19369039 ID=MS.gene066094
chr8.4 mRNA 19369039 19369957 19369039 ID=MS.gene066094.t1;Parent=MS.gene066094
chr8.4 exon 19369039 19369140 19369039 ID=MS.gene066094.t1.exon1;Parent=MS.gene066094.t1
chr8.4 CDS 19369039 19369140 19369039 ID=cds.MS.gene066094.t1;Parent=MS.gene066094.t1
chr8.4 exon 19369254 19369480 19369254 ID=MS.gene066094.t1.exon2;Parent=MS.gene066094.t1
chr8.4 CDS 19369254 19369480 19369254 ID=cds.MS.gene066094.t1;Parent=MS.gene066094.t1
chr8.4 exon 19369648 19369957 19369648 ID=MS.gene066094.t1.exon3;Parent=MS.gene066094.t1
chr8.4 CDS 19369648 19369957 19369648 ID=cds.MS.gene066094.t1;Parent=MS.gene066094.t1
Gene Sequence

>MS.gene066094

ATGTCTGACTGTAGTGCTTTTGCTGCTGTATCCATTACAGTTCAAGAAATTCTACCTGGATTCAGGACTGTTTTCAAATGTACCGTACCAGACTCCGGGAAGGTACCATTACTTTGTACTTACCTATATACTATGTATAGTATCATCTTTAATAGTTTTAGTGTTTTTTTGTTCATTGCATCTGAGTATTTCCTCAAATCACAATGAATTCATAGGTGGAACTACAGTACTTGAATAGATTCACTGGGATTACTGGATGCATTGGATTATTAGGAAACCAAGATGGAGCATATGACCCTGTTGTAAAATTATCAGGCCTTTTAGGAACAAGCATTCTGTCCCTAGGAGCCAATGTTGCCTTGCACATACCAACAAGATCGATAACCAAGTTGACTGCTGGCTTCGGCTTAAACACTGCCTTCCTTGAAGCTTCATTGACCTTGTAAGATATATCCATCATAAACTACCGACTAAATTTATCAGAAAAATGGATAGGAATATCAATTAGTGATCTCTAAACTAACTTTAGCATTTAATTAATCATTACTGCTTAGTGTTCTGCTACTGTTTCTTTTGTCGAGCTTGAATTAAATATTTCATATTATGCAGGCATGACAGCTTTGACACTCTAAAAGCGACCATTTATCATGAAGTAAACCCCCTAACCCAGACGGCCATTGCAACACAAGTGAAGCATAGCTTGTCACTCAAGGAAACTGGTGTCACCATTGGTGCTCAGCATGCATTTTTTCCTGAAACATTGCTAAAGGCTCGCTTTGACAGTTCGGGCAAAGTAGGTGCTCTCATTCAACAAGGATTTTGGCAGAGATTTTTTGTAACTATGGCCGGCGAAATGGATTTTGGGGCCACCGATGATAAGATTCCAAAGGTTGGAGTCTCCATGGCTCTAAGACCCTAA

Protein sequence

>MS.gene066094.t1

MSDCSAFAAVSITVQEILPGFRTVFKCTVPDSGKVELQYLNRFTGITGCIGLLGNQDGAYDPVVKLSGLLGTSILSLGANVALHIPTRSITKLTAGFGLNTAFLEASLTLHDSFDTLKATIYHEVNPLTQTAIATQVKHSLSLKETGVTIGAQHAFFPETLLKARFDSSGKVGALIQQGFWQRFFVTMAGEMDFGATDDKIPKVGVSMALRP