AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene55764

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene55764.t1 MTR_8g099115 97.884 189 4 0 1 189 1 189 8.29e-139 385
MS.gene55764.t1 MTR_8g099135 63.934 183 62 1 7 189 7 185 2.83e-89 259
MS.gene55764.t1 MTR_4g073950 34.351 131 78 3 39 168 48 171 1.24e-17 77.0
MS.gene55764.t1 MTR_4g013335 33.835 133 77 3 41 172 57 179 3.03e-17 76.3
MS.gene55764.t1 MTR_4g122110 31.818 154 92 5 34 185 31 173 4.69e-17 75.5
MS.gene55764.t1 MTR_4g013320 33.835 133 79 3 41 172 58 182 6.88e-17 75.5
MS.gene55764.t1 MTR_4g013330 37.984 129 73 4 41 168 56 178 1.18e-16 74.7
MS.gene55764.t1 MTR_4g013310 32.353 136 81 4 41 174 58 184 4.66e-16 73.2
MS.gene55764.t1 MTR_3g034030 30.412 194 116 7 1 186 1 183 7.02e-16 72.4
MS.gene55764.t1 MTR_4g013325 35.075 134 76 4 41 172 58 182 1.27e-15 72.0
MS.gene55764.t1 MTR_1g054525 32.184 174 98 6 9 170 10 175 3.01e-15 70.9
MS.gene55764.t1 MTR_4g013350 33.333 129 77 3 41 168 56 176 4.09e-15 70.5
MS.gene55764.t1 MTR_4g122130 27.586 174 109 5 1 172 5 163 6.21e-15 69.7
MS.gene55764.t1 MTR_1g056370 30.380 158 94 5 13 168 22 165 1.04e-14 69.3
MS.gene55764.t1 MTR_4g013345 33.333 129 77 3 41 168 55 175 2.25e-14 68.6
MS.gene55764.t1 MTR_4g078885 29.897 194 117 7 1 186 1 183 2.42e-14 68.2
MS.gene55764.t1 MTR_4g049550 31.944 144 89 3 30 172 26 161 1.41e-13 66.2
MS.gene55764.t1 MTR_7g093850 29.480 173 96 7 3 164 12 169 3.00e-12 62.8
MS.gene55764.t1 MTR_7g070390 29.932 147 73 4 39 174 50 177 3.47e-12 62.4
MS.gene55764.t1 MTR_7g093870 32.540 126 75 5 41 162 47 166 1.06e-11 61.6
MS.gene55764.t1 MTR_7g093790 27.011 174 95 7 4 164 12 166 1.34e-11 60.8
MS.gene55764.t1 MTR_4g013770 33.333 135 78 4 41 172 49 174 2.90e-11 60.1
MS.gene55764.t1 MTR_3g105640 30.178 169 108 5 7 172 10 171 3.79e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene55764.t1 AT4G23690 54.878 164 66 2 27 189 31 187 3.58e-62 191
MS.gene55764.t1 AT1G64160 50.581 172 72 3 19 189 23 182 2.13e-61 189
MS.gene55764.t1 AT4G11210 45.652 184 91 3 8 189 7 183 4.92e-56 175
MS.gene55764.t1 AT4G11190 44.565 184 94 2 7 189 7 183 1.98e-54 171
MS.gene55764.t1 AT4G11180 42.391 184 97 3 8 189 9 185 1.53e-44 146
MS.gene55764.t1 AT1G22900 32.121 165 97 5 3 164 19 171 1.11e-17 77.4
MS.gene55764.t1 AT5G42500 33.121 157 88 6 15 168 25 167 6.57e-15 69.7
MS.gene55764.t1 AT2G21100 31.214 173 107 5 4 172 7 171 7.57e-15 69.7
MS.gene55764.t1 AT2G21100 31.214 173 107 5 4 172 7 171 7.57e-15 69.7
MS.gene55764.t1 AT2G21110 32.061 131 84 2 39 168 39 165 1.13e-14 69.3
MS.gene55764.t1 AT5G42510 32.903 155 87 5 17 168 24 164 2.78e-14 68.2
MS.gene55764.t1 AT1G65870 32.394 142 85 4 33 171 39 172 4.34e-14 67.8
MS.gene55764.t1 AT1G58170 31.250 160 95 6 33 189 34 181 2.28e-13 65.9
MS.gene55764.t1 AT4G38700 29.167 192 117 9 7 186 6 190 5.16e-13 64.7
MS.gene55764.t1 AT3G13662 28.571 126 82 2 48 172 50 168 6.25e-13 64.3
MS.gene55764.t1 AT5G49040 27.407 135 89 3 39 172 48 174 6.71e-13 64.7
MS.gene55764.t1 AT3G13650 28.788 132 82 3 42 172 49 169 3.20e-12 62.8
MS.gene55764.t1 AT1G55210 28.070 171 100 6 4 162 1 160 3.76e-12 62.4
MS.gene55764.t1 AT1G55210 28.070 171 100 6 4 162 1 160 3.76e-12 62.4
MS.gene55764.t1 AT5G49030 27.407 135 89 3 39 172 48 174 5.69e-12 63.9

Find 39 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTAGGGACATTTCGGTAAT+TGG 0.217142 4.3:+5064621 MS.gene55764:CDS
TTAGCAAACCAAAACCATTT+TGG 0.234540 4.3:+5064402 MS.gene55764:CDS
CCAAATCACCAAAATGGTTT+TGG 0.244201 4.3:-5064410 None:intergenic
CTCCAACAAGATCAAGAAAA+AGG 0.244585 4.3:+5064253 MS.gene55764:CDS
CTTCTTGCTCCTAATCTCAT+TGG 0.321560 4.3:+5064215 MS.gene55764:CDS
AAACAACCAAATCACCAAAA+TGG 0.349103 4.3:-5064416 None:intergenic
CTCTCAACAGATTCATTTGA+AGG 0.380353 4.3:+5064684 MS.gene55764:CDS
GAATAAGACTAGGGACATTT+CGG 0.391298 4.3:+5064614 MS.gene55764:CDS
CTTCAACTCTACTCAACATA+AGG 0.398508 4.3:+5064557 MS.gene55764:CDS
CTGGTGATTTCTTCATGACT+AGG 0.418903 4.3:+5064649 MS.gene55764:CDS
AGGAATATGCCAATGAGATT+AGG 0.431436 4.3:-5064224 None:intergenic
AACTTACACTCACGACCAAT+TGG 0.452615 4.3:+5064465 MS.gene55764:CDS
TTTGGTTTGCTAATATGGTT+CGG 0.454869 4.3:-5064392 None:intergenic
AAGTTATTGTCCAAAGTGAT+TGG 0.456707 4.3:-5064447 None:intergenic
AATCCTTGAGCACGACCAAT+TGG 0.466958 4.3:-5064480 None:intergenic
AGATTAACTTGTACGAATGT+TGG 0.479766 4.3:+5064733 MS.gene55764:CDS
AATTGTAGGCACACCGGCAT+GGG 0.485148 4.3:+5064365 MS.gene55764:CDS
TGATCTTGTTGGAGTGGCAG+AGG 0.486276 4.3:-5064244 None:intergenic
CGACCAATTGGTCGTGCTCA+AGG 0.488935 4.3:+5064477 MS.gene55764:CDS
TGGTGATTTCTTCATGACTA+GGG 0.508367 4.3:+5064650 MS.gene55764:CDS
AATGCCACATCAGCAATTGT+AGG 0.509448 4.3:+5064351 MS.gene55764:CDS
CAATTGTAGGCACACCGGCA+TGG 0.515586 4.3:+5064364 MS.gene55764:CDS
ATTTCGGTAATTGGTGGGAC+TGG 0.519957 4.3:+5064630 MS.gene55764:CDS
AGATTAGGAGCAAGAAGAAG+AGG 0.538005 4.3:-5064209 None:intergenic
TAAAACACCAATGTCTTGCA+TGG 0.555621 4.3:-5064291 None:intergenic
TCCCTAGTCTTATTCATCAA+AGG 0.569008 4.3:-5064606 None:intergenic
TTCAACTCTACTCAACATAA+GGG 0.569068 4.3:+5064558 MS.gene55764:CDS
AAATGAATCTGTTGAGAGAG+TGG 0.569288 4.3:-5064679 None:intergenic
TCCTTTGATGAATAAGACTA+GGG 0.578401 4.3:+5064605 MS.gene55764:CDS
ATGGTTCGGTTACCCCATGC+CGG 0.588762 4.3:-5064378 None:intergenic
GGGACATTTCGGTAATTGGT+GGG 0.592368 4.3:+5064625 MS.gene55764:CDS
AGGGACATTTCGGTAATTGG+TGG 0.596783 4.3:+5064624 MS.gene55764:CDS
ATCCTTTGATGAATAAGACT+AGG 0.600343 4.3:+5064604 MS.gene55764:CDS
TGTGCCTACAATTGCTGATG+TGG 0.600935 4.3:-5064355 None:intergenic
TCATAAACCATGCAAGACAT+TGG 0.605259 4.3:+5064284 MS.gene55764:CDS
TTTCATGACATTATTTACAA+CGG 0.616702 4.3:+5064315 MS.gene55764:CDS
GGTGATTTCTTCATGACTAG+GGG 0.631660 4.3:+5064651 MS.gene55764:CDS
ATCAGCAATTGTAGGCACAC+CGG 0.631729 4.3:+5064359 MS.gene55764:CDS
ATTGTAGGCACACCGGCATG+GGG 0.649487 4.3:+5064366 MS.gene55764:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTCATGACATTATTTACAA+CGG + chr4.3:5064315-5064334 MS.gene55764:CDS 20.0%
!!! TTGAAGGTGAAGTTTATTTT+AGG + chr4.3:5064700-5064719 MS.gene55764:CDS 25.0%
AAACAACCAAATCACCAAAA+TGG - chr4.3:5064419-5064438 None:intergenic 30.0%
AAGTTATTGTCCAAAGTGAT+TGG - chr4.3:5064450-5064469 None:intergenic 30.0%
ATCCTTTGATGAATAAGACT+AGG + chr4.3:5064604-5064623 MS.gene55764:CDS 30.0%
TCCAACAAGATCAAGAAAAA+GGG + chr4.3:5064254-5064273 MS.gene55764:CDS 30.0%
TCCTTTGATGAATAAGACTA+GGG + chr4.3:5064605-5064624 MS.gene55764:CDS 30.0%
TTCAACTCTACTCAACATAA+GGG + chr4.3:5064558-5064577 MS.gene55764:CDS 30.0%
! AGAAAGAAATTTTCACTGCT+TGG + chr4.3:5064517-5064536 MS.gene55764:CDS 30.0%
! TTAGCAAACCAAAACCATTT+TGG + chr4.3:5064402-5064421 MS.gene55764:CDS 30.0%
!! AGATTAACTTGTACGAATGT+TGG + chr4.3:5064733-5064752 MS.gene55764:CDS 30.0%
!! TTTGGTTTGCTAATATGGTT+CGG - chr4.3:5064395-5064414 None:intergenic 30.0%
!! TTTTGATGATCCAATCACTT+TGG + chr4.3:5064437-5064456 MS.gene55764:CDS 30.0%
!!! ATGGTTTTGGTTTGCTAATA+TGG - chr4.3:5064400-5064419 None:intergenic 30.0%
AAATGAATCTGTTGAGAGAG+TGG - chr4.3:5064682-5064701 None:intergenic 35.0%
AGGAATATGCCAATGAGATT+AGG - chr4.3:5064227-5064246 None:intergenic 35.0%
CTCCAACAAGATCAAGAAAA+AGG + chr4.3:5064253-5064272 MS.gene55764:CDS 35.0%
CTCTCAACAGATTCATTTGA+AGG + chr4.3:5064684-5064703 MS.gene55764:CDS 35.0%
CTTCAACTCTACTCAACATA+AGG + chr4.3:5064557-5064576 MS.gene55764:CDS 35.0%
GAATAAGACTAGGGACATTT+CGG + chr4.3:5064614-5064633 MS.gene55764:CDS 35.0%
TAAAACACCAATGTCTTGCA+TGG - chr4.3:5064294-5064313 None:intergenic 35.0%
TCATAAACCATGCAAGACAT+TGG + chr4.3:5064284-5064303 MS.gene55764:CDS 35.0%
TGGTGATTTCTTCATGACTA+GGG + chr4.3:5064650-5064669 MS.gene55764:CDS 35.0%
! AAGGGTAGCATAAATTTTGC+TGG + chr4.3:5064576-5064595 MS.gene55764:CDS 35.0%
! AATTGCTGATGTGGCATTTT+TGG - chr4.3:5064349-5064368 None:intergenic 35.0%
! CCAAATCACCAAAATGGTTT+TGG - chr4.3:5064413-5064432 None:intergenic 35.0%
! TTTTCTTGATCTTGTTGGAG+TGG - chr4.3:5064253-5064272 None:intergenic 35.0%
!! CCAAAACCATTTTGGTGATT+TGG + chr4.3:5064410-5064429 MS.gene55764:CDS 35.0%
!! TCCCTAGTCTTATTCATCAA+AGG - chr4.3:5064609-5064628 None:intergenic 35.0%
!!! AGTTTATTTTAGGCTTCGTG+CGG + chr4.3:5064710-5064729 MS.gene55764:CDS 35.0%
AACTTACACTCACGACCAAT+TGG + chr4.3:5064465-5064484 MS.gene55764:CDS 40.0%
AATGCCACATCAGCAATTGT+AGG + chr4.3:5064351-5064370 MS.gene55764:CDS 40.0%
ACTAGGGACATTTCGGTAAT+TGG + chr4.3:5064621-5064640 MS.gene55764:CDS 40.0%
AGATTAGGAGCAAGAAGAAG+AGG - chr4.3:5064212-5064231 None:intergenic 40.0%
CTGGTGATTTCTTCATGACT+AGG + chr4.3:5064649-5064668 MS.gene55764:CDS 40.0%
CTTCTTGCTCCTAATCTCAT+TGG + chr4.3:5064215-5064234 MS.gene55764:CDS 40.0%
GGTGATTTCTTCATGACTAG+GGG + chr4.3:5064651-5064670 MS.gene55764:CDS 40.0%
! GAAATTTTCACTGCTTGGCT+TGG + chr4.3:5064522-5064541 MS.gene55764:CDS 40.0%
! GCCCTTTTTCTTGATCTTGT+TGG - chr4.3:5064258-5064277 None:intergenic 40.0%
AATCCTTGAGCACGACCAAT+TGG - chr4.3:5064483-5064502 None:intergenic 45.0%
AGGGACATTTCGGTAATTGG+TGG + chr4.3:5064624-5064643 MS.gene55764:CDS 45.0%
ATCAGCAATTGTAGGCACAC+CGG + chr4.3:5064359-5064378 MS.gene55764:CDS 45.0%
ATTTCGGTAATTGGTGGGAC+TGG + chr4.3:5064630-5064649 MS.gene55764:CDS 45.0%
GGGACATTTCGGTAATTGGT+GGG + chr4.3:5064625-5064644 MS.gene55764:CDS 45.0%
TGTGCCTACAATTGCTGATG+TGG - chr4.3:5064358-5064377 None:intergenic 45.0%
AATTGTAGGCACACCGGCAT+GGG + chr4.3:5064365-5064384 MS.gene55764:CDS 50.0%
TGATCTTGTTGGAGTGGCAG+AGG - chr4.3:5064247-5064266 None:intergenic 50.0%
ATTGTAGGCACACCGGCATG+GGG + chr4.3:5064366-5064385 MS.gene55764:CDS 55.0%
CAATTGTAGGCACACCGGCA+TGG + chr4.3:5064364-5064383 MS.gene55764:CDS 55.0%
CGACCAATTGGTCGTGCTCA+AGG + chr4.3:5064477-5064496 MS.gene55764:CDS 55.0%
!! ATGGTTCGGTTACCCCATGC+CGG - chr4.3:5064381-5064400 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 5064189 5064758 5064189 ID=MS.gene55764
chr4.3 mRNA 5064189 5064758 5064189 ID=MS.gene55764.t1;Parent=MS.gene55764
chr4.3 exon 5064189 5064758 5064189 ID=MS.gene55764.t1.exon1;Parent=MS.gene55764.t1
chr4.3 CDS 5064189 5064758 5064189 ID=cds.MS.gene55764.t1;Parent=MS.gene55764.t1
Gene Sequence

>MS.gene55764

ATGAAGCTCATTTCAACTCTCCTCTTCTTCTTGCTCCTAATCTCATTGGCATATTCCTCTGCCACTCCAACAAGATCAAGAAAAAGGGCTCGTGTTCATAAACCATGCAAGACATTGGTGTTTTATTTTCATGACATTATTTACAACGGTCACAACTCCAAAAATGCCACATCAGCAATTGTAGGCACACCGGCATGGGGTAACCGAACCATATTAGCAAACCAAAACCATTTTGGTGATTTGGTTGTTTTTGATGATCCAATCACTTTGGACAATAACTTACACTCACGACCAATTGGTCGTGCTCAAGGATTTTACATTTATGATAAGAAAGAAATTTTCACTGCTTGGCTTGGTTTCTCATTTGTCTTCAACTCTACTCAACATAAGGGTAGCATAAATTTTGCTGGTGCTGATCCTTTGATGAATAAGACTAGGGACATTTCGGTAATTGGTGGGACTGGTGATTTCTTCATGACTAGGGGAGTAGCCACTCTCTCAACAGATTCATTTGAAGGTGAAGTTTATTTTAGGCTTCGTGCGGAGATTAACTTGTACGAATGTTGGTAA
Protein sequence

>MS.gene55764.t1

MKLISTLLFFLLLISLAYSSATPTRSRKRARVHKPCKTLVFYFHDIIYNGHNSKNATSAIVGTPAWGNRTILANQNHFGDLVVFDDPITLDNNLHSRPIGRAQGFYIYDKKEIFTAWLGFSFVFNSTQHKGSINFAGADPLMNKTRDISVIGGTGDFFMTRGVATLSTDSFEGEVYFRLRAEINLYECW