AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene017431


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017431.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene017431.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene017431.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene017431.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene017431.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene017431.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene017431.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene017431.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene017431.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene017431.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene017431.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene017431.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene017431.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene017431.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene017431.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene017431.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene017431.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene017431.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene017431.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene017431.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene017431.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene017431.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene017431.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene017431.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene017431.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene017431.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene017431.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene017431.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene017431.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene017431.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene017431.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene017431.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene017431.t1 MTR_4g128040 75.676 37 9 0 79 115 20 56 3.38e-15 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017431.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene017431.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene017431.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene017431.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene017431.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene017431.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene017431.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene017431.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene017431.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene017431.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene017431.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene017431.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene017431.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene017431.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene017431.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene017431.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene017431.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene017431.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene017431.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene017431.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene017431.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene017431.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 34 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATTTCTCTAACCAATCTT+TGG 0.237540 5.1:+61382769 None:intergenic
TCACGAAGAGCGACTGTTCC+TGG 0.301860 5.1:+61382843 None:intergenic
GCAGCTGAAGCTTATCTTGT+TGG 0.346066 5.1:-61382687 MS.gene017431:CDS
TTGAATATCCTTAGGCATAA+TGG 0.349539 5.1:+61382617 None:intergenic
AGCTGATTTCCGAGCGGCTT+TGG 0.356003 5.1:+61382905 None:intergenic
GAAGCTTCCTTTCCAAAGAT+TGG 0.376805 5.1:-61382781 MS.gene017431:CDS
CGGAAATCAGCTCCGGCGAC+TGG 0.383526 5.1:-61382894 MS.gene017431:CDS
GAGCGGAAACAGCGCTACTC+TGG 0.433957 5.1:+61382718 None:intergenic
TTGGTGGCGAGCTGTTTCCT+TGG 0.436325 5.1:+61382924 None:intergenic
TTCTTCACTCCTCCAGTCGC+CGG 0.441465 5.1:+61382882 None:intergenic
AAGCCCTCTCGCCTCTGATT+CGG 0.461144 5.1:+61382586 None:intergenic
AGGCATAATGGTAACTCTCT+TGG 0.481302 5.1:+61382629 None:intergenic
GGCATGAATAGCACAAAGAT+TGG 0.490509 5.1:+61382650 None:intergenic
TGATTTCCGAGCGGCTTTGG+TGG 0.495094 5.1:+61382908 None:intergenic
CGAGCAAGTTGAATATCCTT+AGG 0.498424 5.1:+61382609 None:intergenic
AGCCGCTCGGAAATCAGCTC+CGG 0.498921 5.1:-61382901 MS.gene017431:CDS
AAACAGCGCTACTCTGGAAT+CGG 0.503171 5.1:+61382724 None:intergenic
AGAGCACAGAGCTTCTCATA+AGG 0.533669 5.1:-61382803 MS.gene017431:CDS
CAACTTGCTCGCCGAATCAG+AGG 0.534605 5.1:-61382597 MS.gene017431:CDS
GAGAGTTACCATTATGCCTA+AGG 0.538018 5.1:-61382625 MS.gene017431:CDS
ATTGGTTAGAGAAATTGCTC+AGG 0.542546 5.1:-61382763 MS.gene017431:CDS
TCTCTAACCAATCTTTGGAA+AGG 0.542941 5.1:+61382774 None:intergenic
AGCTCGCCACCAAAGCCGCT+CGG 0.547091 5.1:-61382914 MS.gene017431:CDS
TTCAGCTGCTTCTTGAAGAG+CGG 0.576635 5.1:+61382701 None:intergenic
TCGCCGAATCAGAGGCGAGA+GGG 0.598725 5.1:-61382589 MS.gene017431:CDS
CAAACAGCAAGAAAATCCAC+CGG 0.620184 5.1:-61382957 MS.gene017431:CDS
AAATCAGCTCCGGCGACTGG+AGG 0.630058 5.1:-61382891 MS.gene017431:CDS
AAGCCACACAGATTCCGTCC+AGG 0.632383 5.1:-61382861 MS.gene017431:CDS
CTCGCCGAATCAGAGGCGAG+AGG 0.633846 5.1:-61382590 MS.gene017431:CDS
GAAGAGCGACTGTTCCTGGA+CGG 0.668213 5.1:+61382847 None:intergenic
GTTCCTGGACGGAATCTGTG+TGG 0.677012 5.1:+61382858 None:intergenic
CCACCGGAGGAAAAGCACCA+AGG 0.683879 5.1:-61382941 MS.gene017431:CDS
ACAGCAAGAAAATCCACCGG+AGG 0.684797 5.1:-61382954 MS.gene017431:CDS
CGCCGGAGCTGATTTCCGAG+CGG 0.685230 5.1:+61382899 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CAATTTCTCTAACCAATCTT+TGG + chr5.1:61382790-61382809 None:intergenic 30.0%
TTGAATATCCTTAGGCATAA+TGG + chr5.1:61382942-61382961 None:intergenic 30.0%
ATTGGTTAGAGAAATTGCTC+AGG - chr5.1:61382793-61382812 MS.gene017431:CDS 35.0%
! TCTCTAACCAATCTTTGGAA+AGG + chr5.1:61382785-61382804 None:intergenic 35.0%
!!! GGATTTTCTTGCTGTTTGTT+TGG + chr5.1:61382597-61382616 None:intergenic 35.0%
AGGCATAATGGTAACTCTCT+TGG + chr5.1:61382930-61382949 None:intergenic 40.0%
CAAACAGCAAGAAAATCCAC+CGG - chr5.1:61382599-61382618 MS.gene017431:CDS 40.0%
GAAGCTTCCTTTCCAAAGAT+TGG - chr5.1:61382775-61382794 MS.gene017431:CDS 40.0%
GAGAGTTACCATTATGCCTA+AGG - chr5.1:61382931-61382950 MS.gene017431:CDS 40.0%
GGCATGAATAGCACAAAGAT+TGG + chr5.1:61382909-61382928 None:intergenic 40.0%
! CGAGCAAGTTGAATATCCTT+AGG + chr5.1:61382950-61382969 None:intergenic 40.0%
AGAGCACAGAGCTTCTCATA+AGG - chr5.1:61382753-61382772 MS.gene017431:CDS 45.0%
GCAGCTGAAGCTTATCTTGT+TGG - chr5.1:61382869-61382888 MS.gene017431:CDS 45.0%
TTCAGCTGCTTCTTGAAGAG+CGG + chr5.1:61382858-61382877 None:intergenic 45.0%
!! AAACAGCGCTACTCTGGAAT+CGG + chr5.1:61382835-61382854 None:intergenic 45.0%
!!! TTTCCTTGGTGCTTTTCCTC+CGG + chr5.1:61382621-61382640 None:intergenic 45.0%
ACAGCAAGAAAATCCACCGG+AGG - chr5.1:61382602-61382621 MS.gene017431:CDS 50.0%
AAGCCACACAGATTCCGTCC+AGG - chr5.1:61382695-61382714 MS.gene017431:CDS 55.0%
AAGCCCTCTCGCCTCTGATT+CGG + chr5.1:61382973-61382992 None:intergenic 55.0%
GAAGAGCGACTGTTCCTGGA+CGG + chr5.1:61382712-61382731 None:intergenic 55.0%
GTTCCTGGACGGAATCTGTG+TGG + chr5.1:61382701-61382720 None:intergenic 55.0%
TCACGAAGAGCGACTGTTCC+TGG + chr5.1:61382716-61382735 None:intergenic 55.0%
TTCTTCACTCCTCCAGTCGC+CGG + chr5.1:61382677-61382696 None:intergenic 55.0%
! AGCTGATTTCCGAGCGGCTT+TGG + chr5.1:61382654-61382673 None:intergenic 55.0%
! CAACTTGCTCGCCGAATCAG+AGG - chr5.1:61382959-61382978 MS.gene017431:CDS 55.0%
! TGATTTCCGAGCGGCTTTGG+TGG + chr5.1:61382651-61382670 None:intergenic 55.0%
!! TTGGTGGCGAGCTGTTTCCT+TGG + chr5.1:61382635-61382654 None:intergenic 55.0%
AAATCAGCTCCGGCGACTGG+AGG - chr5.1:61382665-61382684 MS.gene017431:CDS 60.0%
AGCCGCTCGGAAATCAGCTC+CGG - chr5.1:61382655-61382674 MS.gene017431:CDS 60.0%
GAGCGGAAACAGCGCTACTC+TGG + chr5.1:61382841-61382860 None:intergenic 60.0%
TCGCCGAATCAGAGGCGAGA+GGG - chr5.1:61382967-61382986 MS.gene017431:CDS 60.0%
!! CCACCGGAGGAAAAGCACCA+AGG - chr5.1:61382615-61382634 MS.gene017431:CDS 60.0%
!!! CCTTGGTGCTTTTCCTCCGG+TGG + chr5.1:61382618-61382637 None:intergenic 60.0%
AGCTCGCCACCAAAGCCGCT+CGG - chr5.1:61382642-61382661 MS.gene017431:CDS 65.0%
CGGAAATCAGCTCCGGCGAC+TGG - chr5.1:61382662-61382681 MS.gene017431:CDS 65.0%
CTCGCCGAATCAGAGGCGAG+AGG - chr5.1:61382966-61382985 MS.gene017431:CDS 65.0%
! CGCCGGAGCTGATTTCCGAG+CGG + chr5.1:61382660-61382679 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 61382584 61382994 61382584 ID=MS.gene017431
chr5.1 mRNA 61382584 61382994 61382584 ID=MS.gene017431.t1;Parent=MS.gene017431
chr5.1 exon 61382584 61382994 61382584 ID=MS.gene017431.t1.exon1;Parent=MS.gene017431.t1
chr5.1 CDS 61382584 61382994 61382584 ID=cds.MS.gene017431.t1;Parent=MS.gene017431.t1
Gene Sequence

>MS.gene017431

ATGGCACGTACCAAACAAACAGCAAGAAAATCCACCGGAGGAAAAGCACCAAGGAAACAGCTCGCCACCAAAGCCGCTCGGAAATCAGCTCCGGCGACTGGAGGAGTGAAGAAGCCACACAGATTCCGTCCAGGAACAGTCGCTCTTCGTGAAATCAGAAAGTATCAGAAGAGCACAGAGCTTCTCATAAGGAAGCTTCCTTTCCAAAGATTGGTTAGAGAAATTGCTCAGGATTTCAAAACTGATCTCCGATTCCAGAGTAGCGCTGTTTCCGCTCTTCAAGAAGCAGCTGAAGCTTATCTTGTTGGTTTGTTTGAAGATACCAATCTTTGTGCTATTCATGCCAAGAGAGTTACCATTATGCCTAAGGATATTCAACTTGCTCGCCGAATCAGAGGCGAGAGGGCTTAG

Protein sequence

>MS.gene017431.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA