AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene59184

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene59184.t1 MTR_1g099310 79.365 189 7 1 29 185 108 296 1.07e-101 295
MS.gene59184.t1 MTR_1g099290 91.367 139 12 0 45 183 158 296 5.02e-90 274
MS.gene59184.t1 MTR_0027s0260 61.972 142 51 3 45 185 159 298 1.41e-56 180
MS.gene59184.t1 MTR_1g099320 60.417 144 53 4 44 185 156 297 9.58e-55 176
MS.gene59184.t1 MTR_8g055940 59.155 142 54 3 45 185 159 297 7.40e-53 171
MS.gene59184.t1 MTR_5g043550 60.993 141 51 3 46 185 157 294 1.09e-52 170
MS.gene59184.t1 MTR_8g467650 58.451 142 56 3 45 185 159 298 1.24e-51 167
MS.gene59184.t1 MTR_7g116350 58.451 142 56 3 46 185 144 284 2.66e-50 173
MS.gene59184.t1 MTR_2g102020 52.448 143 65 3 45 185 172 313 5.28e-47 157
MS.gene59184.t1 MTR_7g116850 53.191 141 64 2 47 185 186 326 5.31e-46 154
MS.gene59184.t1 MTR_1g099350 52.448 143 63 3 44 185 153 291 1.27e-45 152
MS.gene59184.t1 MTR_2g040740 51.534 163 72 5 29 185 138 299 2.48e-44 149
MS.gene59184.t1 MTR_2g040690 42.593 216 88 5 6 185 87 302 4.25e-44 149
MS.gene59184.t1 MTR_2g040830 43.056 216 87 5 6 185 85 300 4.42e-44 149
MS.gene59184.t1 MTR_4g077310 79.775 89 17 1 94 182 3 90 4.31e-43 139
MS.gene59184.t1 MTR_6g023340 53.793 145 62 4 46 185 158 302 9.05e-43 145
MS.gene59184.t1 MTR_2g040650 52.414 145 63 4 46 185 153 296 9.86e-42 143
MS.gene59184.t1 MTR_2g040880 55.172 116 48 2 74 185 2 117 4.60e-37 125
MS.gene59184.t1 MTR_2g040900 46.400 125 62 3 66 185 17 141 8.45e-32 113
MS.gene59184.t1 MTR_4g063180 50.427 117 26 1 60 176 98 182 1.21e-27 102
MS.gene59184.t1 MTR_2g040850 37.500 128 67 5 62 182 97 218 1.67e-12 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene59184.t1 AT5G24090 58.741 143 56 3 45 185 161 302 6.07e-55 176

Find 42 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACCTTGCAAAAGCACTTAA+TGG 0.191485 1.3:+68405737 MS.gene59184:CDS
TCCTTACCCTGATGCTCATT+TGG 0.313396 1.3:+68405805 MS.gene59184:CDS
TTGGATTCAGCTATTAATAC+TGG 0.323188 1.3:+68405824 MS.gene59184:CDS
AATATGGTGGTGTTATGATT+TGG 0.352352 1.3:+68406071 MS.gene59184:CDS
ATCAAGGGTTCTGCTAAATA+TGG 0.352843 1.3:+68406055 MS.gene59184:CDS
GAGGAAAGAGAGTAGCTTCC+GGG 0.371454 1.3:-68405578 None:intergenic
TCAGGTTCTTCCTGCTATCA+AGG 0.374119 1.3:+68406039 MS.gene59184:CDS
TTGTTAATGCTTGGAATCAA+TGG 0.374558 1.3:+68405921 MS.gene59184:CDS
ATATGGTGGTGTTATGATTT+GGG 0.390063 1.3:+68406072 MS.gene59184:CDS
GCTGAATCCAAATGAGCATC+AGG 0.396590 1.3:-68405812 None:intergenic
CTAACAATCTTGTTAATGCT+TGG 0.415249 1.3:+68405912 MS.gene59184:CDS
TGGATATAGTAATGCTATCA+AGG 0.428942 1.3:+68406117 MS.gene59184:CDS
TATCTCTCGGAGGTGGTGCC+CGG 0.452991 1.3:+68405560 MS.gene59184:CDS
TGAGGAAAGAGAGTAGCTTC+CGG 0.473655 1.3:-68405579 None:intergenic
TAGTGTTTCCACTTGAGTAT+TGG 0.491062 1.3:-68405892 None:intergenic
CAGGTTCTTCCTGCTATCAA+GGG 0.501869 1.3:+68406040 MS.gene59184:CDS
TTAGCAGAACCCTTGATAGC+AGG 0.515382 1.3:-68406049 None:intergenic
ATTTGGGATAGATTCAATGA+TGG 0.518849 1.3:+68406088 MS.gene59184:CDS
TCCAAATGAGCATCAGGGTA+AGG 0.518926 1.3:-68405806 None:intergenic
ATCAAAGTGTTGCTATCTCT+CGG 0.521182 1.3:+68405547 MS.gene59184:CDS
TGAGAGTTCAAAACATCGGC+AGG 0.524205 1.3:-68406019 None:intergenic
CTGGTTTATTTGATTATGTG+TGG 0.525596 1.3:+68405843 MS.gene59184:CDS
TTTGATATTGAAGCTGGTGG+TGG 0.526483 1.3:+68405703 MS.gene59184:intron
TGGTTTATTTGATTATGTGT+GGG 0.546785 1.3:+68405844 MS.gene59184:CDS
CTCAGCTGATGATGCCACAC+AGG 0.550683 1.3:+68405598 MS.gene59184:CDS
GGAGCAGCAGCATCATTAGC+AGG 0.564812 1.3:-68405980 None:intergenic
CCTCAGTGCCAATACTCAAG+TGG 0.572994 1.3:+68405884 MS.gene59184:CDS
ATTCAAACTTGTCAAAGCAA+AGG 0.574618 1.3:+68405523 MS.gene59184:CDS
GATGCTGCTGCTCCAAGTGG+TGG 0.591043 1.3:+68405989 MS.gene59184:CDS
AGATTCAATGATGGACAAAG+TGG 0.595216 1.3:+68406097 MS.gene59184:CDS
GTGTTGCTATCTCTCGGAGG+TGG 0.606067 1.3:+68405553 MS.gene59184:CDS
GGATATAGTAATGCTATCAA+GGG 0.614401 1.3:+68406118 MS.gene59184:CDS
GCATCAGGGTAAGGACATTG+AGG 0.625469 1.3:-68405797 None:intergenic
GCAGGAATAAAACCACCACT+TGG 0.629786 1.3:-68406001 None:intergenic
CCACTTGAGTATTGGCACTG+AGG 0.629894 1.3:-68405884 None:intergenic
AAGGGTTCTGCTAAATATGG+TGG 0.631653 1.3:+68406058 MS.gene59184:CDS
CTGAATCCAAATGAGCATCA+GGG 0.641718 1.3:-68405811 None:intergenic
CTGTGTGGCATCATCAGCTG+AGG 0.646251 1.3:-68405597 None:intergenic
AATGATGCTGCTGCTCCAAG+TGG 0.649731 1.3:+68405986 MS.gene59184:CDS
AACCTGAGAGTTCAAAACAT+CGG 0.654507 1.3:-68406023 None:intergenic
TAGGTAATTTGCAACCTGTG+TGG 0.691863 1.3:-68405612 None:intergenic
AAAGTGTTGCTATCTCTCGG+AGG 0.742538 1.3:+68405550 MS.gene59184:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGGTTTATTTGATTATGTGT+GGG + chr1.3:68405844-68405863 MS.gene59184:CDS 25.0%
!!! ATTGATTTTGATATTGAAGC+TGG + chr1.3:68405697-68405716 MS.gene59184:intron 25.0%
!!! TTAATGGTTTTAGTTCACAA+AGG + chr1.3:68405753-68405772 MS.gene59184:CDS 25.0%
ATTACCTATGGAACAATTCT+TGG + chr1.3:68405627-68405646 MS.gene59184:intron 30.0%
ATTCAAACTTGTCAAAGCAA+AGG + chr1.3:68405523-68405542 MS.gene59184:CDS 30.0%
CTAACAATCTTGTTAATGCT+TGG + chr1.3:68405912-68405931 MS.gene59184:CDS 30.0%
CTGGTTTATTTGATTATGTG+TGG + chr1.3:68405843-68405862 MS.gene59184:CDS 30.0%
GGATATAGTAATGCTATCAA+GGG + chr1.3:68406118-68406137 MS.gene59184:CDS 30.0%
TGGATATAGTAATGCTATCA+AGG + chr1.3:68406117-68406136 MS.gene59184:CDS 30.0%
TTACCTATGGAACAATTCTT+GGG + chr1.3:68405628-68405647 MS.gene59184:intron 30.0%
TTGGATTCAGCTATTAATAC+TGG + chr1.3:68405824-68405843 MS.gene59184:CDS 30.0%
TTGTTAATGCTTGGAATCAA+TGG + chr1.3:68405921-68405940 MS.gene59184:CDS 30.0%
! ATTTGGGATAGATTCAATGA+TGG + chr1.3:68406088-68406107 MS.gene59184:CDS 30.0%
! CAAGCTAAACAAGTGTTTTT+AGG + chr1.3:68405953-68405972 MS.gene59184:CDS 30.0%
!! AATATGGTGGTGTTATGATT+TGG + chr1.3:68406071-68406090 MS.gene59184:CDS 30.0%
!! ATATGGTGGTGTTATGATTT+GGG + chr1.3:68406072-68406091 MS.gene59184:CDS 30.0%
AACCTGAGAGTTCAAAACAT+CGG - chr1.3:68406026-68406045 None:intergenic 35.0%
ATCAAGGGTTCTGCTAAATA+TGG + chr1.3:68406055-68406074 MS.gene59184:CDS 35.0%
TAGTGTTTCCACTTGAGTAT+TGG - chr1.3:68405895-68405914 None:intergenic 35.0%
! AACCATTAAGTGCTTTTGCA+AGG - chr1.3:68405742-68405761 None:intergenic 35.0%
!! AGATTCAATGATGGACAAAG+TGG + chr1.3:68406097-68406116 MS.gene59184:CDS 35.0%
!! ATCAAAGTGTTGCTATCTCT+CGG + chr1.3:68405547-68405566 MS.gene59184:CDS 35.0%
!! GATTTTGATATTGAAGCTGG+TGG + chr1.3:68405700-68405719 MS.gene59184:intron 35.0%
AAGGGTTCTGCTAAATATGG+TGG + chr1.3:68406058-68406077 MS.gene59184:CDS 40.0%
ACGTCATCTTCAAGACCATT+AGG + chr1.3:68405655-68405674 MS.gene59184:intron 40.0%
CACAGGTTGCAAATTACCTA+TGG + chr1.3:68405615-68405634 MS.gene59184:intron 40.0%
CTGAATCCAAATGAGCATCA+GGG - chr1.3:68405814-68405833 None:intergenic 40.0%
TCCAAAACAGCATCACCTAA+TGG - chr1.3:68405673-68405692 None:intergenic 40.0%
TTTGATATTGAAGCTGGTGG+TGG + chr1.3:68405703-68405722 MS.gene59184:intron 40.0%
! TAGGTAATTTGCAACCTGTG+TGG - chr1.3:68405615-68405634 None:intergenic 40.0%
!! ACCATTAGGTGATGCTGTTT+TGG + chr1.3:68405669-68405688 MS.gene59184:intron 40.0%
!! GACCTTGCAAAAGCACTTAA+TGG + chr1.3:68405737-68405756 MS.gene59184:CDS 40.0%
!!! TTAGGTGATGCTGTTTTGGA+TGG + chr1.3:68405673-68405692 MS.gene59184:intron 40.0%
CAGGTTCTTCCTGCTATCAA+GGG + chr1.3:68406040-68406059 MS.gene59184:CDS 45.0%
CCACCCAAGAATTGTTCCAT+AGG - chr1.3:68405634-68405653 None:intergenic 45.0%
CCTATGGAACAATTCTTGGG+TGG + chr1.3:68405631-68405650 MS.gene59184:intron 45.0%
GCAGGAATAAAACCACCACT+TGG - chr1.3:68406004-68406023 None:intergenic 45.0%
GCTGAATCCAAATGAGCATC+AGG - chr1.3:68405815-68405834 None:intergenic 45.0%
TCAGGTTCTTCCTGCTATCA+AGG + chr1.3:68406039-68406058 MS.gene59184:CDS 45.0%
TCCAAATGAGCATCAGGGTA+AGG - chr1.3:68405809-68405828 None:intergenic 45.0%
TCCTTACCCTGATGCTCATT+TGG + chr1.3:68405805-68405824 MS.gene59184:CDS 45.0%
TGAGAGTTCAAAACATCGGC+AGG - chr1.3:68406022-68406041 None:intergenic 45.0%
TGAGGAAAGAGAGTAGCTTC+CGG - chr1.3:68405582-68405601 None:intergenic 45.0%
! TTAGCAGAACCCTTGATAGC+AGG - chr1.3:68406052-68406071 None:intergenic 45.0%
!! AAAGTGTTGCTATCTCTCGG+AGG + chr1.3:68405550-68405569 MS.gene59184:CDS 45.0%
!! TGCCGATGTTTTGAACTCTC+AGG + chr1.3:68406021-68406040 MS.gene59184:CDS 45.0%
AATGATGCTGCTGCTCCAAG+TGG + chr1.3:68405986-68406005 MS.gene59184:CDS 50.0%
CCTCAGTGCCAATACTCAAG+TGG + chr1.3:68405884-68405903 MS.gene59184:CDS 50.0%
GAGGAAAGAGAGTAGCTTCC+GGG - chr1.3:68405581-68405600 None:intergenic 50.0%
GCATCAGGGTAAGGACATTG+AGG - chr1.3:68405800-68405819 None:intergenic 50.0%
!! CCACTTGAGTATTGGCACTG+AGG - chr1.3:68405887-68405906 None:intergenic 50.0%
CTGTGTGGCATCATCAGCTG+AGG - chr1.3:68405600-68405619 None:intergenic 55.0%
GGAGCAGCAGCATCATTAGC+AGG - chr1.3:68405983-68406002 None:intergenic 55.0%
! CTCAGCTGATGATGCCACAC+AGG + chr1.3:68405598-68405617 MS.gene59184:CDS 55.0%
! GTGTTGCTATCTCTCGGAGG+TGG + chr1.3:68405553-68405572 MS.gene59184:CDS 55.0%
GATGCTGCTGCTCCAAGTGG+TGG + chr1.3:68405989-68406008 MS.gene59184:CDS 60.0%
TATCTCTCGGAGGTGGTGCC+CGG + chr1.3:68405560-68405579 MS.gene59184:CDS 60.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 68405497 68406150 68405497 ID=MS.gene59184
chr1.3 mRNA 68405497 68406150 68405497 ID=MS.gene59184.t1;Parent=MS.gene59184
chr1.3 exon 68405497 68405619 68405497 ID=MS.gene59184.t1.exon1;Parent=MS.gene59184.t1
chr1.3 CDS 68405497 68405619 68405497 ID=cds.MS.gene59184.t1;Parent=MS.gene59184.t1
chr1.3 exon 68405716 68406150 68405716 ID=MS.gene59184.t1.exon2;Parent=MS.gene59184.t1
chr1.3 CDS 68405716 68406150 68405716 ID=cds.MS.gene59184.t1;Parent=MS.gene59184.t1
Gene Sequence

>MS.gene59184

ATGGTTGCACAAAGTTTAGTAGCGAAATTCAAACTTGTCAAAGCAAAGGCATCAAAGTGTTGCTATCTCTCGGAGGTGGTGCCCGGAAGCTACTCTCTTTCCTCAGCTGATGATGCCACACAGGTTGCAAATTACCTATGGAACAATTCTTGGGTGGCACGTCATCTTCAAGACCATTAGGTGATGCTGTTTTGGATGGAATTGATTTTGATATTGAAGCTGGTGGTGGAACACTATGATGACCTTGCAAAAGCACTTAATGGTTTTAGTTCACAAAGGAGAGTTTACTTGTCTGCAGCACCTCAATGTCCTTACCCTGATGCTCATTTGGATTCAGCTATTAATACTGGTTTATTTGATTATGTGTGGGTTCAGTTTTATAATAATCCTCAGTGCCAATACTCAAGTGGAAACACTAACAATCTTGTTAATGCTTGGAATCAATGGACTTCAAGTCAAGCTAAACAAGTGTTTTTAGGTGTACCTGCTAATGATGCTGCTGCTCCAAGTGGTGGTTTTATTCCTGCCGATGTTTTGAACTCTCAGGTTCTTCCTGCTATCAAGGGTTCTGCTAAATATGGTGGTGTTATGATTTGGGATAGATTCAATGATGGACAAAGTGGATATAGTAATGCTATCAAGGGCAGTGTTTAA
Protein sequence

>MS.gene59184.t1

MVAQSLVAKFKLVKAKASKCCYLSEVVPGSYSLSSADDATQLVVEHYDDLAKALNGFSSQRRVYLSAAPQCPYPDAHLDSAINTGLFDYVWVQFYNNPQCQYSSGNTNNLVNAWNQWTSSQAKQVFLGVPANDAAAPSGGFIPADVLNSQVLPAIKGSAKYGGVMIWDRFNDGQSGYSNAIKGSV