AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene049121

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049121.t1 MTR_8g103520 89.474 266 18 3 1 261 1 261 9.59e-137 387
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 51 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACACAAACTTTGATAGTTAT+TGG 0.210878 4.1:-2717394 MS.gene049121:CDS
AGAGGGGTGTTTGGTGAAAC+AGG 0.250670 4.1:+2717584 None:intergenic
CGCATGTTCCGATCCTCATT+TGG 0.311225 4.1:-2717872 MS.gene049121:CDS
GTCGATGGTTTGAGAAGGTT+TGG 0.314761 4.1:+2717742 None:intergenic
AGAAGGTTTGGGTTTGGAAA+TGG 0.315494 4.1:+2717754 None:intergenic
TACAGTAGTGTTGGAGGAGA+TGG 0.322979 4.1:+2717790 None:intergenic
ACAACACTTAACTGATGTTA+TGG 0.340442 4.1:-2717834 MS.gene049121:CDS
ATGTCGGCGGCGAGACTTAG+AGG 0.357232 4.1:+2717304 None:intergenic
GAAGGTTTGGGTTTGGAAAT+GGG 0.363025 4.1:+2717755 None:intergenic
AACATCAGTTAAGTGTTGTT+TGG 0.382993 4.1:+2717838 None:intergenic
GGTTTGAGAAGGTTTGGGTT+TGG 0.422047 4.1:+2717748 None:intergenic
TCGATGGTTTGAGAAGGTTT+GGG 0.428115 4.1:+2717743 None:intergenic
GGGTTTGGAAATGGGGTGAA+AGG 0.431587 4.1:+2717763 None:intergenic
GTGTTGTTGAGAGGGGTGTT+TGG 0.450959 4.1:+2717575 None:intergenic
AAGGTTTGGGTTTGGAAATG+GGG 0.455218 4.1:+2717756 None:intergenic
AACTAAGGTTGTTCTGTTCG+TGG 0.457128 4.1:+2717546 None:intergenic
ACTATTTGCACCGCAGAGAA+AGG 0.459628 4.1:+2717646 None:intergenic
CTAAATTGATGAGTAGCAAA+TGG 0.461264 4.1:+2716840 None:intergenic
GCAGAGAAAGGGTGATGAAC+AGG 0.462863 4.1:+2717658 None:intergenic
ACAGTAGTGTTGGAGGAGAT+GGG 0.467223 4.1:+2717791 None:intergenic
GGTTTGGAAATGGGGTGAAA+GGG 0.473399 4.1:+2717764 None:intergenic
TTTGGTGAAACAGGGGTACA+TGG 0.475570 4.1:+2717593 None:intergenic
GGGTAGTACAGTAGTGTTGG+AGG 0.476980 4.1:+2717784 None:intergenic
AAAGGGTAGTACAGTAGTGT+TGG 0.488860 4.1:+2717781 None:intergenic
TGGAATATAGTGTTGTTGAG+AGG 0.492043 4.1:+2717566 None:intergenic
GAGATGGGAGGTGCAAATAG+TGG 0.498953 4.1:+2717806 None:intergenic
CTTCTCGCCGGAAAACTGAC+CGG 0.509033 4.1:-2717280 MS.gene049121:CDS
ATGGGTGTTCTTCCGTTGAA+CGG 0.516099 4.1:-2717248 MS.gene049121:CDS
CTATTTGCACCGCAGAGAAA+GGG 0.525313 4.1:+2717647 None:intergenic
GAGGGGTGTTTGGTGAAACA+GGG 0.533711 4.1:+2717585 None:intergenic
GAAGTTCTAAAATCATTGTA+CGG 0.539349 4.1:+2717182 None:intergenic
TTGAAAGATATGATATCTGA+AGG 0.540231 4.1:+2717716 None:intergenic
GCCGCCGACATTCTTCTCGC+CGG 0.549096 4.1:-2717292 MS.gene049121:CDS
TGCAGGATCCAAATGAGGAT+CGG 0.558716 4.1:+2717864 None:intergenic
AACTGACCGGAGTTCCGACA+TGG 0.569932 4.1:-2717267 MS.gene049121:CDS
TCTTTAGCACATGAGTTGAA+AGG 0.584272 4.1:+2717416 None:intergenic
GGGTCGTCGATGGTTTGAGA+AGG 0.585595 4.1:+2717737 None:intergenic
CAAACTTTGATAGTTATTGG+TGG 0.586184 4.1:-2717391 MS.gene049121:CDS
GAACACCCATGTCGGAACTC+CGG 0.589971 4.1:+2717261 None:intergenic
GGAATATAGTGTTGTTGAGA+GGG 0.593353 4.1:+2717567 None:intergenic
CAACGGAAGAACACCCATGT+CGG 0.598602 4.1:+2717253 None:intergenic
GATATCTGAAGGGTCGTCGA+TGG 0.615099 4.1:+2717727 None:intergenic
AAAAGTCAAAGACACTTTCG+CGG 0.636990 4.1:-2717225 MS.gene049121:CDS
TGAAAGATATGATATCTGAA+GGG 0.646022 4.1:+2717717 None:intergenic
TGTTCATCACCCTTTCTCTG+CGG 0.653629 4.1:-2717656 MS.gene049121:CDS
TCCGGCGAGAAGAATGTCGG+CGG 0.657252 4.1:+2717291 None:intergenic
ACTGACCGGAGTTCCGACAT+GGG 0.670070 4.1:-2717266 MS.gene049121:CDS
AGGGGTGTTTGGTGAAACAG+GGG 0.673783 4.1:+2717586 None:intergenic
GAATATAGTGTTGTTGAGAG+GGG 0.690549 4.1:+2717568 None:intergenic
AGTCAAAGACACTTTCGCGG+TGG 0.716882 4.1:-2717222 MS.gene049121:CDS
GTAGTGTTGGAGGAGATGGG+AGG 0.724632 4.1:+2717794 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAAAAAAAAAAAAAAT+AGG - chr4.1:2717715-2717734 MS.gene049121:CDS 0.0%
!! AAAAAAAAAAAAAAAAAATA+GGG - chr4.1:2717716-2717735 MS.gene049121:CDS 0.0%
! TGAAAGATATGATATCTGAA+GGG + chr4.1:2716997-2717016 None:intergenic 25.0%
! TTGAAAGATATGATATCTGA+AGG + chr4.1:2716998-2717017 None:intergenic 25.0%
!! ACACAAACTTTGATAGTTAT+TGG - chr4.1:2717317-2717336 MS.gene049121:CDS 25.0%
!! ATGGTTTTCTATCAAGTTTA+AGG + chr4.1:2717102-2717121 None:intergenic 25.0%
!!! CAATGATTTTAGAACTTCAA+TGG - chr4.1:2717534-2717553 MS.gene049121:CDS 25.0%
!!! GAAGTTCTAAAATCATTGTA+CGG + chr4.1:2717532-2717551 None:intergenic 25.0%
!!! GTTTTGTGTTTTTGTTTCTA+AGG - chr4.1:2717801-2717820 MS.gene049121:CDS 25.0%
!!! TTGTTTTTTCGTAGAAACTA+AGG + chr4.1:2717183-2717202 None:intergenic 25.0%
ACAACACTTAACTGATGTTA+TGG - chr4.1:2716877-2716896 MS.gene049121:intron 30.0%
CTAAATTGATGAGTAGCAAA+TGG + chr4.1:2717874-2717893 None:intergenic 30.0%
TGAAGTTTACACAGAGATTT+GGG - chr4.1:2717660-2717679 MS.gene049121:CDS 30.0%
TTGAAGTTTACACAGAGATT+TGG - chr4.1:2717659-2717678 MS.gene049121:CDS 30.0%
! AACATCAGTTAAGTGTTGTT+TGG + chr4.1:2716876-2716895 None:intergenic 30.0%
! AATATTTTCACCAAGTGAGT+TGG - chr4.1:2717579-2717598 MS.gene049121:CDS 30.0%
! CAAACTTTGATAGTTATTGG+TGG - chr4.1:2717320-2717339 MS.gene049121:CDS 30.0%
!! AAAAGCTCTGTTTTTCTTCT+GGG + chr4.1:2717275-2717294 None:intergenic 30.0%
!!! TGATTTTAGAACTTCAATGG+TGG - chr4.1:2717537-2717556 MS.gene049121:CDS 30.0%
AAAAGATTCTCCAACTCACT+TGG + chr4.1:2717592-2717611 None:intergenic 35.0%
AAAAGTCAAAGACACTTTCG+CGG - chr4.1:2717486-2717505 MS.gene049121:CDS 35.0%
! GAATATAGTGTTGTTGAGAG+GGG + chr4.1:2717146-2717165 None:intergenic 35.0%
! GGAATATAGTGTTGTTGAGA+GGG + chr4.1:2717147-2717166 None:intergenic 35.0%
! TCTTTAGCACATGAGTTGAA+AGG + chr4.1:2717298-2717317 None:intergenic 35.0%
! TGGAATATAGTGTTGTTGAG+AGG + chr4.1:2717148-2717167 None:intergenic 35.0%
!! GAAAAGCTCTGTTTTTCTTC+TGG + chr4.1:2717276-2717295 None:intergenic 35.0%
!! TCTTTGACTTTTCCGTTCAA+CGG + chr4.1:2717478-2717497 None:intergenic 35.0%
!!! TAAGTGTTGTTTGGTTTTGC+AGG + chr4.1:2716867-2716886 None:intergenic 35.0%
AAAGGGTAGTACAGTAGTGT+TGG + chr4.1:2716933-2716952 None:intergenic 40.0%
AACTAAGGTTGTTCTGTTCG+TGG + chr4.1:2717168-2717187 None:intergenic 40.0%
TCGATGGTTTGAGAAGGTTT+GGG + chr4.1:2716971-2716990 None:intergenic 40.0%
! AAGGTTTGGGTTTGGAAATG+GGG + chr4.1:2716958-2716977 None:intergenic 40.0%
! AGAAGGTTTGGGTTTGGAAA+TGG + chr4.1:2716960-2716979 None:intergenic 40.0%
! GAAGGTTTGGGTTTGGAAAT+GGG + chr4.1:2716959-2716978 None:intergenic 40.0%
ACTATTTGCACCGCAGAGAA+AGG + chr4.1:2717068-2717087 None:intergenic 45.0%
ATGGGTGTTCTTCCGTTGAA+CGG - chr4.1:2717463-2717482 MS.gene049121:CDS 45.0%
CTATTTGCACCGCAGAGAAA+GGG + chr4.1:2717067-2717086 None:intergenic 45.0%
GGTTTGGAAATGGGGTGAAA+GGG + chr4.1:2716950-2716969 None:intergenic 45.0%
GTCGATGGTTTGAGAAGGTT+TGG + chr4.1:2716972-2716991 None:intergenic 45.0%
TGCAGGATCCAAATGAGGAT+CGG + chr4.1:2716850-2716869 None:intergenic 45.0%
TGTTCATCACCCTTTCTCTG+CGG - chr4.1:2717055-2717074 MS.gene049121:intron 45.0%
! ACAGTAGTGTTGGAGGAGAT+GGG + chr4.1:2716923-2716942 None:intergenic 45.0%
! GGTTTGAGAAGGTTTGGGTT+TGG + chr4.1:2716966-2716985 None:intergenic 45.0%
! GGTTTTGCAGGATCCAAATG+AGG + chr4.1:2716855-2716874 None:intergenic 45.0%
! TACAGTAGTGTTGGAGGAGA+TGG + chr4.1:2716924-2716943 None:intergenic 45.0%
! TTTGGTGAAACAGGGGTACA+TGG + chr4.1:2717121-2717140 None:intergenic 45.0%
! TTTTCCGGCGAGAAGAATGT+CGG + chr4.1:2717426-2717445 None:intergenic 45.0%
!! GGGAAGCTTTATTCTCTGAC+TGG - chr4.1:2717680-2717699 MS.gene049121:CDS 45.0%
AGTCAAAGACACTTTCGCGG+TGG - chr4.1:2717489-2717508 MS.gene049121:CDS 50.0%
CAACGGAAGAACACCCATGT+CGG + chr4.1:2717461-2717480 None:intergenic 50.0%
CGCATGTTCCGATCCTCATT+TGG - chr4.1:2716839-2716858 MS.gene049121:CDS 50.0%
GATATCTGAAGGGTCGTCGA+TGG + chr4.1:2716987-2717006 None:intergenic 50.0%
GCAGAGAAAGGGTGATGAAC+AGG + chr4.1:2717056-2717075 None:intergenic 50.0%
GGGTTTGGAAATGGGGTGAA+AGG + chr4.1:2716951-2716970 None:intergenic 50.0%
! CAGGAAGAGATTTTGCGTCG+TGG + chr4.1:2717037-2717056 None:intergenic 50.0%
! GAGATGGGAGGTGCAAATAG+TGG + chr4.1:2716908-2716927 None:intergenic 50.0%
! GGGTAGTACAGTAGTGTTGG+AGG + chr4.1:2716930-2716949 None:intergenic 50.0%
!! AGAGGGGTGTTTGGTGAAAC+AGG + chr4.1:2717130-2717149 None:intergenic 50.0%
!! AGGGGTGTTTGGTGAAACAG+GGG + chr4.1:2717128-2717147 None:intergenic 50.0%
!! GAGGGGTGTTTGGTGAAACA+GGG + chr4.1:2717129-2717148 None:intergenic 50.0%
!! GTGTTGTTGAGAGGGGTGTT+TGG + chr4.1:2717139-2717158 None:intergenic 50.0%
AACTGACCGGAGTTCCGACA+TGG - chr4.1:2717444-2717463 MS.gene049121:CDS 55.0%
ACTGACCGGAGTTCCGACAT+GGG - chr4.1:2717445-2717464 MS.gene049121:CDS 55.0%
CTTCTCGCCGGAAAACTGAC+CGG - chr4.1:2717431-2717450 MS.gene049121:CDS 55.0%
GAACACCCATGTCGGAACTC+CGG + chr4.1:2717453-2717472 None:intergenic 55.0%
GGGTCGTCGATGGTTTGAGA+AGG + chr4.1:2716977-2716996 None:intergenic 55.0%
! CGGAACTCCGGTCAGTTTTC+CGG + chr4.1:2717441-2717460 None:intergenic 55.0%
! GTAGTGTTGGAGGAGATGGG+AGG + chr4.1:2716920-2716939 None:intergenic 55.0%
ATGTCGGCGGCGAGACTTAG+AGG + chr4.1:2717410-2717429 None:intergenic 60.0%
TCCGGCGAGAAGAATGTCGG+CGG + chr4.1:2717423-2717442 None:intergenic 60.0%
GCCGCCGACATTCTTCTCGC+CGG - chr4.1:2717419-2717438 MS.gene049121:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 2716827 2717906 2716827 ID=MS.gene049121
chr4.1 mRNA 2716827 2717906 2716827 ID=MS.gene049121.t1;Parent=MS.gene049121
chr4.1 exon 2717141 2717906 2717141 ID=MS.gene049121.t1.exon1;Parent=MS.gene049121.t1
chr4.1 CDS 2717141 2717906 2717141 ID=cds.MS.gene049121.t1;Parent=MS.gene049121.t1
chr4.1 exon 2716827 2716879 2716827 ID=MS.gene049121.t1.exon2;Parent=MS.gene049121.t1
chr4.1 CDS 2716827 2716879 2716827 ID=cds.MS.gene049121.t1;Parent=MS.gene049121.t1
Gene Sequence

>MS.gene049121

ATGAGAATCTCTCGCATGTTCCGATCCTCATTTGGATCCTGCAAAACCAAACAACACTTAACTGATGTTATGGAAAAACCACTATTTGCACCTCCCATCTCCTCCAACACTACTGTACTACCCTTTCACCCCATTTCCAAACCCAAACCTTCTCAAACCATCGACGACCCTTCAGATATCATATCTTTCAAAGATTCTCATTCTCTTCCACGACGCAAAATCTCTTCCTGTTCATCACCCTTTCTCTGCGGTGCAAATAGTAATAACAACAACCTTAAACTTGATAGAAAACCATGTACCCCTGTTTCACCAAACACCCCTCTCAACAACACTATATTCCACGAACAGAACAACCTTAGTTTCTACGAAAAAACAAACAGTTCAACGAAAAATGTTGCAAAGAAAAACAAAAAGAAGATGAAGAAGAAGAAGACGAAGAAACATACCCAGAAGAAAAACAGAGCTTTTCCTTTCAACTCATGTGCTAAAGACACAAACTTTGATAGTTATTGGTGGTATAGCAGTGACGAAGACGATGAAACAGATACACTTTTCTCTTCAAAGTCTCTCTCATCAGATTCCTCTAAGTCTCGCCGCCGACATTCTTCTCGCCGGAAAACTGACCGGAGTTCCGACATGGGTGTTCTTCCGTTGAACGGAAAAGTCAAAGACACTTTCGCGGTGGTGAAACGTTCAAGTGATCCGTACAATGATTTTAGAACTTCAATGGTGGAAATGATTGTTGAGAAACAAATATTTTCACCAAGTGAGTTGGAGAATCTTTTACAGTGTTTTCTTTCACTCAATTCACATCATCATCACAAGATCATTGTTGAAGTTTACACAGAGATTTGGGAAGCTTTATTCTCTGACTGGCTTTAACAACAAAAAAAAAAAAAAAAAAAAATAGGGAGAAAGAAAATAAGAATAATTATCTTATTATTTGTTTTTTTTCTCTGTTATTTATTATATTAGTTTTGTGTTTTTGTTTCTAAGGATATTATTAGTTTAGTTTTTCTAACTCAAGTTCGAATGTATGATATTCCATTTGCTACTCATCAATTTAGTGCTCAGTTTTAG
Protein sequence

>MS.gene049121.t1

MRISRMFRSSFGSCKTKQHLTDVMEKPLFAPPISSNTTVLPFHPISKPKPSQTIDDPSDIISFKDSHSLPRRKISSCSSPFLCGANSNNNNLKLDRKPCTPVSPNTPLNNTIFHEQNNLSFYEKTNSSTKNVAKKNKKKMKKKKTKKHTQKKNRAFPFNSCAKDTNFDSYWWYSSDEDDETDTLFSSKSLSSDSSKSRRRHSSRRKTDRSSDMGVLPLNGKVKDTFAVVKRSSDPYNDFRTSMVEMIVEKQIFSPIRMYDIPFATHQFSAQF