AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1363450


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1363450 MtrunA17_Chr1g0213571 86.719 128 3 5 1 126 1 116 6.78e-70 205
Msa1363450 MtrunA17_Chr1g0190591 43.519 108 36 2 40 122 75 182 1.26e-22 87.8
Msa1363450 MtrunA17_Chr7g0274251 40.385 104 34 2 47 122 79 182 6.32e-20 80.5
Msa1363450 MtrunA17_Chr5g0402271 39.655 116 35 5 41 123 57 170 3.63e-15 67.8
Msa1363450 MtrunA17_Chr7g0270921 50.704 71 31 2 49 119 214 280 9.58e-15 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1363450 AT2G31560.2 61.594 138 30 1 12 126 65 202 3.02e-53 166
Msa1363450 AT2G31560.1 61.594 138 30 1 12 126 65 202 3.02e-53 166
Msa1363450 AT2G31560.3 61.594 138 30 1 12 126 65 202 3.02e-53 166
Msa1363450 AT1G05870.4 60.403 149 26 4 10 126 42 189 2.06e-52 164
Msa1363450 AT1G05870.12 60.403 149 26 4 10 126 42 189 2.06e-52 164
Msa1363450 AT1G05870.8 60.403 149 26 4 10 126 42 189 2.06e-52 164
Msa1363450 AT1G05870.1 60.403 149 26 4 10 126 42 189 2.06e-52 164
Msa1363450 AT1G05870.7 60.403 149 26 4 10 126 42 189 2.06e-52 164
Msa1363450 AT1G05870.2 60.403 149 26 4 10 126 42 189 2.06e-52 164
Msa1363450 AT1G05870.10 60.403 149 26 4 10 126 42 189 2.06e-52 164
Msa1363450 AT1G05870.5 60.403 149 26 4 10 126 42 189 2.06e-52 164
Msa1363450 AT1G05870.9 60.403 149 26 4 10 126 42 189 2.06e-52 164
Msa1363450 AT1G05870.3 60.403 149 26 4 10 126 42 189 2.06e-52 164
Msa1363450 AT1G05870.6 60.403 149 26 4 10 126 42 189 2.06e-52 164
Msa1363450 AT1G05870.11 60.403 149 26 4 10 126 42 189 2.06e-52 164
Msa1363450 AT2G43340.1 57.718 149 35 3 3 126 44 189 2.69e-47 150
Msa1363450 AT3G22690.1 61.728 81 23 1 45 117 843 923 1.86e-24 97.4
Msa1363450 AT3G04700.1 39.316 117 37 2 37 122 74 187 3.64e-19 79.0
Msa1363450 AT5G28690.1 37.903 124 44 3 29 122 68 188 8.52e-19 78.2
Msa1363450 AT5G28690.3 37.903 124 44 3 29 122 68 188 8.52e-19 78.2
Msa1363450 AT5G28690.2 37.903 124 44 3 29 122 68 188 8.52e-19 78.2
Msa1363450 AT1G08790.1 40.741 108 34 3 45 122 78 185 1.10e-18 77.8
Msa1363450 AT3G50350.2 42.056 107 43 2 35 122 59 165 1.71e-18 77.0
Msa1363450 AT3G04710.3 38.462 117 38 2 37 122 74 187 2.60e-18 80.1
Msa1363450 AT4G33985.1 45.370 108 39 2 39 126 43 150 3.17e-18 75.9
Msa1363450 AT2G15590.2 38.318 107 47 3 39 126 40 146 7.75e-13 61.6
Msa1363450 AT3G50350.1 51.613 62 28 1 35 94 63 124 1.61e-12 61.6
Msa1363450 AT3G62070.1 46.667 75 30 3 50 119 150 219 3.07e-12 61.6
Msa1363450 AT2G46940.1 47.143 70 29 3 50 119 185 246 1.28e-11 60.1
Msa1363450 AT4G01670.1 49.296 71 30 2 49 119 172 236 8.55e-11 57.8

Find 32 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGATGTTTGGATCTTGGTTT+TGG 0.184629 tig0018043:+6589 Msa1363450:CDS
TTAAAGCAAGATTGAAATAT+TGG 0.250359 tig0018043:+6746 Msa1363450:CDS
AATCTTGCTTTAACATCTTC+AGG 0.331635 tig0018043:-6736 None:intergenic
TTCCAATTGGCAAATGAATC+AGG 0.369053 tig0018043:-6691 None:intergenic
CTCCTGATTCATTTGCCAAT+TGG 0.369305 tig0018043:+6689 Msa1363450:CDS
TGATGAGTTGAAGGGATGTT+TGG 0.374718 tig0018043:+6576 Msa1363450:CDS
TAAAGCAAGATTGAAATATT+GGG 0.375422 tig0018043:+6747 Msa1363450:CDS
TTGAAGGGATGTTTGGATCT+TGG 0.389102 tig0018043:+6583 Msa1363450:CDS
TAGTTAGCTGCAGAGTTTAA+CGG 0.390779 tig0018043:-6788 None:intergenic
GGGAGGGTGTTACATAGTTC+AGG 0.412792 tig0018043:-6631 None:intergenic
ATGGAAGGTGGAGGTGTTGT+TGG 0.413737 tig0018043:+6427 Msa1363450:CDS
CATCAAGATCCTCATCTGTT+AGG 0.424926 tig0018043:-6558 None:intergenic
TGGACTTGAGATCTTCCAAT+TGG 0.470698 tig0018043:-6704 None:intergenic
GGAGGTGTTGTTGGAAGAAG+TGG 0.473169 tig0018043:+6436 Msa1363450:CDS
TGAGGATCTTGATGAGTTGA+AGG 0.481670 tig0018043:+6567 Msa1363450:CDS
TAACAAAGGAGTAGTGTTGT+TGG 0.483852 tig0018043:+6489 Msa1363450:CDS
GAATAACACAACTCTAGAGC+TGG 0.494397 tig0018043:-6652 None:intergenic
ATAATGAGGAGGATCTTTGT+AGG 0.495986 tig0018043:+6527 Msa1363450:CDS
AAGGAGTAGTGTTGTTGGAA+GGG 0.511274 tig0018043:+6494 Msa1363450:CDS
AAAGGAGTAGTGTTGTTGGA+AGG 0.535317 tig0018043:+6493 Msa1363450:CDS
ACATCTTCAGGATGATCACC+TGG 0.572260 tig0018043:-6724 None:intergenic
AGGGTATGTTGATGATAATG+AGG 0.584846 tig0018043:+6513 Msa1363450:CDS
AATAACACAACTCTAGAGCT+GGG 0.590951 tig0018043:-6651 None:intergenic
AATTGGAAGATCTCAAGTCC+AGG 0.596552 tig0018043:+6706 Msa1363450:CDS
GTTGTTGGAAGAAGTGGAAG+TGG 0.596897 tig0018043:+6442 Msa1363450:CDS
ACACAACTCTAGAGCTGGGA+GGG 0.600482 tig0018043:-6647 None:intergenic
GACGAAAAGCCTAACAGATG+AGG 0.616832 tig0018043:+6549 Msa1363450:CDS
TTGTTGGAAGAAGTGGAAGT+GGG 0.619030 tig0018043:+6443 Msa1363450:CDS
AGTAAGAATAACAATAACAA+AGG 0.625105 tig0018043:+6475 Msa1363450:CDS
GAGGATCTTGATGAGTTGAA+GGG 0.630888 tig0018043:+6568 Msa1363450:CDS
GTATGTTGATGATAATGAGG+AGG 0.675262 tig0018043:+6516 Msa1363450:CDS
AACACAACTCTAGAGCTGGG+AGG 0.715725 tig0018043:-6648 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGTAAGAATAACAATAACAA+AGG + tig0018043:6475-6494 Msa1363450:CDS 20.0%
!! TTAAAGCAAGATTGAAATAT+TGG + tig0018043:6746-6765 Msa1363450:CDS 20.0%
!! TAAAGCAAGATTGAAATATT+GGG + tig0018043:6747-6766 Msa1363450:CDS 20.0%
AATCTTGCTTTAACATCTTC+AGG - tig0018043:6739-6758 None:intergenic 30.0%
TAACAAAGGAGTAGTGTTGT+TGG + tig0018043:6489-6508 Msa1363450:CDS 35.0%
!! AGGGTATGTTGATGATAATG+AGG + tig0018043:6513-6532 Msa1363450:CDS 35.0%
!! GTATGTTGATGATAATGAGG+AGG + tig0018043:6516-6535 Msa1363450:CDS 35.0%
ATAATGAGGAGGATCTTTGT+AGG + tig0018043:6527-6546 Msa1363450:CDS 35.0%
!! GATGTTTGGATCTTGGTTTT+GGG + tig0018043:6590-6609 Msa1363450:CDS 35.0%
!! AATAACACAACTCTAGAGCT+GGG - tig0018043:6654-6673 None:intergenic 35.0%
TTCCAATTGGCAAATGAATC+AGG - tig0018043:6694-6713 None:intergenic 35.0%
TTGTTGGAAGAAGTGGAAGT+GGG + tig0018043:6443-6462 Msa1363450:CDS 40.0%
! AAAGGAGTAGTGTTGTTGGA+AGG + tig0018043:6493-6512 Msa1363450:CDS 40.0%
! AAGGAGTAGTGTTGTTGGAA+GGG + tig0018043:6494-6513 Msa1363450:CDS 40.0%
CATCAAGATCCTCATCTGTT+AGG - tig0018043:6561-6580 None:intergenic 40.0%
! TGAGGATCTTGATGAGTTGA+AGG + tig0018043:6567-6586 Msa1363450:CDS 40.0%
! GAGGATCTTGATGAGTTGAA+GGG + tig0018043:6568-6587 Msa1363450:CDS 40.0%
! TGATGAGTTGAAGGGATGTT+TGG + tig0018043:6576-6595 Msa1363450:CDS 40.0%
TTGAAGGGATGTTTGGATCT+TGG + tig0018043:6583-6602 Msa1363450:CDS 40.0%
! GGATGTTTGGATCTTGGTTT+TGG + tig0018043:6589-6608 Msa1363450:CDS 40.0%
!! GAATAACACAACTCTAGAGC+TGG - tig0018043:6655-6674 None:intergenic 40.0%
CTCCTGATTCATTTGCCAAT+TGG + tig0018043:6689-6708 Msa1363450:CDS 40.0%
TGGACTTGAGATCTTCCAAT+TGG - tig0018043:6707-6726 None:intergenic 40.0%
AATTGGAAGATCTCAAGTCC+AGG + tig0018043:6706-6725 Msa1363450:CDS 40.0%
GTTGTTGGAAGAAGTGGAAG+TGG + tig0018043:6442-6461 Msa1363450:CDS 45.0%
GACGAAAAGCCTAACAGATG+AGG + tig0018043:6549-6568 Msa1363450:CDS 45.0%
ACATCTTCAGGATGATCACC+TGG - tig0018043:6727-6746 None:intergenic 45.0%
!! ATGGAAGGTGGAGGTGTTGT+TGG + tig0018043:6427-6446 Msa1363450:CDS 50.0%
!! GGAGGTGTTGTTGGAAGAAG+TGG + tig0018043:6436-6455 Msa1363450:CDS 50.0%
!! GGGAGGGTGTTACATAGTTC+AGG - tig0018043:6634-6653 None:intergenic 50.0%
!! ACACAACTCTAGAGCTGGGA+GGG - tig0018043:6650-6669 None:intergenic 50.0%
!! AACACAACTCTAGAGCTGGG+AGG - tig0018043:6651-6670 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
tig0018043 gene 6427 6807 6427 ID=Msa1363450;Name=Msa1363450
tig0018043 mRNA 6427 6807 6427 ID=Msa1363450-mRNA-1;Parent=Msa1363450;Name=Msa1363450-mRNA-1;_AED=0.00;_eAED=0.06;_QI=0|-1|0|1|-1|1|1|0|126
tig0018043 exon 6427 6807 6427 ID=Msa1363450-mRNA-1:exon:13558;Parent=Msa1363450-mRNA-1
tig0018043 CDS 6427 6807 6427 ID=Msa1363450-mRNA-1:cds;Parent=Msa1363450-mRNA-1
Gene Sequence

>Msa1363450

ATGGAAGGTGGAGGTGTTGTTGGAAGAAGTGGAAGTGGGAAGATGAAGAGTAAGAATAACAATAACAAAGGAGTAGTGTTGTTGGAAGGGTATGTTGATGATAATGAGGAGGATCTTTGTAGGACGAAAAGCCTAACAGATGAGGATCTTGATGAGTTGAAGGGATGTTTGGATCTTGGTTTTGGGTTCAGTTATGATGAGATTCCTGAACTATGTAACACCCTCCCAGCTCTAGAGTTGTGTTATTCAATGTCAAACACTTCTCCTGATTCATTTGCCAATTGGAAGATCTCAAGTCCAGGTGATCATCCTGAAGATGTTAAAGCAAGATTGAAATATTGGGCACAAGCTGTTGCGTGTACCGTTAAACTCTGCAGCTAA

Protein sequence

>Msa1363450

MEGGGVVGRSGSGKMKSKNNNNKGVVLLEGYVDDNEEDLCRTKSLTDEDLDELKGCLDLGFGFSYDEIPELCNTLPALELCYSMSNTSPDSFANWKISSPGDHPEDVKARLKYWAQAVACTVKLCS*