AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene60196


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60196.t1 MTR_4g097175 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene60196.t1 MTR_1g023630 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene60196.t1 MTR_8g061940 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene60196.t1 MTR_8g099430 99.265 136 1 0 1 136 1 136 4.84e-96 272
MS.gene60196.t1 MTR_4g097170 99.265 136 1 0 1 136 42 177 7.71e-95 271
MS.gene60196.t1 MTR_7g059070 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60196.t1 MTR_5g029820 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60196.t1 MTR_5g029770 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60196.t1 MTR_4g065990 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60196.t1 MTR_4g088150 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60196.t1 MTR_2g035230 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60196.t1 MTR_8g092720 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60196.t1 MTR_8g063500 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60196.t1 MTR_8g103245 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60196.t1 MTR_8g092820 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60196.t1 MTR_7g013610 97.059 136 4 0 1 136 100 235 2.63e-92 266
MS.gene60196.t1 MTR_2g082310 92.647 136 10 0 1 136 1 136 4.16e-90 257
MS.gene60196.t1 MTR_2g082340 92.647 136 10 0 1 136 1 136 4.16e-90 257
MS.gene60196.t1 MTR_2g082370 86.301 146 10 1 1 136 1 146 3.79e-84 243
MS.gene60196.t1 MTR_2g082400 85.294 136 18 2 1 135 1 135 1.39e-76 223
MS.gene60196.t1 MTR_7g013600 83.036 112 19 0 25 136 2 113 1.72e-62 187
MS.gene60196.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 3.79e-56 172
MS.gene60196.t1 MTR_1g023630 77.477 111 23 1 1 111 1 109 1.51e-54 167
MS.gene60196.t1 MTR_7g023880 60.150 133 39 3 3 134 18 137 2.40e-44 142
MS.gene60196.t1 MTR_5g024630 63.793 116 39 2 1 116 1 113 1.54e-42 136
MS.gene60196.t1 MTR_5g024530 65.455 110 15 2 19 128 68 154 6.25e-40 131
MS.gene60196.t1 MTR_0197s0100 96.970 66 2 0 1 66 1 66 1.84e-39 129
MS.gene60196.t1 MTR_8g027840 56.122 98 42 1 37 133 28 125 4.65e-31 108
MS.gene60196.t1 MTR_8g105150 59.783 92 3 2 37 127 11 69 1.24e-26 95.1
MS.gene60196.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 5.77e-20 80.5
MS.gene60196.t1 MTR_5g089120 68.085 47 15 0 82 128 6 52 1.58e-16 70.1
MS.gene60196.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.14e-15 66.6
MS.gene60196.t1 MTR_4g128040 72.973 37 10 0 79 115 20 56 6.10e-14 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60196.t1 AT5G10980 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene60196.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene60196.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene60196.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene60196.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene60196.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene60196.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene60196.t1 AT4G40030 100.000 136 0 0 1 136 29 164 2.04e-96 275
MS.gene60196.t1 AT5G65360 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene60196.t1 AT5G10390 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene60196.t1 AT5G10400 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene60196.t1 AT3G27360 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene60196.t1 AT1G09200 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene60196.t1 AT1G75600 96.324 136 5 0 1 136 1 136 1.02e-92 264
MS.gene60196.t1 AT1G13370 94.853 136 7 0 1 136 1 136 2.16e-91 261
MS.gene60196.t1 AT5G65350 92.647 136 10 0 1 136 1 136 1.27e-88 254
MS.gene60196.t1 AT1G19890 90.511 137 12 1 1 136 1 137 1.89e-85 246
MS.gene60196.t1 AT5G12910 71.111 135 34 2 1 135 1 130 1.15e-65 196
MS.gene60196.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene60196.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene60196.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene60196.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112

Find 43 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGGTTGCAAGTTGCTTCCT+TGG 0.333909 8.4:-25231419 None:intergenic
AACCGAAGAGCAACAGTTCC+TGG 0.350308 8.4:-25231602 None:intergenic
CCTTGCCAACTGGATGTCCT+TGG 0.351370 8.4:-25232080 None:intergenic
CACGGATCCTCCTTGCCAAC+TGG 0.363910 8.4:-25232090 None:intergenic
TCAAGAGCTCAGTACTCTTC+TGG 0.372688 8.4:-25231779 None:intergenic
GAAGCTCCCCTTCCAGAGAT+TGG 0.425530 8.4:+25231806 MS.gene60196:CDS
CTTGCCAACTGGATGTCCTT+GGG 0.434839 8.4:-25232079 None:intergenic
ATATCTTGTTGGTCTCTTTG+AGG 0.438404 8.4:+25232012 MS.gene60196:CDS
TGAAATTGCTCAGGACTTCA+AGG 0.441698 8.4:+25231833 MS.gene60196:CDS
CTTCCTTGGTGCCTTTCCAC+CGG 0.443477 8.4:-25231405 None:intergenic
CAATTTCACGAACCAATCTC+TGG 0.444935 8.4:-25231818 None:intergenic
TTCTTAACTCCACCAGTAGT+TGG 0.449824 8.4:-25231563 None:intergenic
GCCCAGGAACTGTTGCTCTT+CGG 0.449916 8.4:+25231600 MS.gene60196:CDS
GCTGCTGAGGCATATCTTGT+TGG 0.457640 8.4:+25232001 MS.gene60196:CDS
TGCATTGCAAGAGGCTGCTG+AGG 0.479818 8.4:+25231988 MS.gene60196:CDS
AGAGTACTGAGCTCTTGATC+AGG 0.482557 8.4:+25231784 MS.gene60196:CDS
CGTAAGTCTGCACCAACTAC+TGG 0.494282 8.4:+25231551 MS.gene60196:CDS
ATCCGTGGTGAGCGCGCCTA+AGG 0.494321 8.4:+25232106 MS.gene60196:CDS
ATGCAAGCACAGCATGACTC+TGG 0.500306 8.4:-25231970 None:intergenic
ATTGGTTCGTGAAATTGCTC+AGG 0.513873 8.4:+25231824 MS.gene60196:CDS
TGCTGTGCTTGCATTGCAAG+AGG 0.513898 8.4:+25231979 MS.gene60196:CDS
CAAACTGCTCGTAAGTCAAC+CGG 0.517209 8.4:+25231386 MS.gene60196:CDS
TGACTTACGAGCAGTTTGCT+TGG 0.520852 8.4:-25231381 None:intergenic
TAATAGTAACTCGCTTGGCA+TGG 0.547452 8.4:-25232054 None:intergenic
CTCCTTAGGCGCGCTCACCA+CGG 0.549887 8.4:-25232108 None:intergenic
CACGAACCAATCTCTGGAAG+GGG 0.550172 8.4:-25231812 None:intergenic
ACCGAAGAGCAACAGTTCCT+GGG 0.564699 8.4:-25231601 None:intergenic
TCGTAAGTCAACCGGTGGAA+AGG 0.572235 8.4:+25231394 MS.gene60196:CDS
GGGCATAATAGTAACTCGCT+TGG 0.573260 8.4:-25232059 None:intergenic
AAGGAAGCAACTTGCAACCA+AGG 0.574800 8.4:+25231421 MS.gene60196:CDS
TCACGAACCAATCTCTGGAA+GGG 0.584671 8.4:-25231813 None:intergenic
CCAAGGACATCCAGTTGGCA+AGG 0.588868 8.4:+25232080 MS.gene60196:CDS
TTCACGAACCAATCTCTGGA+AGG 0.596494 8.4:-25231814 None:intergenic
AAACCACATCGTTATCGCCC+AGG 0.603518 8.4:+25231584 MS.gene60196:CDS
AAGTCTGCACCAACTACTGG+TGG 0.611115 8.4:+25231554 MS.gene60196:CDS
GCGAGTTACTATTATGCCCA+AGG 0.629580 8.4:+25232063 MS.gene60196:CDS
TATGCCCAAGGACATCCAGT+TGG 0.656475 8.4:+25232075 MS.gene60196:CDS
GTTCCTGGGCGATAACGATG+TGG 0.663160 8.4:-25231587 None:intergenic
CAGTTGGCAAGGAGGATCCG+TGG 0.664833 8.4:+25232091 MS.gene60196:CDS
CAGCATGACTCTGGAAACGA+AGG 0.672290 8.4:-25231961 None:intergenic
AGGACATCCAGTTGGCAAGG+AGG 0.674393 8.4:+25232083 MS.gene60196:CDS
ACTGCTCGTAAGTCAACCGG+TGG 0.674713 8.4:+25231389 MS.gene60196:CDS
CAACCGGTGGAAAGGCACCA+AGG 0.683753 8.4:+25231402 MS.gene60196:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTGTTAAAAAATTTCTTTTA+GGG + chr8.4:25231630-25231649 MS.gene60196:intron 15.0%
!!! TCTGTTAAAAAATTTCTTTT+AGG + chr8.4:25231629-25231648 MS.gene60196:intron 15.0%
!!! GTTTATAATGATTTGTCATT+TGG + chr8.4:25231723-25231742 MS.gene60196:intron 20.0%
!!! GTTTCTAATAATTTTGGTTT+TGG + chr8.4:25231927-25231946 MS.gene60196:intron 20.0%
!!! TATTTTAAAACAGTGAGATT+AGG + chr8.4:25231751-25231770 MS.gene60196:intron 20.0%
! AATCAACTAAAATCAAACCT+TGG - chr8.4:25231441-25231460 None:intergenic 25.0%
!! GTTGTGGTTTCTAATAATTT+TGG + chr8.4:25231921-25231940 MS.gene60196:intron 25.0%
!! TAATGATTTGTCATTTGGAT+TGG + chr8.4:25231728-25231747 MS.gene60196:intron 25.0%
!!! CTTGTTTTTCTCTTAACTTT+AGG + chr8.4:25231523-25231542 MS.gene60196:intron 25.0%
!!! TTGTTTCAATTGAGTTGAAT+TGG + chr8.4:25231696-25231715 MS.gene60196:intron 25.0%
AATCAGTTTAGTTAAGGTTG+TGG + chr8.4:25231905-25231924 MS.gene60196:intron 30.0%
GTTCACAATCAGTTTAGTTA+AGG + chr8.4:25231899-25231918 MS.gene60196:intron 30.0%
! ATATCTTGTTGGTCTCTTTG+AGG + chr8.4:25232012-25232031 MS.gene60196:CDS 35.0%
!! TCAATTGAGTTGAATTGGCT+TGG + chr8.4:25231701-25231720 MS.gene60196:intron 35.0%
CAATTTCACGAACCAATCTC+TGG - chr8.4:25231821-25231840 None:intergenic 40.0%
TAATAGTAACTCGCTTGGCA+TGG - chr8.4:25232057-25232076 None:intergenic 40.0%
TGAAATTGCTCAGGACTTCA+AGG + chr8.4:25231833-25231852 MS.gene60196:CDS 40.0%
TTCTTAACTCCACCAGTAGT+TGG - chr8.4:25231566-25231585 None:intergenic 40.0%
!! ATTGGTTCGTGAAATTGCTC+AGG + chr8.4:25231824-25231843 MS.gene60196:CDS 40.0%
AAGGAAGCAACTTGCAACCA+AGG + chr8.4:25231421-25231440 MS.gene60196:CDS 45.0%
CAAACTGCTCGTAAGTCAAC+CGG + chr8.4:25231386-25231405 MS.gene60196:CDS 45.0%
GCGAGTTACTATTATGCCCA+AGG + chr8.4:25232063-25232082 MS.gene60196:CDS 45.0%
GGGCATAATAGTAACTCGCT+TGG - chr8.4:25232062-25232081 None:intergenic 45.0%
TCAAGAGCTCAGTACTCTTC+TGG - chr8.4:25231782-25231801 None:intergenic 45.0%
TTCACGAACCAATCTCTGGA+AGG - chr8.4:25231817-25231836 None:intergenic 45.0%
TTGGTTGCAAGTTGCTTCCT+TGG - chr8.4:25231422-25231441 None:intergenic 45.0%
! TCACGAACCAATCTCTGGAA+GGG - chr8.4:25231816-25231835 None:intergenic 45.0%
! TGACTTACGAGCAGTTTGCT+TGG - chr8.4:25231384-25231403 None:intergenic 45.0%
!! AGAGTACTGAGCTCTTGATC+AGG + chr8.4:25231784-25231803 MS.gene60196:CDS 45.0%
AAACCACATCGTTATCGCCC+AGG + chr8.4:25231584-25231603 MS.gene60196:CDS 50.0%
AACCGAAGAGCAACAGTTCC+TGG - chr8.4:25231605-25231624 None:intergenic 50.0%
AAGTCTGCACCAACTACTGG+TGG + chr8.4:25231554-25231573 MS.gene60196:CDS 50.0%
ACCGAAGAGCAACAGTTCCT+GGG - chr8.4:25231604-25231623 None:intergenic 50.0%
ATGCAAGCACAGCATGACTC+TGG - chr8.4:25231973-25231992 None:intergenic 50.0%
CGTAAGTCTGCACCAACTAC+TGG + chr8.4:25231551-25231570 MS.gene60196:CDS 50.0%
CTTGCCAACTGGATGTCCTT+GGG - chr8.4:25232082-25232101 None:intergenic 50.0%
GCTGCTGAGGCATATCTTGT+TGG + chr8.4:25232001-25232020 MS.gene60196:CDS 50.0%
TATGCCCAAGGACATCCAGT+TGG + chr8.4:25232075-25232094 MS.gene60196:CDS 50.0%
TCGTAAGTCAACCGGTGGAA+AGG + chr8.4:25231394-25231413 MS.gene60196:CDS 50.0%
TGCTGTGCTTGCATTGCAAG+AGG + chr8.4:25231979-25231998 MS.gene60196:CDS 50.0%
! CACGAACCAATCTCTGGAAG+GGG - chr8.4:25231815-25231834 None:intergenic 50.0%
! CAGCATGACTCTGGAAACGA+AGG - chr8.4:25231964-25231983 None:intergenic 50.0%
ACTGCTCGTAAGTCAACCGG+TGG + chr8.4:25231389-25231408 MS.gene60196:CDS 55.0%
AGGACATCCAGTTGGCAAGG+AGG + chr8.4:25232083-25232102 MS.gene60196:CDS 55.0%
CCAAGGACATCCAGTTGGCA+AGG + chr8.4:25232080-25232099 MS.gene60196:CDS 55.0%
CCTTGCCAACTGGATGTCCT+TGG - chr8.4:25232083-25232102 None:intergenic 55.0%
GAAGCTCCCCTTCCAGAGAT+TGG + chr8.4:25231806-25231825 MS.gene60196:CDS 55.0%
GCCCAGGAACTGTTGCTCTT+CGG + chr8.4:25231600-25231619 MS.gene60196:CDS 55.0%
GTTCCTGGGCGATAACGATG+TGG - chr8.4:25231590-25231609 None:intergenic 55.0%
TGCATTGCAAGAGGCTGCTG+AGG + chr8.4:25231988-25232007 MS.gene60196:CDS 55.0%
!! CTTCCTTGGTGCCTTTCCAC+CGG - chr8.4:25231408-25231427 None:intergenic 55.0%
CACGGATCCTCCTTGCCAAC+TGG - chr8.4:25232093-25232112 None:intergenic 60.0%
CAGTTGGCAAGGAGGATCCG+TGG + chr8.4:25232091-25232110 MS.gene60196:CDS 60.0%
!! CAACCGGTGGAAAGGCACCA+AGG + chr8.4:25231402-25231421 MS.gene60196:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 25231371 25232126 25231371 ID=MS.gene60196
chr8.4 mRNA 25231371 25232126 25231371 ID=MS.gene60196.t1;Parent=MS.gene60196
chr8.4 exon 25231371 25231442 25231371 ID=MS.gene60196.t1.exon1;Parent=MS.gene60196.t1
chr8.4 CDS 25231371 25231442 25231371 ID=cds.MS.gene60196.t1;Parent=MS.gene60196.t1
chr8.4 exon 25231545 25231621 25231545 ID=MS.gene60196.t1.exon2;Parent=MS.gene60196.t1
chr8.4 CDS 25231545 25231621 25231545 ID=cds.MS.gene60196.t1;Parent=MS.gene60196.t1
chr8.4 exon 25231764 25231854 25231764 ID=MS.gene60196.t1.exon3;Parent=MS.gene60196.t1
chr8.4 CDS 25231764 25231854 25231764 ID=cds.MS.gene60196.t1;Parent=MS.gene60196.t1
chr8.4 exon 25231956 25232126 25231956 ID=MS.gene60196.t1.exon4;Parent=MS.gene60196.t1
chr8.4 CDS 25231956 25232126 25231956 ID=cds.MS.gene60196.t1;Parent=MS.gene60196.t1
Gene Sequence

>MS.gene60196

ATGGCACGTACCAAGCAAACTGCTCGTAAGTCAACCGGTGGAAAGGCACCAAGGAAGCAACTTGCAACCAAGGTTTGATTTTAGTTGATTATCATTATAATTACATTGATTTTAATCTGTATTATGACTGTTGAATCTTATGTTAATGATTTCTTGTTTTTCTCTTAACTTTAGGCTGCACGTAAGTCTGCACCAACTACTGGTGGAGTTAAGAAACCACATCGTTATCGCCCAGGAACTGTTGCTCTTCGGTTAGTTTCTGTTAAAAAATTTCTTTTAGGGTTGTAGTTCAATGTGTCGTGTTCTGTTCTGTTTTGATTTTAATTTGTTTCAATTGAGTTGAATTGGCTTGGTTTATAATGATTTGTCATTTGGATTGGTATTTTAAAACAGTGAGATTAGGAAGTACCAGAAGAGTACTGAGCTCTTGATCAGGAAGCTCCCCTTCCAGAGATTGGTTCGTGAAATTGCTCAGGACTTCAAGGTAATGTGTAGTGTAGTTAATGATGTGAGATATTGTGTATTTGTGTTCACAATCAGTTTAGTTAAGGTTGTGGTTTCTAATAATTTTGGTTTTGGTTGCAGACTGACCTTCGTTTCCAGAGTCATGCTGTGCTTGCATTGCAAGAGGCTGCTGAGGCATATCTTGTTGGTCTCTTTGAGGACACTAACTTGTGTGCTATCCATGCCAAGCGAGTTACTATTATGCCCAAGGACATCCAGTTGGCAAGGAGGATCCGTGGTGAGCGCGCCTAA

Protein sequence

>MS.gene60196.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPTTGGVKKPHRYRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSHAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA