AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene05221

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05221.t1 MTR_6g078070 96.196 184 7 0 1 184 1 184 1.51e-131 367
MS.gene05221.t1 MTR_6g078100 80.645 186 32 2 1 183 1 185 1.23e-103 296
MS.gene05221.t1 MTR_6g078290 47.126 174 79 5 21 184 25 195 7.98e-42 140
MS.gene05221.t1 MTR_7g037410 41.317 167 86 5 23 184 26 185 5.72e-34 119
MS.gene05221.t1 MTR_6g078040 66.292 89 25 3 93 177 1 88 4.44e-32 111
MS.gene05221.t1 MTR_6g078120 39.655 174 92 5 21 184 26 196 5.52e-31 112
MS.gene05221.t1 MTR_6g078140 39.080 174 93 5 21 184 26 196 1.17e-29 108
MS.gene05221.t1 MTR_6g078280 37.427 171 90 5 21 179 25 190 3.49e-28 105
MS.gene05221.t1 MTR_6g078250 37.500 168 93 7 24 184 25 187 5.80e-25 96.3
MS.gene05221.t1 MTR_6g078260 35.484 155 89 5 26 178 31 176 1.31e-22 90.1
MS.gene05221.t1 MTR_6g065460 35.326 184 106 7 1 174 1 181 2.99e-21 86.7
MS.gene05221.t1 MTR_3g106585 32.979 188 100 8 5 183 6 176 3.11e-19 81.6
MS.gene05221.t1 MTR_2g073010 33.333 183 96 9 1 173 1 167 9.84e-19 80.1
MS.gene05221.t1 MTR_2g072980 32.632 190 114 8 1 182 6 189 1.72e-18 79.3
MS.gene05221.t1 MTR_0100s0150 31.937 191 113 8 4 184 2 185 4.36e-18 78.2
MS.gene05221.t1 MTR_0302s0030 31.383 188 113 8 4 181 2 183 7.91e-18 77.8
MS.gene05221.t1 MTR_3g106620 33.333 168 90 8 23 183 26 178 2.17e-17 76.6
MS.gene05221.t1 MTR_3g463590 32.414 145 95 2 18 162 21 162 5.09e-16 73.2
MS.gene05221.t1 MTR_0084s0030 29.412 187 118 7 4 181 2 183 1.43e-15 71.6
MS.gene05221.t1 MTR_7g108815 29.282 181 110 8 7 177 5 177 2.52e-15 70.9
MS.gene05221.t1 MTR_6g059530 31.720 186 115 6 1 183 1 177 3.48e-15 70.9
MS.gene05221.t1 MTR_3g014870 30.108 186 116 6 4 181 5 184 3.48e-15 70.9
MS.gene05221.t1 MTR_8g461050 32.044 181 107 9 7 177 5 179 5.93e-15 70.1
MS.gene05221.t1 MTR_6g059410 31.720 186 114 7 1 183 1 176 1.55e-14 68.9
MS.gene05221.t1 MTR_6g059730 32.979 188 111 6 4 182 3 184 1.63e-14 69.3
MS.gene05221.t1 MTR_6g059650 30.952 168 109 5 20 184 22 185 4.68e-14 67.8
MS.gene05221.t1 MTR_6g059680 33.133 166 106 4 22 184 28 191 1.50e-13 66.6
MS.gene05221.t1 MTR_6g066210 30.000 180 113 6 5 175 4 179 2.04e-12 63.5
MS.gene05221.t1 MTR_6g009650 32.727 165 98 7 5 161 4 163 2.54e-11 60.5
MS.gene05221.t1 MTR_6g009563 33.735 166 96 8 5 161 4 164 3.23e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05221.t1 AT1G17860 47.027 185 82 5 3 181 2 176 4.10e-49 158
MS.gene05221.t1 AT1G73260 34.783 161 99 4 26 183 30 187 1.98e-23 92.8
MS.gene05221.t1 AT1G73325 31.522 184 113 5 4 183 10 184 3.64e-19 81.6

Find 34 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACACCTTGTTTAGCATTATA+AGG 0.259304 6.2:+77582038 None:intergenic
GTATGGCAACTGTTGGTAAT+TGG 0.271386 6.2:-77581878 MS.gene05221:CDS
GCTTCTCTTGAACAACATAA+AGG 0.342977 6.2:+77582096 None:intergenic
CAAACTTTGTGTAGGGAACT+AGG 0.366708 6.2:-77581789 MS.gene05221:CDS
CTTCTCTTGAACAACATAAA+GGG 0.369437 6.2:+77582097 None:intergenic
AGGGTTGTTTGTTGATGATA+AGG 0.370874 6.2:-77581769 MS.gene05221:CDS
AATGTCCTCAAACACAAGTT+TGG 0.377880 6.2:-77581965 MS.gene05221:CDS
TTACCAACAGTTGCCATACT+TGG 0.386300 6.2:+77581882 None:intergenic
AGCTTCCAAACTTGTGTTTG+AGG 0.408512 6.2:+77581960 None:intergenic
GGGTTGTTTGTTGATGATAA+GGG 0.441383 6.2:-77581768 MS.gene05221:CDS
TGTAGAAGGTAATCCAAGTA+TGG 0.452203 6.2:-77581895 MS.gene05221:CDS
GATATGTCAAGAACTGGTTC+AGG 0.463395 6.2:+77582227 None:intergenic
GAACCAGTTCTTGACATATC+AGG 0.472479 6.2:-77582224 MS.gene05221:CDS
TTGCCTGATATGTCAAGAAC+TGG 0.485875 6.2:+77582221 None:intergenic
TGACATTTGCAAGCTTCAGC+AGG 0.493041 6.2:+77581810 None:intergenic
AAGCTTCTTAAAGAGTTGAC+AGG 0.493248 6.2:-77581942 MS.gene05221:CDS
GCAAATGTCAAACTTTGTGT+AGG 0.501531 6.2:-77581797 MS.gene05221:CDS
CAACATAAAGGGGACATGTT+CGG 0.509390 6.2:+77582108 None:intergenic
CAAATGTCAAACTTTGTGTA+GGG 0.511038 6.2:-77581796 MS.gene05221:CDS
TTACCAGTCATAAGAGGTAA+AGG 0.515215 6.2:-77582167 MS.gene05221:CDS
GTCATAAGAGGTAAAGGTGG+TGG 0.517838 6.2:-77582161 MS.gene05221:CDS
TCAGGCAAACAAGTAACAAC+CGG 0.524378 6.2:-77582206 MS.gene05221:CDS
TTAAAGAGTTGACAGGGGTG+TGG 0.531517 6.2:-77581935 MS.gene05221:CDS
GAGAAGCTTGAAGTAAAGAA+TGG 0.531990 6.2:-77582080 MS.gene05221:CDS
AAACTTTGTGTAGGGAACTA+GGG 0.532296 6.2:-77581788 MS.gene05221:CDS
AGCTTCTTAAAGAGTTGACA+GGG 0.566536 6.2:-77581941 MS.gene05221:CDS
CCACCTTTACCTCTTATGAC+TGG 0.570896 6.2:+77582164 None:intergenic
TTCTCTTGAACAACATAAAG+GGG 0.573118 6.2:+77582098 None:intergenic
AATCCAAGTATGGCAACTGT+TGG 0.585675 6.2:-77581885 MS.gene05221:CDS
GATGGAAAATGATAAGAGTG+AGG 0.607963 6.2:+77582286 None:intergenic
ACACCTTATAATGCTAAACA+AGG 0.651507 6.2:-77582041 MS.gene05221:CDS
CCAGTCATAAGAGGTAAAGG+TGG 0.660270 6.2:-77582164 MS.gene05221:CDS
GGATTAACAGTTGCAAACCA+TGG 0.703630 6.2:-77582140 MS.gene05221:CDS
GCTTCTTAAAGAGTTGACAG+GGG 0.746376 6.2:-77581940 MS.gene05221:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAAAATATAGTATTTTACAC+CGG + chr6.2:77581870-77581889 None:intergenic 15.0%
!!! ACATTTAGTTTTTGTTACAA+AGG + chr6.2:77582074-77582093 None:intergenic 20.0%
!! TATATTTTACCAGTCATAAG+AGG - chr6.2:77581881-77581900 MS.gene05221:CDS 25.0%
AACGAAGGCTAAAAAAATGA+TGG + chr6.2:77581789-77581808 None:intergenic 30.0%
ACACCTTATAATGCTAAACA+AGG - chr6.2:77582013-77582032 MS.gene05221:CDS 30.0%
CAAATGTCAAACTTTGTGTA+GGG - chr6.2:77582258-77582277 MS.gene05221:CDS 30.0%
CTTCTCTTGAACAACATAAA+GGG + chr6.2:77581960-77581979 None:intergenic 30.0%
TTCTCTTGAACAACATAAAG+GGG + chr6.2:77581959-77581978 None:intergenic 30.0%
! ACACCTTGTTTAGCATTATA+AGG + chr6.2:77582019-77582038 None:intergenic 30.0%
AAACTTTGTGTAGGGAACTA+GGG - chr6.2:77582266-77582285 MS.gene05221:CDS 35.0%
AAGCTTCTTAAAGAGTTGAC+AGG - chr6.2:77582112-77582131 MS.gene05221:CDS 35.0%
AATGTCCTCAAACACAAGTT+TGG - chr6.2:77582089-77582108 MS.gene05221:CDS 35.0%
AGCTTCTTAAAGAGTTGACA+GGG - chr6.2:77582113-77582132 MS.gene05221:CDS 35.0%
GAGAAGCTTGAAGTAAAGAA+TGG - chr6.2:77581974-77581993 MS.gene05221:CDS 35.0%
GATGGAAAATGATAAGAGTG+AGG + chr6.2:77581771-77581790 None:intergenic 35.0%
GCAAATGTCAAACTTTGTGT+AGG - chr6.2:77582257-77582276 MS.gene05221:CDS 35.0%
GCTTCTCTTGAACAACATAA+AGG + chr6.2:77581961-77581980 None:intergenic 35.0%
TGTAGAAGGTAATCCAAGTA+TGG - chr6.2:77582159-77582178 MS.gene05221:CDS 35.0%
TTACCAGTCATAAGAGGTAA+AGG - chr6.2:77581887-77581906 MS.gene05221:CDS 35.0%
!! AGGGTTGTTTGTTGATGATA+AGG - chr6.2:77582285-77582304 MS.gene05221:CDS 35.0%
!! GGGTTGTTTGTTGATGATAA+GGG - chr6.2:77582286-77582305 MS.gene05221:CDS 35.0%
!! TGCAATAGTTTTGCAAACGA+AGG + chr6.2:77581804-77581823 None:intergenic 35.0%
AATCCAAGTATGGCAACTGT+TGG - chr6.2:77582169-77582188 MS.gene05221:CDS 40.0%
AGCTTCCAAACTTGTGTTTG+AGG + chr6.2:77582097-77582116 None:intergenic 40.0%
CAAACTTTGTGTAGGGAACT+AGG - chr6.2:77582265-77582284 MS.gene05221:CDS 40.0%
CAACATAAAGGGGACATGTT+CGG + chr6.2:77581949-77581968 None:intergenic 40.0%
GAACCAGTTCTTGACATATC+AGG - chr6.2:77581830-77581849 MS.gene05221:CDS 40.0%
GCTTCTTAAAGAGTTGACAG+GGG - chr6.2:77582114-77582133 MS.gene05221:CDS 40.0%
GGATTAACAGTTGCAAACCA+TGG - chr6.2:77581914-77581933 MS.gene05221:CDS 40.0%
TCAGGCAAACAAGTAACAAC+CGG - chr6.2:77581848-77581867 MS.gene05221:CDS 40.0%
TTACCAACAGTTGCCATACT+TGG + chr6.2:77582175-77582194 None:intergenic 40.0%
TTGCCTGATATGTCAAGAAC+TGG + chr6.2:77581836-77581855 None:intergenic 40.0%
! GATATGTCAAGAACTGGTTC+AGG + chr6.2:77581830-77581849 None:intergenic 40.0%
!! ATGTTCGGTTGTTTTCACCA+TGG + chr6.2:77581934-77581953 None:intergenic 40.0%
!! GTATGGCAACTGTTGGTAAT+TGG - chr6.2:77582176-77582195 MS.gene05221:CDS 40.0%
CCACCTTTACCTCTTATGAC+TGG + chr6.2:77581893-77581912 None:intergenic 45.0%
CCAGTCATAAGAGGTAAAGG+TGG - chr6.2:77581890-77581909 MS.gene05221:CDS 45.0%
GTCATAAGAGGTAAAGGTGG+TGG - chr6.2:77581893-77581912 MS.gene05221:CDS 45.0%
TGACATTTGCAAGCTTCAGC+AGG + chr6.2:77582247-77582266 None:intergenic 45.0%
TTAAAGAGTTGACAGGGGTG+TGG - chr6.2:77582119-77582138 MS.gene05221:CDS 45.0%
!!! GGGTGTGGTTTTTAGCTACA+GGG - chr6.2:77582134-77582153 MS.gene05221:CDS 45.0%
!!! GGTGTGGTTTTTAGCTACAG+GGG - chr6.2:77582135-77582154 MS.gene05221:CDS 45.0%
!!! GTGTGGTTTTTAGCTACAGG+GGG - chr6.2:77582136-77582155 MS.gene05221:CDS 45.0%
! TTAGCTACAGGGGGTGTAGA+AGG - chr6.2:77582145-77582164 MS.gene05221:CDS 50.0%
!!! GGGGTGTGGTTTTTAGCTAC+AGG - chr6.2:77582133-77582152 MS.gene05221:CDS 50.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 77581761 77582315 77581761 ID=MS.gene05221
chr6.2 mRNA 77581761 77582315 77581761 ID=MS.gene05221.t1;Parent=MS.gene05221
chr6.2 exon 77581761 77582315 77581761 ID=MS.gene05221.t1.exon1;Parent=MS.gene05221.t1
chr6.2 CDS 77581761 77582315 77581761 ID=cds.MS.gene05221.t1;Parent=MS.gene05221.t1
Gene Sequence

>MS.gene05221

ATGAAAACCTCACTCTTATCATTTTCCATCATTTTTTTAGCCTTCGTTTGCAAAACTATTGCAGCACCTGAACCAGTTCTTGACATATCAGGCAAACAAGTAACAACCGGTGTAAAATACTATATTTTACCAGTCATAAGAGGTAAAGGTGGTGGATTAACAGTTGCAAACCATGGTGAAAACAACCGAACATGTCCCCTTTATGTTGTTCAAGAGAAGCTTGAAGTAAAGAATGGTGAAGCAGTTACTTTCACACCTTATAATGCTAAACAAGGTGTGATTCTAACTTCTACTGATCTCAATATTAAGTCCTTTGTAACAAAAACTAAATGTCCTCAAACACAAGTTTGGAAGCTTCTTAAAGAGTTGACAGGGGTGTGGTTTTTAGCTACAGGGGGTGTAGAAGGTAATCCAAGTATGGCAACTGTTGGTAATTGGTTTAAAATTGAGAAAGCTGATAAAGATTATGTGCTTTCTTTCTGTCCTGCTGAAGCTTGCAAATGTCAAACTTTGTGTAGGGAACTAGGGTTGTTTGTTGATGATAAGGGAAACTAG
Protein sequence

>MS.gene05221.t1

MKTSLLSFSIIFLAFVCKTIAAPEPVLDISGKQVTTGVKYYILPVIRGKGGGLTVANHGENNRTCPLYVVQEKLEVKNGEAVTFTPYNAKQGVILTSTDLNIKSFVTKTKCPQTQVWKLLKELTGVWFLATGGVEGNPSMATVGNWFKIEKADKDYVLSFCPAEACKCQTLCRELGLFVDDKGN