AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene73444

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73444.t1 MTR_5g036670 49.412 85 35 2 5 82 31 114 6.30e-18 78.2
MS.gene73444.t1 MTR_6g008970 49.351 77 38 1 9 85 62 137 5.33e-17 75.5
MS.gene73444.t1 MTR_8g062700 51.351 74 35 1 9 82 41 113 5.49e-16 72.8
MS.gene73444.t1 MTR_8g062700 51.351 74 35 1 9 82 41 113 5.49e-16 72.8
MS.gene73444.t1 MTR_1g105960 50.000 66 33 0 14 79 4 69 2.07e-15 67.0
MS.gene73444.t1 MTR_8g062350 36.449 107 59 2 8 106 12 117 2.46e-15 68.9
MS.gene73444.t1 MTR_4g133300 53.731 67 31 0 14 80 175 241 2.11e-14 67.0
MS.gene73444.t1 MTR_4g133470 53.731 67 31 0 14 80 175 241 2.75e-14 66.6
MS.gene73444.t1 MTR_1g105955 47.887 71 36 1 9 79 94 163 3.61e-14 65.5
MS.gene73444.t1 MTR_1g105955 46.154 65 35 0 10 74 15 79 2.99e-12 60.5
MS.gene73444.t1 MTR_1g109550 40.964 83 42 2 2 78 1 82 1.29e-13 63.2
MS.gene73444.t1 MTR_3g006065 43.750 96 42 3 2 86 72 166 1.08e-12 61.6
MS.gene73444.t1 MTR_1g093310 45.570 79 36 2 2 80 1 72 1.65e-12 58.5
MS.gene73444.t1 MTR_1g104940 46.269 67 36 0 14 80 17 83 2.88e-12 58.9
MS.gene73444.t1 MTR_6g008995 40.217 92 53 2 10 100 37 127 3.16e-12 62.0
MS.gene73444.t1 MTR_1g105010 45.455 66 36 0 14 79 19 84 4.11e-12 58.5
MS.gene73444.t1 MTR_3g006150 52.778 72 32 2 10 80 90 160 5.90e-12 59.3
MS.gene73444.t1 MTR_3g006185 45.946 74 39 1 14 86 101 174 1.06e-11 58.9
MS.gene73444.t1 MTR_1g091047 50.000 66 31 2 9 73 8 72 5.12e-11 54.7
MS.gene73444.t1 MTR_1g100260 47.945 73 34 2 15 83 28 100 5.63e-11 55.8
MS.gene73444.t1 MTR_1g104960 48.438 64 33 0 17 80 19 82 8.10e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73444.t1 AT1G24190 53.425 73 33 1 9 81 13 84 4.87e-18 78.6
MS.gene73444.t1 AT1G24190 53.425 73 33 1 9 81 13 84 4.97e-18 78.6
MS.gene73444.t1 AT1G24190 53.425 73 33 1 9 81 13 84 5.69e-18 78.6
MS.gene73444.t1 AT1G70060 51.948 77 36 1 9 85 13 88 1.36e-16 74.7
MS.gene73444.t1 AT1G70060 51.948 77 36 1 9 85 13 88 1.36e-16 74.7
MS.gene73444.t1 AT5G15020 50.685 73 35 1 9 81 51 122 4.29e-16 73.2
MS.gene73444.t1 AT5G15020 50.685 73 35 1 9 81 51 122 4.33e-16 73.2
MS.gene73444.t1 AT3G01320 50.000 72 35 1 9 80 56 126 9.61e-16 72.0
MS.gene73444.t1 AT3G01320 50.000 72 35 1 9 80 56 126 9.90e-16 72.0
MS.gene73444.t1 AT1G59890 48.611 72 36 1 10 81 45 115 2.69e-14 68.2
MS.gene73444.t1 AT1G59890 48.611 72 36 1 10 81 45 115 2.72e-14 67.8
MS.gene73444.t1 AT1G59890 48.611 72 36 1 10 81 45 115 2.75e-14 67.8
MS.gene73444.t1 AT1G59890 48.611 72 36 1 10 81 45 115 3.03e-14 67.8
MS.gene73444.t1 AT1G10450 46.154 78 40 2 3 80 78 153 5.69e-13 64.3
MS.gene73444.t1 AT1G10450 47.887 71 36 1 10 80 33 102 7.17e-13 63.9
MS.gene73444.t1 AT1G10450 47.887 71 36 1 10 80 33 102 7.17e-13 63.9
MS.gene73444.t1 AT5G15025 47.297 74 38 1 9 82 46 118 1.09e-12 60.1
MS.gene73444.t1 AT4G12020 46.479 71 36 2 10 80 308 376 2.40e-12 62.4
MS.gene73444.t1 AT4G12020 46.479 71 36 2 10 80 308 376 2.44e-12 62.4
MS.gene73444.t1 AT4G12020 46.479 71 36 2 10 80 308 376 2.44e-12 62.4
MS.gene73444.t1 AT4G12020 46.479 71 36 2 10 80 308 376 2.44e-12 62.4
MS.gene73444.t1 AT4G12020 46.479 71 36 2 10 80 308 376 2.44e-12 62.4
MS.gene73444.t1 AT4G12020 46.479 71 36 2 10 80 308 376 2.44e-12 62.4
MS.gene73444.t1 AT4G12020 46.479 71 36 2 10 80 241 309 2.44e-12 62.4
MS.gene73444.t1 AT4G12020 46.479 71 36 2 10 80 308 376 2.44e-12 62.4
MS.gene73444.t1 AT4G12020 46.479 71 36 2 10 80 308 376 2.44e-12 62.4
MS.gene73444.t1 AT4G12020 46.479 71 36 2 10 80 308 376 2.44e-12 62.4
MS.gene73444.t1 AT4G12020 46.479 71 36 2 10 80 308 376 2.44e-12 62.4
MS.gene73444.t1 AT1G70030 43.662 71 39 1 10 80 22 91 3.36e-12 58.9
MS.gene73444.t1 AT1G70030 43.662 71 39 1 10 80 22 91 7.41e-12 58.5
MS.gene73444.t1 AT1G70030 43.662 71 39 1 10 80 11 80 1.37e-11 58.2

Find 23 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGGCATAATCACTTAATTT+TGG 0.093727 1.4:+83560532 MS.gene73444:CDS
CCAATGCATCGTCGCGGTTT+TGG 0.138304 1.4:-83560370 None:intergenic
ACAAAACAAAATAGAGTTCT+AGG 0.261869 1.4:-83560756 None:intergenic
AGAGTCAAGCAGCTGCTTAA+AGG 0.323406 1.4:+83560512 MS.gene73444:CDS
AGTGTAATTTGATGTTCCTT+TGG 0.407139 1.4:-83560572 None:intergenic
GAGTCAAGCAGCTGCTTAAA+GGG 0.418662 1.4:+83560513 MS.gene73444:CDS
TAATTTGATGTTCCTTTGGC+AGG 0.455833 1.4:-83560568 None:intergenic
TGCATTGGCAGCGTTTCATA+AGG 0.456199 1.4:+83560385 MS.gene73444:CDS
AAGTCAAGACGACGCTGGCT+AGG 0.467101 1.4:-83560717 None:intergenic
AAGCTGCGTTTCAAGATAAG+AGG 0.471098 1.4:+83560414 MS.gene73444:CDS
CCAAAACCGCGACGATGCAT+TGG 0.481999 1.4:+83560370 MS.gene73444:CDS
TTGATGTTCCTTTGGCAGGA+AGG 0.538933 1.4:-83560564 None:intergenic
AAAACTCCTAAAAGATGTCA+AGG 0.541090 1.4:+83560457 MS.gene73444:CDS
CAAAACAAAATAGAGTTCTA+GGG 0.542407 1.4:-83560755 None:intergenic
CAAATTACACTTGAGAGCAC+TGG 0.542959 1.4:+83560584 MS.gene73444:CDS
AGTCAAGACGACGCTGGCTA+GGG 0.543882 1.4:-83560716 None:intergenic
AGCTGCGTTTCAAGATAAGA+GGG 0.579749 1.4:+83560415 MS.gene73444:CDS
ATTCAGCACCTTCCTGCCAA+AGG 0.597286 1.4:+83560556 MS.gene73444:CDS
CAGCTGCTTGACTCTTGCCG+CGG 0.614341 1.4:-83560504 None:intergenic
AACAAAAGTCAAGACGACGC+TGG 0.661348 1.4:-83560722 None:intergenic
AATTTACACAAGAGATGCCG+CGG 0.661466 1.4:+83560487 MS.gene73444:CDS
GCTGCGTTTCAAGATAAGAG+GGG 0.729457 1.4:+83560416 MS.gene73444:CDS
ACGCTGCCAATGCATCGTCG+CGG 0.755650 1.4:-83560376 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTGCTATATATATAATTCTA+TGG + chr1.4:83560667-83560686 MS.gene73444:intron 15.0%
! ACAAAACAAAATAGAGTTCT+AGG - chr1.4:83560759-83560778 None:intergenic 25.0%
! CAAAACAAAATAGAGTTCTA+GGG - chr1.4:83560758-83560777 None:intergenic 25.0%
!!! TATTTTGTTTTGTCTGAGTT+GGG + chr1.4:83560766-83560785 MS.gene73444:CDS 25.0%
AAAACTCCTAAAAGATGTCA+AGG + chr1.4:83560457-83560476 MS.gene73444:CDS 30.0%
AGTGTAATTTGATGTTCCTT+TGG - chr1.4:83560575-83560594 None:intergenic 30.0%
! AGGGCATAATCACTTAATTT+TGG + chr1.4:83560532-83560551 MS.gene73444:CDS 30.0%
! GGGCATAATCACTTAATTTT+GGG + chr1.4:83560533-83560552 MS.gene73444:CDS 30.0%
! TTTGATCCTTGACATCTTTT+AGG - chr1.4:83560466-83560485 None:intergenic 30.0%
!!! CTATTTTGTTTTGTCTGAGT+TGG + chr1.4:83560765-83560784 MS.gene73444:CDS 30.0%
TAATTTGATGTTCCTTTGGC+AGG - chr1.4:83560571-83560590 None:intergenic 35.0%
AAGCTGCGTTTCAAGATAAG+AGG + chr1.4:83560414-83560433 MS.gene73444:CDS 40.0%
AATTTACACAAGAGATGCCG+CGG + chr1.4:83560487-83560506 MS.gene73444:CDS 40.0%
AGCTGCGTTTCAAGATAAGA+GGG + chr1.4:83560415-83560434 MS.gene73444:CDS 40.0%
! CAAATTACACTTGAGAGCAC+TGG + chr1.4:83560584-83560603 MS.gene73444:CDS 40.0%
AACAAAAGTCAAGACGACGC+TGG - chr1.4:83560725-83560744 None:intergenic 45.0%
AGAGTCAAGCAGCTGCTTAA+AGG + chr1.4:83560512-83560531 MS.gene73444:CDS 45.0%
GAGTCAAGCAGCTGCTTAAA+GGG + chr1.4:83560513-83560532 MS.gene73444:CDS 45.0%
GCTGCGTTTCAAGATAAGAG+GGG + chr1.4:83560416-83560435 MS.gene73444:CDS 45.0%
TTGATGTTCCTTTGGCAGGA+AGG - chr1.4:83560567-83560586 None:intergenic 45.0%
! AGCGTCGTCTTGACTTTTGT+TGG + chr1.4:83560724-83560743 MS.gene73444:CDS 45.0%
! TGCATTGGCAGCGTTTCATA+AGG + chr1.4:83560385-83560404 MS.gene73444:CDS 45.0%
ATTCAGCACCTTCCTGCCAA+AGG + chr1.4:83560556-83560575 MS.gene73444:CDS 50.0%
! AATGCATCGTCGCGGTTTTG+GGG - chr1.4:83560371-83560390 None:intergenic 50.0%
! CAATGCATCGTCGCGGTTTT+GGG - chr1.4:83560372-83560391 None:intergenic 50.0%
CCAAAACCGCGACGATGCAT+TGG + chr1.4:83560370-83560389 MS.gene73444:CDS 55.0%
! AAGTCAAGACGACGCTGGCT+AGG - chr1.4:83560720-83560739 None:intergenic 55.0%
! AGTCAAGACGACGCTGGCTA+GGG - chr1.4:83560719-83560738 None:intergenic 55.0%
! CCAATGCATCGTCGCGGTTT+TGG - chr1.4:83560373-83560392 None:intergenic 55.0%
!! ATGCATCGTCGCGGTTTTGG+GGG - chr1.4:83560370-83560389 None:intergenic 55.0%
ACGCTGCCAATGCATCGTCG+CGG - chr1.4:83560379-83560398 None:intergenic 60.0%
CAGCTGCTTGACTCTTGCCG+CGG - chr1.4:83560507-83560526 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 83560356 83560795 83560356 ID=MS.gene73444
chr1.4 mRNA 83560356 83560795 83560356 ID=MS.gene73444.t1;Parent=MS.gene73444
chr1.4 exon 83560356 83560605 83560356 ID=MS.gene73444.t1.exon1;Parent=MS.gene73444.t1
chr1.4 CDS 83560356 83560605 83560356 ID=cds.MS.gene73444.t1;Parent=MS.gene73444.t1
chr1.4 exon 83560698 83560795 83560698 ID=MS.gene73444.t1.exon2;Parent=MS.gene73444.t1
chr1.4 CDS 83560698 83560795 83560698 ID=cds.MS.gene73444.t1;Parent=MS.gene73444.t1
Gene Sequence

>MS.gene73444

ATGATGAAGATCCCCCAAAACCGCGACGATGCATTGGCAGCGTTTCATAAGGCTGTACAAGCTGCGTTTCAAGATAAGAGGGGAGATTACAATGAGCTTTTAAAACTCCTAAAAGATGTCAAGGATCAAACAATTTACACAAGAGATGCCGCGGCAAGAGTCAAGCAGCTGCTTAAAGGGCATAATCACTTAATTTTGGGATTCAGCACCTTCCTGCCAAAGGAACATCAAATTACACTTGAGAGCACTGGTTAGTAATTTATCATTATCGATTATATCTTGATACTTTTCTGCAGTTATTATGACTTTTTTTGCTATATATATAATTCTATGGTGATGTAGTTGATGTCTGTGTTAAAACCCTAGCCAGCGTCGTCTTGACTTTTGTTGGTGTTAAAACCCTAGAACTCTATTTTGTTTTGTCTGAGTTGGGCTATTGA
Protein sequence

>MS.gene73444.t1

MMKIPQNRDDALAAFHKAVQAAFQDKRGDYNELLKLLKDVKDQTIYTRDAAARVKQLLKGHNHLILGFSTFLPKEHQITLESTVDVCVKTLASVVLTFVGVKTLELYFVLSELGY