AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene070907


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene070907.t1 MTR_7g029510 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene070907.t1 MTR_7g099610 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene070907.t1 MTR_5g063620 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene070907.t1 MTR_4g061827 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene070907.t1 MTR_4g061920 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene070907.t1 MTR_3g462400 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene070907.t1 MTR_3g054380 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene070907.t1 MTR_3g462730 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene070907.t1 MTR_3g462510 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene070907.t1 MTR_3g070920 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene070907.t1 MTR_3g061440 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene070907.t1 MTR_3g462410 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene070907.t1 MTR_2g096100 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene070907.t1 MTR_8g038460 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene070907.t1 MTR_4g128150 92.982 114 8 0 1 114 1 114 1.19e-56 181
MS.gene070907.t1 MTR_7g029520 84.000 50 8 0 27 76 1 50 4.44e-21 88.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene070907.t1 AT5G59970 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene070907.t1 AT5G59690 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene070907.t1 AT5G59970 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene070907.t1 AT3G46320 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene070907.t1 AT3G45930 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene070907.t1 AT3G53730 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene070907.t1 AT2G28740 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene070907.t1 AT1G07660 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene070907.t1 AT1G07820 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene070907.t1 AT1G07820 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene070907.t1 AT1G07660 83.495 103 0 1 1 103 1 86 1.03e-51 159

Find 50 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGAGCAACAGCTTTCTTTC+GGG 0.166521 7.4:-48102000 None:intergenic
TTTCGGGGAGCTTTCTGTTC+TGG 0.301815 7.4:-48101984 None:intergenic
CCTGAGCAACAGCTTTCTTT+CGG 0.306894 7.4:-48102001 None:intergenic
GCAAACAACGTCTCCTTTGA+TGG 0.318838 7.4:-48102072 None:intergenic
GGAAGAACCCTCTATGGATT+TGG 0.399537 7.4:+48101374 MS.gene070907:CDS
AGGTGTCTTGAAGATCTTCT+TGG 0.405705 7.4:+48101259 MS.gene070907:CDS
AGGCAAGGAAGAACCCTCTA+TGG 0.410062 7.4:+48101368 MS.gene070907:CDS
TTTGCTAGAACTGATATCAT+AGG 0.425905 7.4:-48102036 None:intergenic
GGAGGTAAGGGACTTGGAAA+AGG 0.451621 7.4:+48101110 MS.gene070907:CDS
CTTGCCAATCGACGAATCGC+AGG 0.455924 7.4:-48101188 None:intergenic
CTTGATAGGTCCACCTTCTC+CGG 0.457640 7.4:+48101956 MS.gene070907:intron
TTCAACCGCCAAATCCATAG+AGG 0.460668 7.4:-48101382 None:intergenic
GGAAAGGGAGGTAAGGGACT+TGG 0.470633 7.4:+48101104 MS.gene070907:CDS
CAAGCCTGCGATTCGTCGAT+TGG 0.481072 7.4:+48101184 MS.gene070907:CDS
AGGTCGTGGAAAGGGAGGTA+AGG 0.492819 7.4:+48101097 MS.gene070907:CDS
CCGAAAGAAAGCTGTTGCTC+AGG 0.494090 7.4:+48102001 MS.gene070907:CDS
TGTTCTGGCACCACCGGAGA+AGG 0.498502 7.4:-48101969 None:intergenic
GCTTTCTGTTCTGGCACCAC+CGG 0.499882 7.4:-48101975 None:intergenic
CAATCGACGAATCGCAGGCT+TGG 0.503635 7.4:-48101183 None:intergenic
GAAGATCTTCAAGACACCTC+TGG 0.510902 7.4:-48101255 None:intergenic
ATGTTGTCTATGCGCTTAAG+AGG 0.513475 7.4:+48101348 MS.gene070907:CDS
AGTTCTCCGTGATAACATCC+AGG 0.528902 7.4:+48101154 MS.gene070907:CDS
GTCGCGAAAATGTCAGGTCG+TGG 0.532522 7.4:+48101083 None:intergenic
AAAATGTCAGGTCGTGGAAA+GGG 0.539338 7.4:+48101089 None:intergenic
GAAAATGTCAGGTCGTGGAA+AGG 0.540836 7.4:+48101088 None:intergenic
AGAACCCTCTATGGATTTGG+CGG 0.541328 7.4:+48101377 MS.gene070907:CDS
GTCTATGCGCTTAAGAGGCA+AGG 0.561213 7.4:+48101353 MS.gene070907:CDS
GAGGAAGACGGTGACAGCCA+TGG 0.561434 7.4:+48101325 MS.gene070907:CDS
GGTCGTGGAAAGGGAGGTAA+GGG 0.564245 7.4:+48101098 MS.gene070907:CDS
TGAGCAACAGCTTTCTTTCG+GGG 0.564448 7.4:-48101999 None:intergenic
AAGGAGGTGCAAAGAGACAT+AGG 0.568952 7.4:+48101129 MS.gene070907:CDS
TCTGGCACCACCGGAGAAGG+TGG 0.575074 7.4:-48101966 None:intergenic
TTTCCATCAAAATCCATCAA+AGG 0.576514 7.4:+48102059 MS.gene070907:CDS
AAAGAAAGCTGTTGCTCAGG+CGG 0.577933 7.4:+48102004 MS.gene070907:CDS
TCGCAGGCTTGGTGATACCC+TGG 0.588643 7.4:-48101172 None:intergenic
CGTCGATTGGCAAGAAGAGG+TGG 0.589209 7.4:+48101197 MS.gene070907:CDS
TTACGTACACTGAGCACGCA+AGG 0.589661 7.4:+48101303 MS.gene070907:CDS
TGATACCCTGGATGTTATCA+CGG 0.616496 7.4:-48101160 None:intergenic
ATTCGTCGATTGGCAAGAAG+AGG 0.623397 7.4:+48101194 MS.gene070907:CDS
TCAACCGCCAAATCCATAGA+GGG 0.625286 7.4:-48101381 None:intergenic
ATGTCAGGTCGTGGAAAGGG+AGG 0.643397 7.4:+48101092 MS.gene070907:CDS
GTTCTCCGTGATAACATCCA+GGG 0.644292 7.4:+48101155 MS.gene070907:CDS
GATAGGTCCACCTTCTCCGG+TGG 0.647423 7.4:+48101959 MS.gene070907:intron
AAGCGCATAGACAACATCCA+TGG 0.648977 7.4:-48101342 None:intergenic
TGAGCACGCAAGGAGGAAGA+CGG 0.652638 7.4:+48101313 MS.gene070907:CDS
GGTGGTGTTAAGAGAATCAG+CGG 0.661394 7.4:+48101215 MS.gene070907:CDS
GGTAAGGGACTTGGAAAAGG+AGG 0.661416 7.4:+48101113 MS.gene070907:CDS
CAGTGTACGTAACAGCATCA+CGG 0.661438 7.4:-48101292 None:intergenic
TTGATCTATGAAGAAACCAG+AGG 0.713224 7.4:+48101239 MS.gene070907:CDS
CGTACACTGAGCACGCAAGG+AGG 0.720932 7.4:+48101306 MS.gene070907:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAATAAACAAAAAGTTTA+TGG + chr7.4:48101739-48101758 MS.gene070907:intron 10.0%
!! CACACAAATAATAAAAATCA+AGG - chr7.4:48101630-48101649 None:intergenic 20.0%
!!! CTTTTAAATTAACGTCAAAA+TGG + chr7.4:48101799-48101818 MS.gene070907:intron 20.0%
! AAATGTAAAATCACCAATGT+TGG + chr7.4:48101496-48101515 MS.gene070907:intron 25.0%
! ACTGAAAAGAACATGTAATT+AGG - chr7.4:48101655-48101674 None:intergenic 25.0%
! CAGTAAGAAATACATCTTTA+TGG + chr7.4:48101671-48101690 MS.gene070907:intron 25.0%
! TAACATTGTTGAAGATAAAC+AGG - chr7.4:48101913-48101932 None:intergenic 25.0%
!! GTTGATTCCTCTAATTATTT+GGG - chr7.4:48101697-48101716 None:intergenic 25.0%
!!! AGATTTTGTTTTGACCTATT+TGG - chr7.4:48101774-48101793 None:intergenic 25.0%
!!! TGATAATGTCTTTTACTTGA+AGG + chr7.4:48101555-48101574 MS.gene070907:intron 25.0%
!!! TGTTGATTCCTCTAATTATT+TGG - chr7.4:48101698-48101717 None:intergenic 25.0%
AACTTATGCCAATCAAATTG+TGG - chr7.4:48101582-48101601 None:intergenic 30.0%
CATATAACCTAAGGTAACTT+CGG + chr7.4:48101462-48101481 MS.gene070907:intron 30.0%
GTCATGAGTATACCATAAAT+TGG + chr7.4:48101830-48101849 MS.gene070907:intron 30.0%
TTGTTGAAGATAAACAGGAA+AGG - chr7.4:48101908-48101927 None:intergenic 30.0%
TTTATGGCCCAAATAATTAG+AGG + chr7.4:48101687-48101706 MS.gene070907:intron 30.0%
TTTCCATCAAAATCCATCAA+AGG + chr7.4:48102059-48102078 MS.gene070907:CDS 30.0%
TTTGCTAGAACTGATATCAT+AGG - chr7.4:48102039-48102058 None:intergenic 30.0%
!! ATTCTCTGAGATTTGCTTAA+AGG + chr7.4:48101867-48101886 MS.gene070907:intron 30.0%
ACCTTAGGTTATATGATCAC+AGG - chr7.4:48101457-48101476 None:intergenic 35.0%
AGCAAATCTCAGAGAATTCT+TGG - chr7.4:48101864-48101883 None:intergenic 35.0%
TATGGTATTCACGTCCAAAT+AGG + chr7.4:48101757-48101776 MS.gene070907:intron 35.0%
TTGAAGGACCACAATTTGAT+TGG + chr7.4:48101571-48101590 MS.gene070907:intron 35.0%
TTGATCTATGAAGAAACCAG+AGG + chr7.4:48101239-48101258 MS.gene070907:CDS 35.0%
TTGGAGCTATGACCAATTTA+TGG - chr7.4:48101845-48101864 None:intergenic 35.0%
!!! TCTCCTTTGATGGATTTTGA+TGG - chr7.4:48102065-48102084 None:intergenic 35.0%
AGGTGTCTTGAAGATCTTCT+TGG + chr7.4:48101259-48101278 MS.gene070907:CDS 40.0%
AGGTTGAAGGGCAATGTTAA+AGG - chr7.4:48101938-48101957 None:intergenic 40.0%
ATAACCTAAGGTAACTTCGG+AGG + chr7.4:48101465-48101484 MS.gene070907:intron 40.0%
ATGTTGTCTATGCGCTTAAG+AGG + chr7.4:48101348-48101367 MS.gene070907:CDS 40.0%
GCCTGTGATCATATAACCTA+AGG + chr7.4:48101453-48101472 MS.gene070907:intron 40.0%
TGATACCCTGGATGTTATCA+CGG - chr7.4:48101163-48101182 None:intergenic 40.0%
AAAGAAAGCTGTTGCTCAGG+CGG + chr7.4:48102004-48102023 MS.gene070907:CDS 45.0%
AAGCGCATAGACAACATCCA+TGG - chr7.4:48101345-48101364 None:intergenic 45.0%
AGAACCCTCTATGGATTTGG+CGG + chr7.4:48101377-48101396 MS.gene070907:CDS 45.0%
AGTTCTCCGTGATAACATCC+AGG + chr7.4:48101154-48101173 MS.gene070907:CDS 45.0%
ATCACCAATGTTGGACGCAT+TGG + chr7.4:48101505-48101524 MS.gene070907:intron 45.0%
CAGTGTACGTAACAGCATCA+CGG - chr7.4:48101295-48101314 None:intergenic 45.0%
CATTGCCCTTCAACCTTGAT+AGG + chr7.4:48101942-48101961 MS.gene070907:intron 45.0%
CCTGAGCAACAGCTTTCTTT+CGG - chr7.4:48102004-48102023 None:intergenic 45.0%
CTGAGCAACAGCTTTCTTTC+GGG - chr7.4:48102003-48102022 None:intergenic 45.0%
GAAGATCTTCAAGACACCTC+TGG - chr7.4:48101258-48101277 None:intergenic 45.0%
GCAAACAACGTCTCCTTTGA+TGG - chr7.4:48102075-48102094 None:intergenic 45.0%
GGAAGAACCCTCTATGGATT+TGG + chr7.4:48101374-48101393 MS.gene070907:CDS 45.0%
GTGGACCTATCAAGGTTGAA+GGG - chr7.4:48101950-48101969 None:intergenic 45.0%
GTTCTCCGTGATAACATCCA+GGG + chr7.4:48101155-48101174 MS.gene070907:CDS 45.0%
TCAACCGCCAAATCCATAGA+GGG - chr7.4:48101384-48101403 None:intergenic 45.0%
TGAGCAACAGCTTTCTTTCG+GGG - chr7.4:48102002-48102021 None:intergenic 45.0%
TTCAACCGCCAAATCCATAG+AGG - chr7.4:48101385-48101404 None:intergenic 45.0%
TTGTCCTCCGAAGTTACCTT+AGG - chr7.4:48101472-48101491 None:intergenic 45.0%
! AAGGAGGTGCAAAGAGACAT+AGG + chr7.4:48101129-48101148 MS.gene070907:CDS 45.0%
! ATTCGTCGATTGGCAAGAAG+AGG + chr7.4:48101194-48101213 MS.gene070907:CDS 45.0%
! GGTGGTGTTAAGAGAATCAG+CGG + chr7.4:48101215-48101234 MS.gene070907:CDS 45.0%
AGGCAAGGAAGAACCCTCTA+TGG + chr7.4:48101368-48101387 MS.gene070907:CDS 50.0%
CCGAAAGAAAGCTGTTGCTC+AGG + chr7.4:48102001-48102020 MS.gene070907:CDS 50.0%
CTTGATAGGTCCACCTTCTC+CGG + chr7.4:48101956-48101975 MS.gene070907:intron 50.0%
CTTGCCAATGCGTCCAACAT+TGG - chr7.4:48101512-48101531 None:intergenic 50.0%
GGAGGTAAGGGACTTGGAAA+AGG + chr7.4:48101110-48101129 MS.gene070907:CDS 50.0%
GGTAAGGGACTTGGAAAAGG+AGG + chr7.4:48101113-48101132 MS.gene070907:CDS 50.0%
GGTGGACCTATCAAGGTTGA+AGG - chr7.4:48101951-48101970 None:intergenic 50.0%
GTCTATGCGCTTAAGAGGCA+AGG + chr7.4:48101353-48101372 MS.gene070907:CDS 50.0%
TTACGTACACTGAGCACGCA+AGG + chr7.4:48101303-48101322 MS.gene070907:CDS 50.0%
TTTCGGGGAGCTTTCTGTTC+TGG - chr7.4:48101987-48102006 None:intergenic 50.0%
AGGTCGTGGAAAGGGAGGTA+AGG + chr7.4:48101097-48101116 MS.gene070907:CDS 55.0%
ATGTCAGGTCGTGGAAAGGG+AGG + chr7.4:48101092-48101111 MS.gene070907:CDS 55.0%
CAAGCCTGCGATTCGTCGAT+TGG + chr7.4:48101184-48101203 MS.gene070907:CDS 55.0%
CAATCGACGAATCGCAGGCT+TGG - chr7.4:48101186-48101205 None:intergenic 55.0%
CGGAGAAGGTGGACCTATCA+AGG - chr7.4:48101958-48101977 None:intergenic 55.0%
CTTGCCAATCGACGAATCGC+AGG - chr7.4:48101191-48101210 None:intergenic 55.0%
GCTTTCTGTTCTGGCACCAC+CGG - chr7.4:48101978-48101997 None:intergenic 55.0%
GGAAAGGGAGGTAAGGGACT+TGG + chr7.4:48101104-48101123 MS.gene070907:CDS 55.0%
GGTCGTGGAAAGGGAGGTAA+GGG + chr7.4:48101098-48101117 MS.gene070907:CDS 55.0%
TGAGCACGCAAGGAGGAAGA+CGG + chr7.4:48101313-48101332 MS.gene070907:CDS 55.0%
! CGTCGATTGGCAAGAAGAGG+TGG + chr7.4:48101197-48101216 MS.gene070907:CDS 55.0%
! GGACGCATTGGCAAGCTCTA+TGG + chr7.4:48101517-48101536 MS.gene070907:intron 55.0%
CGTACACTGAGCACGCAAGG+AGG + chr7.4:48101306-48101325 MS.gene070907:CDS 60.0%
GAGGAAGACGGTGACAGCCA+TGG + chr7.4:48101325-48101344 MS.gene070907:CDS 60.0%
GATAGGTCCACCTTCTCCGG+TGG + chr7.4:48101959-48101978 MS.gene070907:intron 60.0%
TGTTCTGGCACCACCGGAGA+AGG - chr7.4:48101972-48101991 None:intergenic 60.0%
!! TCGCAGGCTTGGTGATACCC+TGG - chr7.4:48101175-48101194 None:intergenic 60.0%
TCTGGCACCACCGGAGAAGG+TGG - chr7.4:48101969-48101988 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 48101092 48102109 48101092 ID=MS.gene070907
chr7.4 mRNA 48101092 48102109 48101092 ID=MS.gene070907.t1;Parent=MS.gene070907
chr7.4 exon 48101092 48101398 48101092 ID=MS.gene070907.t1.exon1;Parent=MS.gene070907.t1
chr7.4 CDS 48101092 48101398 48101092 ID=cds.MS.gene070907.t1;Parent=MS.gene070907.t1
chr7.4 exon 48101964 48102109 48101964 ID=MS.gene070907.t1.exon2;Parent=MS.gene070907.t1
chr7.4 CDS 48101964 48102109 48101964 ID=cds.MS.gene070907.t1;Parent=MS.gene070907.t1
Gene Sequence

>MS.gene070907

ATGTCAGGTCGTGGAAAGGGAGGTAAGGGACTTGGAAAAGGAGGTGCAAAGAGACATAGGAAAGTTCTCCGTGATAACATCCAGGGTATCACCAAGCCTGCGATTCGTCGATTGGCAAGAAGAGGTGGTGTTAAGAGAATCAGCGGTTTGATCTATGAAGAAACCAGAGGTGTCTTGAAGATCTTCTTGGAAAATGTGATCCGTGATGCTGTTACGTACACTGAGCACGCAAGGAGGAAGACGGTGACAGCCATGGATGTTGTCTATGCGCTTAAGAGGCAAGGAAGAACCCTCTATGGATTTGGCGGTTGAAGAAGATCAAACACTCATTCTTCATTTTTATTTTATTTCTTCTTAGAATGCCTGTGATCATATAACCTAAGGTAACTTCGGAGGACAATCGAAAATGTAAAATCACCAATGTTGGACGCATTGGCAAGCTCTATGGTTTTACATGTTCTCTTGATAATGTCTTTTACTTGAAGGACCACAATTTGATTGGCATAAGTTAATTATATAGAAGATAACTGTAACACCTTGATTTTTATTATTTGTGTGTACCTAATTACATGTTCTTTTCAGTAAGAAATACATCTTTATGGCCCAAATAATTAGAGGAATCAACAAAGATGCAAAACATAAGAGTCAAAAATAAACAAAAAGTTTATGGTATTCACGTCCAAATAGGTCAAAACAAAATCTACAAACTTTTAAATTAACGTCAAAATGGTATTCTGTGTCATGAGTATACCATAAATTGGTCATAGCTCCAAGAATTCTCTGAGATTTGCTTAAAGGTTTCTCATGATTCATCCTTTCCTGTTTATCTTCAACAATGTTAATCCTTTAACATTGCCCTTCAACCTTGATAGGTCCACCTTCTCCGGTGGTGCCAGAACAGAAAGCTCCCCGAAAGAAAGCTGTTGCTCAGGCGGTGTCAAATTCCTATGATATCAGTTCTAGCAAATTTCCATCAAAATCCATCAAAGGAGACGTTGTTTGCATCAAAATCTGTTAG

Protein sequence

>MS.gene070907.t1

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGGPPSPVVPEQKAPRKKAVAQAVSNSYDISSSKFPSKSIKGDVVCIKIC