AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051962

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051962.t1 MTR_2g099630 93.519 108 6 1 1 107 1 108 1.30e-69 203
MS.gene051962.t1 MTR_8g018320 65.049 103 33 2 1 101 1 102 2.06e-40 129
MS.gene051962.t1 MTR_8g018360 65.049 103 33 2 1 101 1 102 3.77e-39 129
MS.gene051962.t1 MTR_4g125990 49.180 122 44 4 2 106 3 123 1.10e-30 105
MS.gene051962.t1 MTR_3g104640 46.667 105 54 2 4 106 6 110 9.23e-22 82.8
MS.gene051962.t1 MTR_1g015810 60.417 48 19 0 60 107 72 119 1.10e-15 67.4
MS.gene051962.t1 MTR_7g109290 54.902 51 22 1 56 106 42 91 3.38e-12 57.8
MS.gene051962.t1 MTR_1g087730 47.368 57 28 2 51 106 51 106 2.78e-11 55.8
MS.gene051962.t1 MTR_1g098310 50.000 48 24 0 58 105 38 85 4.07e-11 55.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051962.t1 AT5G11970 56.098 82 33 2 26 107 27 105 4.56e-24 88.6
MS.gene051962.t1 AT1G72720 34.921 126 61 4 3 107 2 127 4.44e-16 68.9
MS.gene051962.t1 AT2G19460 47.297 74 38 1 24 97 37 109 2.13e-15 66.6
MS.gene051962.t1 AT2G19460 47.297 74 38 1 24 97 89 161 6.22e-15 66.6
MS.gene051962.t1 AT3G13910 53.333 60 20 3 45 97 39 97 3.79e-13 60.5
MS.gene051962.t1 AT3G13910 53.333 60 20 3 45 97 39 97 5.52e-13 60.5
MS.gene051962.t1 AT3G05725 56.818 44 19 0 62 105 80 123 1.60e-11 57.0

Find 27 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTCTTCCTCTGCAATTC+AGG 0.144268 2.2:+3365391 None:intergenic
TCAGTTCTTGCATGCTAGTT+GGG 0.283001 2.2:+3365521 None:intergenic
CTCAGTTCTTGCATGCTAGT+TGG 0.365308 2.2:+3365520 None:intergenic
ATGAAGCTCCAACTCTTTGA+TGG 0.366122 2.2:+3365421 None:intergenic
TCTTTATTACATGCCAGGTT+TGG 0.397283 2.2:+3365469 None:intergenic
CAGAGGAAGAAGAGAATTGC+TGG 0.419243 2.2:-3365382 MS.gene051962:CDS
GATGAAAAGCTACAAATTGA+AGG 0.461024 2.2:-3365553 MS.gene051962:CDS
ACTTACACTCAAGCTATGTA+TGG 0.473577 2.2:-3365289 MS.gene051962:CDS
TCACCTCTTTATTACATGCC+AGG 0.477597 2.2:+3365464 None:intergenic
AAAGAGGTGAAAATGAAGAA+AGG 0.496185 2.2:-3365451 MS.gene051962:CDS
GGTCTCTAAGAAAGAGTCTC+AGG 0.496771 2.2:-3365324 MS.gene051962:CDS
AAGAGGTGAAAATGAAGAAA+GGG 0.497586 2.2:-3365450 MS.gene051962:CDS
AAAGCTACAAATTGAAGGTA+AGG 0.497739 2.2:-3365548 MS.gene051962:CDS
TGAAGCTCCAACTCTTTGAT+GGG 0.510832 2.2:+3365422 None:intergenic
CAGTTCTTGCATGCTAGTTG+GGG 0.522810 2.2:+3365522 None:intergenic
GGAAAATCCCATCAAAGAGT+TGG 0.532658 2.2:-3365429 MS.gene051962:CDS
GTGCTGAAGGGAAAATGAAA+GGG 0.551730 2.2:-3365345 MS.gene051962:CDS
AAACCTGGCATGTAATAAAG+AGG 0.555221 2.2:-3365467 MS.gene051962:CDS
TACAAAATGTATGGTGCTGA+AGG 0.562238 2.2:-3365358 MS.gene051962:CDS
ATTGCTGGCTACAAAATGTA+TGG 0.571795 2.2:-3365367 MS.gene051962:CDS
ACACTCAAGCTATGTATGGA+TGG 0.580620 2.2:-3365285 MS.gene051962:CDS
GGTGCTGAAGGGAAAATGAA+AGG 0.580805 2.2:-3365346 MS.gene051962:CDS
TTATGTTTATAATCCAAACC+TGG 0.587054 2.2:-3365482 MS.gene051962:CDS
ACAAAATGTATGGTGCTGAA+GGG 0.616006 2.2:-3365357 MS.gene051962:CDS
CTCTAAGAAAGAGTCTCAGG+TGG 0.623042 2.2:-3365321 MS.gene051962:CDS
TGAATGATCCTGAATTGCAG+AGG 0.659598 2.2:-3365399 MS.gene051962:CDS
CTCAAGCTATGTATGGATGG+TGG 0.724201 2.2:-3365282 MS.gene051962:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTATGTTTATAATCCAAACC+TGG - chr2.2:3365377-3365396 MS.gene051962:CDS 25.0%
AAAGAGGTGAAAATGAAGAA+AGG - chr2.2:3365408-3365427 MS.gene051962:CDS 30.0%
AAAGCTACAAATTGAAGGTA+AGG - chr2.2:3365311-3365330 MS.gene051962:CDS 30.0%
AAGAGGTGAAAATGAAGAAA+GGG - chr2.2:3365409-3365428 MS.gene051962:CDS 30.0%
GATGAAAAGCTACAAATTGA+AGG - chr2.2:3365306-3365325 MS.gene051962:CDS 30.0%
AAACCTGGCATGTAATAAAG+AGG - chr2.2:3365392-3365411 MS.gene051962:CDS 35.0%
ACTTACACTCAAGCTATGTA+TGG - chr2.2:3365570-3365589 MS.gene051962:CDS 35.0%
TCTTTATTACATGCCAGGTT+TGG + chr2.2:3365393-3365412 None:intergenic 35.0%
! ACAAAATGTATGGTGCTGAA+GGG - chr2.2:3365502-3365521 MS.gene051962:CDS 35.0%
! ATTGCTGGCTACAAAATGTA+TGG - chr2.2:3365492-3365511 MS.gene051962:CDS 35.0%
! TACAAAATGTATGGTGCTGA+AGG - chr2.2:3365501-3365520 MS.gene051962:CDS 35.0%
ACACTCAAGCTATGTATGGA+TGG - chr2.2:3365574-3365593 MS.gene051962:CDS 40.0%
ATGAAGCTCCAACTCTTTGA+TGG + chr2.2:3365441-3365460 None:intergenic 40.0%
GGAAAATCCCATCAAAGAGT+TGG - chr2.2:3365430-3365449 MS.gene051962:CDS 40.0%
GTGCTGAAGGGAAAATGAAA+GGG - chr2.2:3365514-3365533 MS.gene051962:CDS 40.0%
TCACCTCTTTATTACATGCC+AGG + chr2.2:3365398-3365417 None:intergenic 40.0%
TCAGTTCTTGCATGCTAGTT+GGG + chr2.2:3365341-3365360 None:intergenic 40.0%
TGAAGCTCCAACTCTTTGAT+GGG + chr2.2:3365440-3365459 None:intergenic 40.0%
TGAATGATCCTGAATTGCAG+AGG - chr2.2:3365460-3365479 MS.gene051962:CDS 40.0%
CAGAGGAAGAAGAGAATTGC+TGG - chr2.2:3365477-3365496 MS.gene051962:CDS 45.0%
CAGTTCTTGCATGCTAGTTG+GGG + chr2.2:3365340-3365359 None:intergenic 45.0%
CTCAAGCTATGTATGGATGG+TGG - chr2.2:3365577-3365596 MS.gene051962:CDS 45.0%
CTCAGTTCTTGCATGCTAGT+TGG + chr2.2:3365342-3365361 None:intergenic 45.0%
CTCTTCTTCCTCTGCAATTC+AGG + chr2.2:3365471-3365490 None:intergenic 45.0%
! CTCTAAGAAAGAGTCTCAGG+TGG - chr2.2:3365538-3365557 MS.gene051962:CDS 45.0%
! GGTCTCTAAGAAAGAGTCTC+AGG - chr2.2:3365535-3365554 MS.gene051962:CDS 45.0%
! GGTGCTGAAGGGAAAATGAA+AGG - chr2.2:3365513-3365532 MS.gene051962:CDS 45.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 3365279 3365602 3365279 ID=MS.gene051962
chr2.2 mRNA 3365279 3365602 3365279 ID=MS.gene051962.t1;Parent=MS.gene051962
chr2.2 exon 3365279 3365602 3365279 ID=MS.gene051962.t1.exon1;Parent=MS.gene051962.t1
chr2.2 CDS 3365279 3365602 3365279 ID=cds.MS.gene051962.t1;Parent=MS.gene051962.t1
Gene Sequence

>MS.gene051962

ATGGAATTCAGATCAAAGTCATGCAGAGATGAAAAGCTACAAATTGAAGGTAAGGTGACCCCAACTAGCATGCAAGAACTGAGATGTTACAGTGCTAATTATGTTTATAATCCAAACCTGGCATGTAATAAAGAGGTGAAAATGAAGAAAGGGAAAATCCCATCAAAGAGTTGGAGCTTCATGAATGATCCTGAATTGCAGAGGAAGAAGAGAATTGCTGGCTACAAAATGTATGGTGCTGAAGGGAAAATGAAAGGGTCTCTAAGAAAGAGTCTCAGGTGGATCAAAAATACTTACACTCAAGCTATGTATGGATGGTGGTGA
Protein sequence

>MS.gene051962.t1

MEFRSKSCRDEKLQIEGKVTPTSMQELRCYSANYVYNPNLACNKEVKMKKGKIPSKSWSFMNDPELQRKKRIAGYKMYGAEGKMKGSLRKSLRWIKNTYTQAMYGWW