AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380013888.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013888.01.T01 MTR_7g021800 98.726 157 2 0 141 297 2 158 3.65e-115 328
MsG0380013888.01.T01 MTR_4g035040 98.726 157 2 0 141 297 2 158 3.65e-115 328
MsG0380013888.01.T01 MTR_0002s0630 86.250 160 22 0 138 297 159 318 9.05e-102 301
MsG0380013888.01.T01 MTR_0002s0630 93.151 73 5 0 1 73 85 157 7.41e-41 144
MsG0380013888.01.T01 MTR_7g021790 98.582 141 2 0 1 141 85 225 5.68e-100 293
MsG0380013888.01.T01 MTR_4g051225 98.582 141 2 0 1 141 85 225 6.34e-100 293
MsG0380013888.01.T01 MTR_3g104310 51.316 76 36 1 1 76 127 201 4.09e-22 92.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013888.01.T01 ATCG00420 88.535 157 18 0 141 297 2 158 7.83e-104 300
MsG0380013888.01.T01 ATCG00430 84.733 131 20 0 1 131 85 215 8.19e-76 231
MsG0380013888.01.T01 AT5G11770 52.632 76 35 1 1 76 135 209 4.31e-22 92.4

Find 54 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCATAGCAATAACATATTT+TGG 0.145578 3:-47519347 None:intergenic
CGGAATAGTTCATAGATCTT+TGG 0.225646 3:+47519882 MsG0380013888.01.T01:CDS
GGCCATCCTATCCAACTTTC+GGG 0.254679 3:-47520246 None:intergenic
TCTATAACGGCTTCCGGTTT+AGG 0.271031 3:-47519473 None:intergenic
GGAATAGTTCATAGATCTTT+GGG 0.328701 3:+47519883 MsG0380013888.01.T01:CDS
CGATTCTTATAGTACTGTTC+GGG 0.334412 3:+47519403 MsG0380013888.01.T01:CDS
AGGCCATCCTATCCAACTTT+CGG 0.340000 3:-47520247 None:intergenic
TTCCAAACCCAGAAAATAGA+AGG 0.366444 3:-47520138 None:intergenic
ATGGGAGCCTGTACAATTAC+AGG 0.381263 3:+47519365 MsG0380013888.01.T01:CDS
ATAGCATCTATAACGGCTTC+CGG 0.383241 3:-47519479 None:intergenic
TAATCCTTGATTATAATTGC+CGG 0.397390 3:-47519618 None:intergenic
TGCAGGGTCATTTGTCTGCT+TGG 0.409987 3:+47519848 MsG0380013888.01.T01:intron
AGGGAATCTTATGATATGTT+AGG 0.415137 3:+47520180 MsG0380013888.01.T01:CDS
GCCAGGCTGTCCACCTAAAC+CGG 0.419334 3:+47519460 MsG0380013888.01.T01:CDS
CCGATTCTTATAGTACTGTT+CGG 0.421214 3:+47519402 MsG0380013888.01.T01:CDS
TTTGTTATCAACGAGAGAAT+AGG 0.424726 3:+47519549 MsG0380013888.01.T01:CDS
ACCAAAATATGTTATTGCTA+TGG 0.431305 3:+47519346 MsG0380013888.01.T01:CDS
TTTGTAAAGTCTCTATTCCT+TGG 0.436961 3:-47519915 None:intergenic
TGCTACATCATAGGCACATT+GGG 0.447727 3:-47520004 None:intergenic
TTATAGTACTGTTCGGGGCG+TGG 0.449303 3:+47519409 MsG0380013888.01.T01:CDS
TCCTCCTGGTGCTACATCAT+AGG 0.453068 3:-47520013 None:intergenic
CCAAAATATGTTATTGCTAT+GGG 0.459012 3:+47519347 MsG0380013888.01.T01:CDS
CCTGTGGATGTCTATTTGCC+AGG 0.459278 3:+47519443 MsG0380013888.01.T01:CDS
TACAAATAAAGCCCGAGGAT+TGG 0.464528 3:+47519932 MsG0380013888.01.T01:CDS
ACGAACCACAAATTTCATCT+TGG 0.467272 3:+47519581 MsG0380013888.01.T01:CDS
CAGAAAATAGAAGGAATTCT+CGG 0.478109 3:-47520129 None:intergenic
TCCGGTTTAGGTGGACAGCC+TGG 0.487255 3:-47519461 None:intergenic
AGCAATCGAATGCCAATCCT+CGG 0.513209 3:-47519944 None:intergenic
TGCCCGAAAGTTGGATAGGA+TGG 0.516198 3:+47520244 MsG0380013888.01.T01:CDS
CATACCGGCAATTATAATCA+AGG 0.517342 3:+47519614 MsG0380013888.01.T01:CDS
TCATATAATCGAACTAAAGA+AGG 0.525955 3:-47519311 None:intergenic
CATCCCTCCTGTAATTGTAC+AGG 0.526031 3:-47519372 None:intergenic
CCGAACAGTACTATAAGAAT+CGG 0.541435 3:-47519402 None:intergenic
TGCGTCCAAGATGAAATTTG+TGG 0.543518 3:-47519586 None:intergenic
GTGCTACATCATAGGCACAT+TGG 0.546406 3:-47520005 None:intergenic
GTTATCTCTGAAATAGATGA+TGG 0.552200 3:-47519650 None:intergenic
TTAATGCCCGAAAGTTGGAT+AGG 0.556642 3:+47520240 MsG0380013888.01.T01:CDS
ACACTAGCTAATAGTCCTCC+TGG 0.563367 3:-47520027 None:intergenic
ATAACGGCTTCCGGTTTAGG+TGG 0.571411 3:-47519470 None:intergenic
GCAATCGAATGCCAATCCTC+GGG 0.577805 3:-47519943 None:intergenic
CCTGGCAAATAGACATCCAC+AGG 0.589717 3:-47519443 None:intergenic
TGTGCCTATGATGTAGCACC+AGG 0.591745 3:+47520009 MsG0380013888.01.T01:CDS
GCGATATAATCTTTACGCAA+AGG 0.602633 3:-47520267 None:intergenic
CTTGGACGCAGTACTCATAC+CGG 0.607678 3:+47519599 MsG0380013888.01.T01:CDS
GCATAAAAGTATTTGCCCCA+AGG 0.613297 3:+47520100 MsG0380013888.01.T01:CDS
TAGTTTAGATCAACCCGAAG+AGG 0.615869 3:+47520074 MsG0380013888.01.T01:CDS
ATTAAAATACGTTTCAGACG+CGG 0.619896 3:-47520222 None:intergenic
CGTGGATAAGCTAATTCCTG+TGG 0.619980 3:+47519427 MsG0380013888.01.T01:CDS
GACTTTACAAATAAAGCCCG+AGG 0.624427 3:+47519927 MsG0380013888.01.T01:CDS
TCTGCTTGGCTAGTCAAACA+CGG 0.639180 3:+47519862 MsG0380013888.01.T01:CDS
GGAGCCTGTACAATTACAGG+AGG 0.664070 3:+47519368 MsG0380013888.01.T01:CDS
GATTCTTATAGTACTGTTCG+GGG 0.694011 3:+47519404 MsG0380013888.01.T01:CDS
GCCTATGATGTAGCACCAGG+AGG 0.695694 3:+47520012 MsG0380013888.01.T01:CDS
GAGCCTGTACAATTACAGGA+GGG 0.718983 3:+47519369 MsG0380013888.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTATATAAAAAAAAGC+AGG + Chr3:47519810-47519829 MsG0380013888.01.T01:intron 15.0%
!!! TGCTTTTTTTTATATAAGTT+TGG - Chr3:47519811-47519830 None:intergenic 15.0%
!! ATCCTGTATTTCATAAAAAT+TGG - Chr3:47520295-47520314 None:intergenic 20.0%
!! TCCTGTATTTCATAAAAATT+GGG - Chr3:47520294-47520313 None:intergenic 20.0%
!!! CTTATTGTATTTTGTACAAA+AGG - Chr3:47519747-47519766 None:intergenic 20.0%
!!! GCTGTTATTTTATATGTATA+TGG + Chr3:47519964-47519983 MsG0380013888.01.T01:CDS 20.0%
!!! TTTTGTTATAGCATCTATAA+CGG - Chr3:47519489-47519508 None:intergenic 20.0%
! AACGAAAAAGTGAATTAAAC+AGG + Chr3:47519719-47519738 MsG0380013888.01.T01:intron 25.0%
! ACCAAAATATGTTATTGCTA+TGG + Chr3:47519346-47519365 MsG0380013888.01.T01:CDS 25.0%
! ATATTTGAAAAATGTGTCAG+AGG - Chr3:47519675-47519694 None:intergenic 25.0%
! CCAAAATATGTTATTGCTAT+GGG + Chr3:47519347-47519366 MsG0380013888.01.T01:CDS 25.0%
! CCTGTATTTCATAAAAATTG+GGG - Chr3:47520293-47520312 None:intergenic 25.0%
! CTGTATTTCATAAAAATTGG+GGG - Chr3:47520292-47520311 None:intergenic 25.0%
! GAGAAGTAAAAAAAAATGCA+GGG + Chr3:47519832-47519851 MsG0380013888.01.T01:intron 25.0%
! TAATCCTTGATTATAATTGC+CGG - Chr3:47519621-47519640 None:intergenic 25.0%
! TCATATAATCGAACTAAAGA+AGG - Chr3:47519314-47519333 None:intergenic 25.0%
!!! AGCAATAACATATTTTGGTT+CGG - Chr3:47519345-47519364 None:intergenic 25.0%
!!! TAATTCACTTTTTCGTTTGT+CGG - Chr3:47519716-47519735 None:intergenic 25.0%
AGGGAATCTTATGATATGTT+AGG + Chr3:47520180-47520199 MsG0380013888.01.T01:CDS 30.0%
ATTAAAATACGTTTCAGACG+CGG - Chr3:47520225-47520244 None:intergenic 30.0%
CAGAAAATAGAAGGAATTCT+CGG - Chr3:47520132-47520151 None:intergenic 30.0%
GGAATAGTTCATAGATCTTT+GGG + Chr3:47519883-47519902 MsG0380013888.01.T01:CDS 30.0%
GGAGAAGTAAAAAAAAATGC+AGG + Chr3:47519831-47519850 MsG0380013888.01.T01:intron 30.0%
TTTGTAAAGTCTCTATTCCT+TGG - Chr3:47519918-47519937 None:intergenic 30.0%
! CCCATAGCAATAACATATTT+TGG - Chr3:47519350-47519369 None:intergenic 30.0%
! CCCCAATTTTTATGAAATAC+AGG + Chr3:47520290-47520309 MsG0380013888.01.T01:CDS 30.0%
! GAGAATTCCTTCTATTTTCT+GGG + Chr3:47520131-47520150 MsG0380013888.01.T01:CDS 30.0%
! TACTTTTATGCATACCTCTT+CGG - Chr3:47520091-47520110 None:intergenic 30.0%
! TTTGTTATCAACGAGAGAAT+AGG + Chr3:47519549-47519568 MsG0380013888.01.T01:CDS 30.0%
!! GTTATCTCTGAAATAGATGA+TGG - Chr3:47519653-47519672 None:intergenic 30.0%
!!! AAAGTGCTGATTTTCAAGAA+AGG + Chr3:47520160-47520179 MsG0380013888.01.T01:CDS 30.0%
!!! AAGTGCTGATTTTCAAGAAA+GGG + Chr3:47520161-47520180 MsG0380013888.01.T01:CDS 30.0%
!!! GCAATAACATATTTTGGTTC+GGG - Chr3:47519344-47519363 None:intergenic 30.0%
ACGAACCACAAATTTCATCT+TGG + Chr3:47519581-47519600 MsG0380013888.01.T01:CDS 35.0%
CATACCGGCAATTATAATCA+AGG + Chr3:47519614-47519633 MsG0380013888.01.T01:CDS 35.0%
CCGAACAGTACTATAAGAAT+CGG - Chr3:47519405-47519424 None:intergenic 35.0%
CCGATTCTTATAGTACTGTT+CGG + Chr3:47519402-47519421 MsG0380013888.01.T01:CDS 35.0%
CGATTCTTATAGTACTGTTC+GGG + Chr3:47519403-47519422 MsG0380013888.01.T01:CDS 35.0%
CGGAATAGTTCATAGATCTT+TGG + Chr3:47519882-47519901 MsG0380013888.01.T01:CDS 35.0%
GATTCTTATAGTACTGTTCG+GGG + Chr3:47519404-47519423 MsG0380013888.01.T01:CDS 35.0%
GCGATATAATCTTTACGCAA+AGG - Chr3:47520270-47520289 None:intergenic 35.0%
TTCCAAACCCAGAAAATAGA+AGG - Chr3:47520141-47520160 None:intergenic 35.0%
! ACTTTTATGCATACCTCTTC+GGG - Chr3:47520090-47520109 None:intergenic 35.0%
! CGAGAATTCCTTCTATTTTC+TGG + Chr3:47520130-47520149 MsG0380013888.01.T01:CDS 35.0%
! TTCCTTCTATTTTCTGGGTT+TGG + Chr3:47520136-47520155 MsG0380013888.01.T01:CDS 35.0%
!!! GTATTTTAATGCCCGAAAGT+TGG + Chr3:47520235-47520254 MsG0380013888.01.T01:CDS 35.0%
!!! TCTTTGGGTTTTGATTACCA+AGG + Chr3:47519898-47519917 MsG0380013888.01.T01:CDS 35.0%
ATAGCATCTATAACGGCTTC+CGG - Chr3:47519482-47519501 None:intergenic 40.0%
GACTTTACAAATAAAGCCCG+AGG + Chr3:47519927-47519946 MsG0380013888.01.T01:CDS 40.0%
TACAAATAAAGCCCGAGGAT+TGG + Chr3:47519932-47519951 MsG0380013888.01.T01:CDS 40.0%
TAGTTTAGATCAACCCGAAG+AGG + Chr3:47520074-47520093 MsG0380013888.01.T01:CDS 40.0%
TGCGTCCAAGATGAAATTTG+TGG - Chr3:47519589-47519608 None:intergenic 40.0%
TGCTACATCATAGGCACATT+GGG - Chr3:47520007-47520026 None:intergenic 40.0%
TTAATGCCCGAAAGTTGGAT+AGG + Chr3:47520240-47520259 MsG0380013888.01.T01:CDS 40.0%
! AATTCTCGGATTTTGCCTTG+GGG - Chr3:47520118-47520137 None:intergenic 40.0%
! GAATTCTCGGATTTTGCCTT+GGG - Chr3:47520119-47520138 None:intergenic 40.0%
!! GCATAAAAGTATTTGCCCCA+AGG + Chr3:47520100-47520119 MsG0380013888.01.T01:CDS 40.0%
!!! TTCACTTTTTCGTTTGTCGG+AGG - Chr3:47519713-47519732 None:intergenic 40.0%
ACACTAGCTAATAGTCCTCC+TGG - Chr3:47520030-47520049 None:intergenic 45.0%
AGCAATCGAATGCCAATCCT+CGG - Chr3:47519947-47519966 None:intergenic 45.0%
AGGCCATCCTATCCAACTTT+CGG - Chr3:47520250-47520269 None:intergenic 45.0%
ATGGGAGCCTGTACAATTAC+AGG + Chr3:47519365-47519384 MsG0380013888.01.T01:CDS 45.0%
CATCCCTCCTGTAATTGTAC+AGG - Chr3:47519375-47519394 None:intergenic 45.0%
CGTGGATAAGCTAATTCCTG+TGG + Chr3:47519427-47519446 MsG0380013888.01.T01:CDS 45.0%
GAGCCTGTACAATTACAGGA+GGG + Chr3:47519369-47519388 MsG0380013888.01.T01:CDS 45.0%
GTGCTACATCATAGGCACAT+TGG - Chr3:47520008-47520027 None:intergenic 45.0%
TCTATAACGGCTTCCGGTTT+AGG - Chr3:47519476-47519495 None:intergenic 45.0%
! GGAATTCTCGGATTTTGCCT+TGG - Chr3:47520120-47520139 None:intergenic 45.0%
! TCTGCTTGGCTAGTCAAACA+CGG + Chr3:47519862-47519881 MsG0380013888.01.T01:CDS 45.0%
ATAACGGCTTCCGGTTTAGG+TGG - Chr3:47519473-47519492 None:intergenic 50.0%
CCTGGCAAATAGACATCCAC+AGG - Chr3:47519446-47519465 None:intergenic 50.0%
CCTGTGGATGTCTATTTGCC+AGG + Chr3:47519443-47519462 MsG0380013888.01.T01:CDS 50.0%
CTTGGACGCAGTACTCATAC+CGG + Chr3:47519599-47519618 MsG0380013888.01.T01:CDS 50.0%
GCAATCGAATGCCAATCCTC+GGG - Chr3:47519946-47519965 None:intergenic 50.0%
GGAGCCTGTACAATTACAGG+AGG + Chr3:47519368-47519387 MsG0380013888.01.T01:CDS 50.0%
GGCCATCCTATCCAACTTTC+GGG - Chr3:47520249-47520268 None:intergenic 50.0%
TGCAGGGTCATTTGTCTGCT+TGG + Chr3:47519848-47519867 MsG0380013888.01.T01:intron 50.0%
TGCCCGAAAGTTGGATAGGA+TGG + Chr3:47520244-47520263 MsG0380013888.01.T01:CDS 50.0%
TGTGCCTATGATGTAGCACC+AGG + Chr3:47520009-47520028 MsG0380013888.01.T01:CDS 50.0%
TTATAGTACTGTTCGGGGCG+TGG + Chr3:47519409-47519428 MsG0380013888.01.T01:CDS 50.0%
!! TCCTCCTGGTGCTACATCAT+AGG - Chr3:47520016-47520035 None:intergenic 50.0%
GCCTATGATGTAGCACCAGG+AGG + Chr3:47520012-47520031 MsG0380013888.01.T01:CDS 55.0%
GCCAGGCTGTCCACCTAAAC+CGG + Chr3:47519460-47519479 MsG0380013888.01.T01:CDS 60.0%
TCCGGTTTAGGTGGACAGCC+TGG - Chr3:47519464-47519483 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 47519305 47520323 47519305 ID=MsG0380013888.01;Name=MsG0380013888.01
Chr3 mRNA 47519305 47520323 47519305 ID=MsG0380013888.01.T01;Parent=MsG0380013888.01;Name=MsG0380013888.01.T01;_AED=0.44;_eAED=0.45;_QI=0|0|0|1|1|1|2|0|297
Chr3 exon 47519305 47519727 47519305 ID=MsG0380013888.01.T01:exon:26320;Parent=MsG0380013888.01.T01
Chr3 exon 47519853 47520323 47519853 ID=MsG0380013888.01.T01:exon:26321;Parent=MsG0380013888.01.T01
Chr3 CDS 47519305 47519727 47519305 ID=MsG0380013888.01.T01:cds;Parent=MsG0380013888.01.T01
Chr3 CDS 47519853 47520323 47519853 ID=MsG0380013888.01.T01:cds;Parent=MsG0380013888.01.T01
Gene Sequence

>MsG0380013888.01.T01

ATGGCTCCTTCTTTAGTTCGATTATATGAGCAAATGCCCGAACCAAAATATGTTATTGCTATGGGAGCCTGTACAATTACAGGAGGGATGTTCAGTACCGATTCTTATAGTACTGTTCGGGGCGTGGATAAGCTAATTCCTGTGGATGTCTATTTGCCAGGCTGTCCACCTAAACCGGAAGCCGTTATAGATGCTATAACAAAACTTCGTAAGAAAATATCTCGAGAAATCTATGAAGATCAAATTTGTTATCAACGAGAGAATAGGTGTTTTACTACGAACCACAAATTTCATCTTGGACGCAGTACTCATACCGGCAATTATAATCAAGGATTATTTTATCAACCATCATCTATTTCAGAGATAACCTCTGACACATTTTTCAAATATAAAAAAGTTAACTATCCTCCGACAAACGAAAAAGGTCATTTGTCTGCTTGGCTAGTCAAACACGGAATAGTTCATAGATCTTTGGGTTTTGATTACCAAGGAATAGAGACTTTACAAATAAAGCCCGAGGATTGGCATTCGATTGCTGTTATTTTATATGTATATGGTTACAATTATCTACGTTCCCAATGTGCCTATGATGTAGCACCAGGAGGACTATTAGCTAGTGTCTATCATCTTACGAGAATAGAGTATAGTTTAGATCAACCCGAAGAGGTATGCATAAAAGTATTTGCCCCAAGGCAAAATCCGAGAATTCCTTCTATTTTCTGGGTTTGGAAAAGTGCTGATTTTCAAGAAAGGGAATCTTATGATATGTTAGGAATCTCTTATGATAATCATCCGCGTCTGAAACGTATTTTAATGCCCGAAAGTTGGATAGGATGGCCTTTGCGTAAAGATTATATCGCCCCCAATTTTTATGAAATACAGGATGCTCACTAA

Protein sequence

>MsG0380013888.01.T01

MAPSLVRLYEQMPEPKYVIAMGACTITGGMFSTDSYSTVRGVDKLIPVDVYLPGCPPKPEAVIDAITKLRKKISREIYEDQICYQRENRCFTTNHKFHLGRSTHTGNYNQGLFYQPSSISEITSDTFFKYKKVNYPPTNEKGHLSAWLVKHGIVHRSLGFDYQGIETLQIKPEDWHSIAVILYVYGYNYLRSQCAYDVAPGGLLASVYHLTRIEYSLDQPEEVCIKVFAPRQNPRIPSIFWVWKSADFQERESYDMLGISYDNHPRLKRILMPESWIGWPLRKDYIAPNFYEIQDAH*