AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene05234


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05234.t1 MTR_6g078290 94.836 213 11 0 1 213 1 213 7.10e-151 417
MS.gene05234.t1 MTR_6g078120 57.789 199 82 2 15 212 16 213 2.07e-74 224
MS.gene05234.t1 MTR_6g078140 58.291 199 81 2 15 212 16 213 3.61e-74 223
MS.gene05234.t1 MTR_6g078280 53.266 199 83 6 17 210 17 210 3.61e-63 195
MS.gene05234.t1 MTR_6g078250 49.763 211 94 5 1 209 1 201 1.10e-59 186
MS.gene05234.t1 MTR_7g037410 47.644 191 87 4 22 210 21 200 2.67e-54 172
MS.gene05234.t1 MTR_6g078260 42.929 198 95 5 15 210 16 197 1.02e-47 155
MS.gene05234.t1 MTR_6g078100 42.922 219 100 10 1 210 1 203 3.26e-46 152
MS.gene05234.t1 MTR_6g078070 41.860 215 106 8 1 210 1 201 2.22e-44 147
MS.gene05234.t1 MTR_3g106585 32.420 219 113 10 4 213 6 198 3.40e-21 87.8
MS.gene05234.t1 MTR_2g073010 32.683 205 107 8 1 200 8 186 4.86e-21 87.0
MS.gene05234.t1 MTR_6g065460 32.864 213 127 7 1 209 1 201 1.03e-20 86.3
MS.gene05234.t1 MTR_3g014870 32.569 218 114 10 3 210 7 201 3.15e-20 84.7
MS.gene05234.t1 MTR_0100s0150 33.333 207 116 8 11 210 8 199 4.06e-20 84.7
MS.gene05234.t1 MTR_3g014820 34.211 190 101 8 30 210 27 201 1.17e-19 83.6
MS.gene05234.t1 MTR_0211s0080 33.173 208 112 9 11 210 8 196 1.62e-19 82.8
MS.gene05234.t1 MTR_3g106620 28.182 220 125 8 3 213 5 200 3.06e-19 82.4
MS.gene05234.t1 MTR_0084s0030 32.093 215 118 9 3 210 7 200 1.17e-18 80.9
MS.gene05234.t1 MTR_8g059790 35.638 188 100 9 30 210 29 202 2.85e-18 79.7
MS.gene05234.t1 MTR_0302s0030 31.884 207 120 7 11 210 8 200 4.96e-18 79.0
MS.gene05234.t1 MTR_8g461050 29.952 207 124 7 11 210 8 200 1.57e-17 77.8
MS.gene05234.t1 MTR_8g060550 30.622 209 118 9 11 210 8 198 2.32e-16 74.7
MS.gene05234.t1 MTR_8g461690 30.622 209 118 9 11 210 8 198 2.32e-16 74.7
MS.gene05234.t1 MTR_7g108815 32.778 180 98 10 28 200 25 188 8.19e-15 70.5
MS.gene05234.t1 MTR_6g078040 49.351 77 35 3 103 177 1 75 1.54e-14 67.0
MS.gene05234.t1 MTR_6g059650 30.303 198 112 8 25 213 23 203 5.67e-14 68.2
MS.gene05234.t1 MTR_2g072980 31.863 204 117 8 1 202 5 188 3.50e-12 63.2
MS.gene05234.t1 MTR_6g059410 30.556 216 118 9 1 209 1 191 6.91e-12 62.4
MS.gene05234.t1 MTR_6g017225 28.402 169 103 4 5 172 11 162 9.86e-12 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05234.t1 AT1G17860 45.933 209 91 7 4 210 5 193 4.20e-50 161
MS.gene05234.t1 AT1G73260 36.416 173 96 6 44 212 43 205 4.58e-23 92.8
MS.gene05234.t1 AT1G73325 31.651 218 117 10 5 212 8 203 4.10e-17 77.0

Find 71 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCCTAATAACACCTTTCTT+AGG 0.178129 6.2:-77795126 None:intergenic
AATCTTGACATGATGTATTA+AGG 0.223838 6.2:-77795176 None:intergenic
GCAGGAATGTTGGGGTCTTT+AGG 0.226794 6.2:+77795379 MS.gene05234:CDS
CAGGAATGTTGGGGTCTTTA+GGG 0.264531 6.2:+77795380 MS.gene05234:CDS
ACCCTAAGAAAGGTGTTATT+AGG 0.266748 6.2:+77795124 MS.gene05234:CDS
TAATATGTATATTGATTTCA+TGG 0.281019 6.2:-77794830 None:intergenic
CCCTAAGAAAGGTGTTATTA+GGG 0.319854 6.2:+77795125 MS.gene05234:CDS
GTCACTACCGGTGGGGTTCT+TGG 0.322883 6.2:+77795249 MS.gene05234:CDS
GACCGTCACATGGGGTTGTT+GGG 0.328174 6.2:-77794978 None:intergenic
ACACCTTTCTTAGGGTTAAC+AGG 0.334323 6.2:-77795117 None:intergenic
CTCAATGTTGTTGTGGTTGA+GGG 0.359220 6.2:+77795066 MS.gene05234:CDS
ATTGTCAACGGTGTCCTTGC+CGG 0.371760 6.2:-77795277 None:intergenic
CTGATGTGCCATACAAAGTT+AGG 0.386416 6.2:+77795433 MS.gene05234:CDS
AGCTTCTCCGAGCAAGGGTT+GGG 0.386871 6.2:-77794878 None:intergenic
GGTTGACACAAAAGGCAAAA+AGG 0.391711 6.2:+77794921 MS.gene05234:CDS
CATGTCAAGATTCGACGATA+TGG 0.398267 6.2:+77795187 MS.gene05234:CDS
CGACCGTCACATGGGGTTGT+TGG 0.401200 6.2:-77794979 None:intergenic
AGGTCATGTGCAGGAATGTT+GGG 0.410673 6.2:+77795370 MS.gene05234:CDS
ATCTTGACATGATGTATTAA+GGG 0.411850 6.2:-77795175 None:intergenic
CCCTAATAACACCTTTCTTA+GGG 0.414565 6.2:-77795125 None:intergenic
GGTCGTGGGCCTTGTGTTGT+TGG 0.417036 6.2:+77794997 MS.gene05234:CDS
TTTGTGTCAACCACTTGCTC+AGG 0.429530 6.2:-77794910 None:intergenic
ACTCAATGTTGTTGTGGTTG+AGG 0.433155 6.2:+77795065 MS.gene05234:CDS
GCAAGGACACCGTTGACAAT+TGG 0.438091 6.2:+77795280 MS.gene05234:CDS
TTGTCAACGGTGTCCTTGCC+GGG 0.438512 6.2:-77795276 None:intergenic
GGGTCTTTAGGGATAGTAAT+GGG 0.453756 6.2:+77795391 MS.gene05234:CDS
GGTTGGAACCTAACTTTGTA+TGG 0.454358 6.2:-77795441 None:intergenic
CAGCTTCTCCGAGCAAGGGT+TGG 0.454758 6.2:-77794879 None:intergenic
GGGCCTTGTGTTGTTGGTAG+TGG 0.482437 6.2:+77795003 MS.gene05234:CDS
ACAACCCCATGTGACGGTCG+TGG 0.487075 6.2:+77794982 MS.gene05234:CDS
TTGTCCACCCAACCCTTGCT+CGG 0.489235 6.2:+77794871 MS.gene05234:CDS
TCACATGGGGTTGTTGGGAC+TGG 0.490110 6.2:-77794973 None:intergenic
ACACCTGTTAACCCTAAGAA+AGG 0.504784 6.2:+77795114 MS.gene05234:CDS
TTGAGTGGACATGTCTCGTT+TGG 0.518641 6.2:-77795048 None:intergenic
GAGCAAGTGGTTGACACAAA+AGG 0.520071 6.2:+77794913 MS.gene05234:CDS
AAATACTTCAAGCAGATGGT+TGG 0.522101 6.2:-77795458 None:intergenic
AGCGTCAGCTTCTCCGAGCA+AGG 0.525965 6.2:-77794884 None:intergenic
TTGAAAATACTTCAAGCAGA+TGG 0.530226 6.2:-77795462 None:intergenic
CAAGGCCCACGACCGTCACA+TGG 0.530644 6.2:-77794988 None:intergenic
GAGCAAGGGTTGGGTGGACA+AGG 0.544353 6.2:-77794869 None:intergenic
AAGGTCATGTGCAGGAATGT+TGG 0.544552 6.2:+77795369 MS.gene05234:CDS
ATGGGGTTGTTGGGACTGGT+CGG 0.548036 6.2:-77794969 None:intergenic
CAACCCCATGTGACGGTCGT+GGG 0.550816 6.2:+77794983 MS.gene05234:CDS
GGTGGGGTTCTTGGAAATCC+CGG 0.552765 6.2:+77795258 MS.gene05234:CDS
TTGATTCCTCATCTGGACAA+TGG 0.554639 6.2:+77795223 MS.gene05234:CDS
CAATGGTTTGTCACTACCGG+TGG 0.561342 6.2:+77795240 MS.gene05234:CDS
AATGGTTTGTCACTACCGGT+GGG 0.564160 6.2:+77795241 MS.gene05234:CDS
GGACAATGGTTTGTCACTAC+CGG 0.566652 6.2:+77795237 MS.gene05234:CDS
AAGGCCCACGACCGTCACAT+GGG 0.567219 6.2:-77794987 None:intergenic
TGACGCTTCACCTGAGCAAG+TGG 0.575987 6.2:+77794900 MS.gene05234:CDS
AATCTTGAACCAATTGTCAA+CGG 0.580218 6.2:-77795289 None:intergenic
TGTCTTAATGTTGAGATCAG+TGG 0.582629 6.2:-77795151 None:intergenic
GGGGTCTTTAGGGATAGTAA+TGG 0.589720 6.2:+77795390 MS.gene05234:CDS
TTCTCCGAGCAAGGGTTGGG+TGG 0.598373 6.2:-77794875 None:intergenic
GTCCCAACAACCCCATGTGA+CGG 0.605160 6.2:+77794976 MS.gene05234:CDS
AAACCACTACCAACAACACA+AGG 0.606805 6.2:-77795006 None:intergenic
ATGTCCACTCAATGTTGTTG+TGG 0.608157 6.2:+77795059 MS.gene05234:CDS
GACAAACCATTGTCCAGATG+AGG 0.609229 6.2:-77795229 None:intergenic
TGCAGAAATCACATACCGTA+GGG 0.614159 6.2:-77795347 None:intergenic
GCGTCAGCTTCTCCGAGCAA+GGG 0.616662 6.2:-77794883 None:intergenic
TCAACCACAACAACATTGAG+TGG 0.618826 6.2:-77795063 None:intergenic
GGTCATGTGCAGGAATGTTG+GGG 0.620344 6.2:+77795371 MS.gene05234:CDS
ATTTCTGCAAGGTCATGTGC+AGG 0.628252 6.2:+77795361 MS.gene05234:CDS
TTGCAGAAATCACATACCGT+AGG 0.628538 6.2:-77795348 None:intergenic
TACGGTATGTGATTTCTGCA+AGG 0.630885 6.2:+77795350 MS.gene05234:CDS
GGGATTTCCAAGAACCCCAC+CGG 0.635438 6.2:-77795256 None:intergenic
AGGCCCACGACCGTCACATG+GGG 0.644940 6.2:-77794986 None:intergenic
TAGTAATGGGAACCAGCGTG+TGG 0.674297 6.2:+77795404 MS.gene05234:CDS
ATGGTTTGTCACTACCGGTG+GGG 0.675340 6.2:+77795242 MS.gene05234:CDS
CATCAGTGAGAGCCACACGC+TGG 0.681901 6.2:-77795416 None:intergenic
GGTTCTTGGAAATCCCGGCA+AGG 0.687124 6.2:+77795263 MS.gene05234:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATCTTGACATGATGTATTA+AGG - chr6.2:77795179-77795198 None:intergenic 25.0%
! ATCTTGACATGATGTATTAA+GGG - chr6.2:77795178-77795197 None:intergenic 25.0%
AATCTTGAACCAATTGTCAA+CGG - chr6.2:77795292-77795311 None:intergenic 30.0%
ACACAAAAGGCAAAAAGGTT+CGG + chr6.2:77794926-77794945 MS.gene05234:CDS 35.0%
ACCCTAATAACACCTTTCTT+AGG - chr6.2:77795129-77795148 None:intergenic 35.0%
CCCTAATAACACCTTTCTTA+GGG - chr6.2:77795128-77795147 None:intergenic 35.0%
TGTCTTAATGTTGAGATCAG+TGG - chr6.2:77795154-77795173 None:intergenic 35.0%
!! ACCCTAAGAAAGGTGTTATT+AGG + chr6.2:77795124-77795143 MS.gene05234:CDS 35.0%
!! CCCTAAGAAAGGTGTTATTA+GGG + chr6.2:77795125-77795144 MS.gene05234:CDS 35.0%
!!! GATGATTTTGATTCCTCATC+TGG + chr6.2:77795216-77795235 MS.gene05234:CDS 35.0%
AAACCACTACCAACAACACA+AGG - chr6.2:77795009-77795028 None:intergenic 40.0%
ACACCTGTTAACCCTAAGAA+AGG + chr6.2:77795114-77795133 MS.gene05234:CDS 40.0%
ACACCTTTCTTAGGGTTAAC+AGG - chr6.2:77795120-77795139 None:intergenic 40.0%
ACTCAATGTTGTTGTGGTTG+AGG + chr6.2:77795065-77795084 MS.gene05234:CDS 40.0%
ATGTCCACTCAATGTTGTTG+TGG + chr6.2:77795059-77795078 MS.gene05234:CDS 40.0%
CACAAAAGGCAAAAAGGTTC+GGG + chr6.2:77794927-77794946 MS.gene05234:CDS 40.0%
CATGTCAAGATTCGACGATA+TGG + chr6.2:77795187-77795206 MS.gene05234:CDS 40.0%
CTCAATGTTGTTGTGGTTGA+GGG + chr6.2:77795066-77795085 MS.gene05234:CDS 40.0%
CTGATGTGCCATACAAAGTT+AGG + chr6.2:77795433-77795452 MS.gene05234:CDS 40.0%
GGTTGACACAAAAGGCAAAA+AGG + chr6.2:77794921-77794940 MS.gene05234:CDS 40.0%
GGTTGGAACCTAACTTTGTA+TGG - chr6.2:77795444-77795463 None:intergenic 40.0%
TACGGTATGTGATTTCTGCA+AGG + chr6.2:77795350-77795369 MS.gene05234:CDS 40.0%
TCAACCACAACAACATTGAG+TGG - chr6.2:77795066-77795085 None:intergenic 40.0%
TGCAGAAATCACATACCGTA+GGG - chr6.2:77795350-77795369 None:intergenic 40.0%
TTGATTCCTCATCTGGACAA+TGG + chr6.2:77795223-77795242 MS.gene05234:CDS 40.0%
TTGCAGAAATCACATACCGT+AGG - chr6.2:77795351-77795370 None:intergenic 40.0%
! GGGTCTTTAGGGATAGTAAT+GGG + chr6.2:77795391-77795410 MS.gene05234:CDS 40.0%
! TAAGCTTGTGTTTTGCCCTA+CGG + chr6.2:77795332-77795351 MS.gene05234:CDS 40.0%
AAGGTCATGTGCAGGAATGT+TGG + chr6.2:77795369-77795388 MS.gene05234:CDS 45.0%
AGGTCATGTGCAGGAATGTT+GGG + chr6.2:77795370-77795389 MS.gene05234:CDS 45.0%
ATTTCTGCAAGGTCATGTGC+AGG + chr6.2:77795361-77795380 MS.gene05234:CDS 45.0%
CAGGAATGTTGGGGTCTTTA+GGG + chr6.2:77795380-77795399 MS.gene05234:CDS 45.0%
GACAAACCATTGTCCAGATG+AGG - chr6.2:77795232-77795251 None:intergenic 45.0%
GAGCAAGTGGTTGACACAAA+AGG + chr6.2:77794913-77794932 MS.gene05234:CDS 45.0%
TTGAGTGGACATGTCTCGTT+TGG - chr6.2:77795051-77795070 None:intergenic 45.0%
TTTGTGTCAACCACTTGCTC+AGG - chr6.2:77794913-77794932 None:intergenic 45.0%
! AATGGTTTGTCACTACCGGT+GGG + chr6.2:77795241-77795260 MS.gene05234:CDS 45.0%
! GGACAATGGTTTGTCACTAC+CGG + chr6.2:77795237-77795256 MS.gene05234:CDS 45.0%
! GGGGTCTTTAGGGATAGTAA+TGG + chr6.2:77795390-77795409 MS.gene05234:CDS 45.0%
AAAGGCAAAAAGGTTCGGGC+TGG + chr6.2:77794931-77794950 MS.gene05234:CDS 50.0%
ATTGTCAACGGTGTCCTTGC+CGG - chr6.2:77795280-77795299 None:intergenic 50.0%
GCAAGGACACCGTTGACAAT+TGG + chr6.2:77795280-77795299 MS.gene05234:CDS 50.0%
GCAGGAATGTTGGGGTCTTT+AGG + chr6.2:77795379-77795398 MS.gene05234:CDS 50.0%
GGTCATGTGCAGGAATGTTG+GGG + chr6.2:77795371-77795390 MS.gene05234:CDS 50.0%
! ATGGTTTGTCACTACCGGTG+GGG + chr6.2:77795242-77795261 MS.gene05234:CDS 50.0%
! CAATGGTTTGTCACTACCGG+TGG + chr6.2:77795240-77795259 MS.gene05234:CDS 50.0%
! GTTGAGGGTTTTCGTGGTCA+AGG + chr6.2:77795081-77795100 MS.gene05234:CDS 50.0%
! GTTGTGGTTGAGGGTTTTCG+TGG + chr6.2:77795075-77795094 MS.gene05234:CDS 50.0%
! TAGTAATGGGAACCAGCGTG+TGG + chr6.2:77795404-77795423 MS.gene05234:CDS 50.0%
AGCTTCTCCGAGCAAGGGTT+GGG - chr6.2:77794881-77794900 None:intergenic 55.0%
GACCGTCACATGGGGTTGTT+GGG - chr6.2:77794981-77795000 None:intergenic 55.0%
GGGATTTCCAAGAACCCCAC+CGG - chr6.2:77795259-77795278 None:intergenic 55.0%
GGTGGGGTTCTTGGAAATCC+CGG + chr6.2:77795258-77795277 MS.gene05234:CDS 55.0%
GGTTCTTGGAAATCCCGGCA+AGG + chr6.2:77795263-77795282 MS.gene05234:CDS 55.0%
GTCCCAACAACCCCATGTGA+CGG + chr6.2:77794976-77794995 MS.gene05234:CDS 55.0%
TCACATGGGGTTGTTGGGAC+TGG - chr6.2:77794976-77794995 None:intergenic 55.0%
TGACGCTTCACCTGAGCAAG+TGG + chr6.2:77794900-77794919 MS.gene05234:CDS 55.0%
TTGTCAACGGTGTCCTTGCC+GGG - chr6.2:77795279-77795298 None:intergenic 55.0%
TTGTCCACCCAACCCTTGCT+CGG + chr6.2:77794871-77794890 MS.gene05234:CDS 55.0%
! ATGGGGTTGTTGGGACTGGT+CGG - chr6.2:77794972-77794991 None:intergenic 55.0%
! GGGCCTTGTGTTGTTGGTAG+TGG + chr6.2:77795003-77795022 MS.gene05234:CDS 55.0%
AAGGCCCACGACCGTCACAT+GGG - chr6.2:77794990-77795009 None:intergenic 60.0%
ACAACCCCATGTGACGGTCG+TGG + chr6.2:77794982-77795001 MS.gene05234:CDS 60.0%
AGCGTCAGCTTCTCCGAGCA+AGG - chr6.2:77794887-77794906 None:intergenic 60.0%
CAACCCCATGTGACGGTCGT+GGG + chr6.2:77794983-77795002 MS.gene05234:CDS 60.0%
CAGCTTCTCCGAGCAAGGGT+TGG - chr6.2:77794882-77794901 None:intergenic 60.0%
CATCAGTGAGAGCCACACGC+TGG - chr6.2:77795419-77795438 None:intergenic 60.0%
CGACCGTCACATGGGGTTGT+TGG - chr6.2:77794982-77795001 None:intergenic 60.0%
GAGCAAGGGTTGGGTGGACA+AGG - chr6.2:77794872-77794891 None:intergenic 60.0%
GCGTCAGCTTCTCCGAGCAA+GGG - chr6.2:77794886-77794905 None:intergenic 60.0%
GTCACTACCGGTGGGGTTCT+TGG + chr6.2:77795249-77795268 MS.gene05234:CDS 60.0%
TTCTCCGAGCAAGGGTTGGG+TGG - chr6.2:77794878-77794897 None:intergenic 60.0%
! GGTCGTGGGCCTTGTGTTGT+TGG + chr6.2:77794997-77795016 MS.gene05234:CDS 60.0%
AGGCCCACGACCGTCACATG+GGG - chr6.2:77794989-77795008 None:intergenic 65.0%
CAAGGCCCACGACCGTCACA+TGG - chr6.2:77794991-77795010 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 77794832 77795473 77794832 ID=MS.gene05234
chr6.2 mRNA 77794832 77795473 77794832 ID=MS.gene05234.t1;Parent=MS.gene05234
chr6.2 exon 77794832 77795473 77794832 ID=MS.gene05234.t1.exon1;Parent=MS.gene05234.t1
chr6.2 CDS 77794832 77795473 77794832 ID=cds.MS.gene05234.t1;Parent=MS.gene05234.t1
Gene Sequence

>MS.gene05234

ATGAAATCAATATACATATTATTTGCACTTCTCTTTGCCTTGTCCACCCAACCCTTGCTCGGAGAAGCTGACGCTTCACCTGAGCAAGTGGTTGACACAAAAGGCAAAAAGGTTCGGGCTGGAGTAGACTACTACATCCGACCAGTCCCAACAACCCCATGTGACGGTCGTGGGCCTTGTGTTGTTGGTAGTGGTTTTGTTCTCATAGCAAGATCACCAAACGAGACATGTCCACTCAATGTTGTTGTGGTTGAGGGTTTTCGTGGTCAAGGAGTAATGTTTACACCTGTTAACCCTAAGAAAGGTGTTATTAGGGTTTCCACTGATCTCAACATTAAGACATCCCTTAATACATCATGTCAAGATTCGACGATATGGACACTTGATGATTTTGATTCCTCATCTGGACAATGGTTTGTCACTACCGGTGGGGTTCTTGGAAATCCCGGCAAGGACACCGTTGACAATTGGTTCAAGATTGAAAAGTATGAAGATGACTATAAGCTTGTGTTTTGCCCTACGGTATGTGATTTCTGCAAGGTCATGTGCAGGAATGTTGGGGTCTTTAGGGATAGTAATGGGAACCAGCGTGTGGCTCTCACTGATGTGCCATACAAAGTTAGGTTCCAACCATCTGCTTGA

Protein sequence

>MS.gene05234.t1

MKSIYILFALLFALSTQPLLGEADASPEQVVDTKGKKVRAGVDYYIRPVPTTPCDGRGPCVVGSGFVLIARSPNETCPLNVVVVEGFRGQGVMFTPVNPKKGVIRVSTDLNIKTSLNTSCQDSTIWTLDDFDSSSGQWFVTTGGVLGNPGKDTVDNWFKIEKYEDDYKLVFCPTVCDFCKVMCRNVGVFRDSNGNQRVALTDVPYKVRFQPSA