AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67957

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67957.t1 MTR_3g107120 43.011 186 99 4 11 195 79 258 1.95e-33 123
MS.gene67957.t1 MTR_3g107160 40.102 197 111 5 2 195 58 250 3.46e-32 119
MS.gene67957.t1 MTR_3g107100 43.455 191 97 6 9 195 67 250 1.12e-31 118
MS.gene67957.t1 MTR_1g053025 45.856 181 87 7 10 182 60 237 7.62e-31 116
MS.gene67957.t1 MTR_3g107140 47.682 151 72 4 4 153 52 196 1.19e-30 111
MS.gene67957.t1 MTR_4g098590 39.175 194 103 7 9 191 55 244 3.21e-28 108
MS.gene67957.t1 MTR_2g007450 41.429 210 101 9 2 191 63 270 5.30e-28 108
MS.gene67957.t1 MTR_2g007400 40.909 198 103 8 10 195 69 264 6.40e-27 105
MS.gene67957.t1 MTR_7g034090 55.670 97 34 3 4 99 60 148 6.28e-22 92.4
MS.gene67957.t1 MTR_2g007500 41.060 151 79 5 48 191 91 238 1.02e-21 90.9
MS.gene67957.t1 MTR_1g041245 37.705 183 92 6 11 185 66 234 6.45e-21 89.4
MS.gene67957.t1 MTR_5g012840 30.978 184 109 5 11 188 44 215 2.71e-17 78.6
MS.gene67957.t1 MTR_3g108150 34.940 166 86 6 11 170 68 217 2.50e-16 76.3
MS.gene67957.t1 MTR_7g098570 41.045 134 69 4 11 141 75 201 9.45e-16 75.1
MS.gene67957.t1 MTR_7g055943 34.756 164 98 6 10 170 97 254 1.22e-15 74.7
MS.gene67957.t1 MTR_2g005990 33.838 198 116 6 10 194 63 258 1.50e-15 74.3
MS.gene67957.t1 MTR_6g011460 34.555 191 101 7 10 192 103 277 3.29e-15 73.2
MS.gene67957.t1 MTR_3g040700 36.416 173 85 8 10 170 97 256 3.37e-15 73.2
MS.gene67957.t1 MTR_3g450920 38.667 150 70 7 15 158 73 206 4.01e-15 71.2
MS.gene67957.t1 MTR_2g008320 36.066 183 104 6 10 185 109 285 4.63e-15 72.8
MS.gene67957.t1 MTR_4g039440 32.961 179 106 6 6 177 82 253 4.88e-15 72.8
MS.gene67957.t1 MTR_2g008310 36.413 184 98 7 10 185 59 231 1.20e-14 71.6
MS.gene67957.t1 MTR_5g083890 34.694 196 100 8 11 184 64 253 1.33e-14 71.6
MS.gene67957.t1 MTR_5g058100 34.831 178 105 6 10 185 66 234 2.47e-14 70.9
MS.gene67957.t1 MTR_7g115270 35.227 176 92 6 11 170 67 236 3.58e-14 70.1
MS.gene67957.t1 MTR_3g026920 33.028 218 99 9 2 191 66 264 4.51e-14 70.1
MS.gene67957.t1 MTR_7g098510 36.567 134 75 4 11 141 73 199 5.41e-14 69.7
MS.gene67957.t1 MTR_6g045333 35.829 187 107 8 2 185 112 288 1.21e-13 68.9
MS.gene67957.t1 MTR_0543s0010 37.778 135 73 4 10 144 140 263 1.55e-13 68.6
MS.gene67957.t1 MTR_0492s0020 37.778 135 73 4 10 144 140 263 1.74e-13 68.2
MS.gene67957.t1 MTR_5g058000 32.796 186 113 6 2 185 57 232 2.32e-13 67.8
MS.gene67957.t1 MTR_7g088260 32.530 166 90 6 11 170 146 295 4.23e-13 67.4
MS.gene67957.t1 MTR_6g022500 31.609 174 108 5 12 185 164 326 4.25e-13 67.4
MS.gene67957.t1 MTR_7g075820 33.816 207 106 9 11 194 64 262 4.75e-13 67.0
MS.gene67957.t1 MTR_3g095600 35.106 188 85 9 2 185 55 209 8.31e-13 65.9
MS.gene67957.t1 MTR_3g109982 37.500 136 78 3 8 143 65 193 8.40e-13 66.6
MS.gene67957.t1 MTR_3g110010 37.500 136 78 3 8 143 65 193 9.20e-13 66.6
MS.gene67957.t1 MTR_7g032380 36.806 144 82 6 11 151 66 203 4.17e-12 64.3
MS.gene67957.t1 MTR_3g099830 33.846 195 88 7 4 185 58 224 5.39e-12 63.9
MS.gene67957.t1 MTR_7g034120 35.583 163 84 8 19 170 1 153 6.10e-12 63.5
MS.gene67957.t1 MTR_3g023630 38.636 132 72 6 11 139 63 188 8.44e-12 63.2
MS.gene67957.t1 MTR_1g066830 34.270 178 106 6 10 185 65 233 1.51e-11 62.8
MS.gene67957.t1 MTR_3g108560 32.143 168 97 6 9 173 73 226 1.77e-11 62.0
MS.gene67957.t1 MTR_3g108560 30.539 167 101 5 9 173 73 226 1.77e-11 62.4
MS.gene67957.t1 MTR_6g022360 34.615 182 100 9 11 185 88 257 1.96e-11 62.4
MS.gene67957.t1 MTR_5g061680 36.552 145 78 6 10 148 66 202 2.12e-11 62.0
MS.gene67957.t1 MTR_7g098480 35.556 180 102 7 15 191 77 245 2.49e-11 62.0
MS.gene67957.t1 MTR_7g033990 29.064 203 110 8 11 195 66 252 3.76e-11 61.6
MS.gene67957.t1 MTR_7g032370 31.148 183 103 7 11 187 45 210 4.33e-11 61.2
MS.gene67957.t1 MTR_1g085120 32.402 179 100 8 9 177 223 390 4.77e-11 61.2
MS.gene67957.t1 MTR_1g085120 32.402 179 100 8 9 177 148 315 5.25e-11 61.2
MS.gene67957.t1 MTR_1g085120 32.402 179 100 8 9 177 235 402 5.34e-11 61.2
MS.gene67957.t1 MTR_7g083740 31.183 186 80 8 1 175 65 213 5.85e-11 60.8
MS.gene67957.t1 MTR_7g034115 34.328 134 75 5 11 139 66 191 5.90e-11 60.8
MS.gene67957.t1 MTR_3g087260 34.783 115 73 1 56 170 181 293 6.45e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67957.t1 AT3G54160 36.496 137 77 5 11 142 46 177 6.76e-12 63.9

Find 38 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTCTCAAAACTCTTCATT+TGG 0.264967 7.2:-65017961 MS.gene67957:CDS
AAGCGATCCCTCACGATTAA+AGG 0.277121 7.2:+65017845 None:intergenic
CCTGCATGTTAAAATACTAA+TGG 0.310426 7.2:+65018049 None:intergenic
ATTTGGAACAGATTCGGTTT+TGG 0.340854 7.2:-65017944 MS.gene67957:CDS
TTGAGACGGAAAGTCTTAAT+AGG 0.377890 7.2:+65018200 None:intergenic
TTACTCGGGCAGTGAAGTTC+AGG 0.379273 7.2:+65018161 None:intergenic
CTCTTCATTTGGAACAGATT+CGG 0.384063 7.2:-65017950 MS.gene67957:CDS
TCTGAGCTTTGAGTTTGATC+AGG 0.390769 7.2:-65017718 MS.gene67957:CDS
CTGCATGTTAAAATACTAAT+GGG 0.408885 7.2:+65018050 None:intergenic
GTGAGTAAATTCTCAAGGAT+TGG 0.417544 7.2:+65017879 None:intergenic
TGAGTAAATTCTCAAGGATT+GGG 0.457540 7.2:+65017880 None:intergenic
AATAGGAAGTGCAGCATCTC+GGG 0.459627 7.2:+65018217 None:intergenic
ACATTGCGAACTGCTTTCAA+TGG 0.466186 7.2:+65017747 None:intergenic
CTCTGTCCACATAGAGATGA+AGG 0.476912 7.2:+65018090 None:intergenic
AGCGATCCCTCACGATTAAA+GGG 0.477909 7.2:+65017846 None:intergenic
CGAGTAACAGTATCTCCATA+TGG 0.488645 7.2:-65018145 MS.gene67957:CDS
TATTAAGACTTTCCGTCTCA+AGG 0.504509 7.2:-65018198 MS.gene67957:CDS
TAGCACAAAGTTGAGCCATA+TGG 0.510525 7.2:+65018130 None:intergenic
CATATGGAGATACTGTTACT+CGG 0.517081 7.2:+65018146 None:intergenic
CAAGCGGATATTGATTGTGT+TGG 0.526450 7.2:-65017780 MS.gene67957:CDS
AGAGAAGGAAGTAGAACCGA+AGG 0.527419 7.2:+65017978 None:intergenic
AAGGAAAACCCTTGTCCATA+CGG 0.534697 7.2:+65017997 None:intergenic
TTCATCTCTATGTGGACAGA+GGG 0.536682 7.2:-65018088 MS.gene67957:CDS
ATATGGAGATACTGTTACTC+GGG 0.536974 7.2:+65018147 None:intergenic
GATCGCTTACCTCTGAAGAA+TGG 0.546125 7.2:-65017830 MS.gene67957:CDS
TAATAGGAAGTGCAGCATCT+CGG 0.546702 7.2:+65018216 None:intergenic
CATCTCTATGTGGACAGAGG+GGG 0.550500 7.2:-65018086 MS.gene67957:CDS
CTTAAATAACTTGATCCAAG+CGG 0.552272 7.2:-65017796 MS.gene67957:CDS
CAACACAATCAATATCCGCT+TGG 0.576658 7.2:+65017781 None:intergenic
TTTGGTTTCCGTATGGACAA+GGG 0.612583 7.2:-65018005 MS.gene67957:CDS
CATATGTGAGTAAATTCTCA+AGG 0.612617 7.2:+65017874 None:intergenic
AATCATATAGCGCCTTGAGA+CGG 0.613866 7.2:+65018186 None:intergenic
TGATGTGCCCTTTAATCGTG+AGG 0.616906 7.2:-65017853 MS.gene67957:CDS
TGAAAACCTTCATCTCTATG+TGG 0.619909 7.2:-65018096 MS.gene67957:CDS
GATGTGCCCTTTAATCGTGA+GGG 0.664869 7.2:-65017852 MS.gene67957:CDS
TCATCTCTATGTGGACAGAG+GGG 0.666250 7.2:-65018087 MS.gene67957:CDS
CTCAACTTTGTGCTACCACG+CGG 0.671498 7.2:-65018122 MS.gene67957:CDS
CTTCATCTCTATGTGGACAG+AGG 0.679618 7.2:-65018089 MS.gene67957:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGATTTTATGTCATTTCTAA+AGG - chr7.2:65018081-65018100 MS.gene67957:CDS 20.0%
!!! GATTTTATGTCATTTCTAAA+GGG - chr7.2:65018082-65018101 MS.gene67957:CDS 20.0%
! CTGCATGTTAAAATACTAAT+GGG + chr7.2:65017941-65017960 None:intergenic 25.0%
CATATGTGAGTAAATTCTCA+AGG + chr7.2:65018117-65018136 None:intergenic 30.0%
CCTGCATGTTAAAATACTAA+TGG + chr7.2:65017942-65017961 None:intergenic 30.0%
CTTAAATAACTTGATCCAAG+CGG - chr7.2:65018192-65018211 MS.gene67957:CDS 30.0%
TGAGTAAATTCTCAAGGATT+GGG + chr7.2:65018111-65018130 None:intergenic 30.0%
TTCTCTCAAAACTCTTCATT+TGG - chr7.2:65018027-65018046 MS.gene67957:CDS 30.0%
!!! AAATGAAGAGTTTTGAGAGA+AGG + chr7.2:65018028-65018047 None:intergenic 30.0%
!!! CCATTAGTATTTTAACATGC+AGG - chr7.2:65017939-65017958 MS.gene67957:CDS 30.0%
ATATGGAGATACTGTTACTC+GGG + chr7.2:65017844-65017863 None:intergenic 35.0%
CATATGGAGATACTGTTACT+CGG + chr7.2:65017845-65017864 None:intergenic 35.0%
GTGAGTAAATTCTCAAGGAT+TGG + chr7.2:65018112-65018131 None:intergenic 35.0%
TATTAAGACTTTCCGTCTCA+AGG - chr7.2:65017790-65017809 MS.gene67957:CDS 35.0%
TGAAAACCTTCATCTCTATG+TGG - chr7.2:65017892-65017911 MS.gene67957:CDS 35.0%
TTGAGACGGAAAGTCTTAAT+AGG + chr7.2:65017791-65017810 None:intergenic 35.0%
! AAAGCTTTTCCATTCTTCAG+AGG + chr7.2:65018170-65018189 None:intergenic 35.0%
! CTCTTCATTTGGAACAGATT+CGG - chr7.2:65018038-65018057 MS.gene67957:CDS 35.0%
!! ATTTGGAACAGATTCGGTTT+TGG - chr7.2:65018044-65018063 MS.gene67957:CDS 35.0%
!!! CTTGTTGTTCTCAAGCTTTT+TGG - chr7.2:65017965-65017984 MS.gene67957:CDS 35.0%
AAGGAAAACCCTTGTCCATA+CGG + chr7.2:65017994-65018013 None:intergenic 40.0%
AATCATATAGCGCCTTGAGA+CGG + chr7.2:65017805-65017824 None:intergenic 40.0%
ACATTGCGAACTGCTTTCAA+TGG + chr7.2:65018244-65018263 None:intergenic 40.0%
CAACACAATCAATATCCGCT+TGG + chr7.2:65018210-65018229 None:intergenic 40.0%
CGAGTAACAGTATCTCCATA+TGG - chr7.2:65017843-65017862 MS.gene67957:CDS 40.0%
TAGCACAAAGTTGAGCCATA+TGG + chr7.2:65017861-65017880 None:intergenic 40.0%
TTCATCTCTATGTGGACAGA+GGG - chr7.2:65017900-65017919 MS.gene67957:CDS 40.0%
! CAAGCGGATATTGATTGTGT+TGG - chr7.2:65018208-65018227 MS.gene67957:CDS 40.0%
! TAATAGGAAGTGCAGCATCT+CGG + chr7.2:65017775-65017794 None:intergenic 40.0%
! TATGGACAAGGGTTTTCCTT+CGG - chr7.2:65017994-65018013 MS.gene67957:CDS 40.0%
! TTTGGTTTCCGTATGGACAA+GGG - chr7.2:65017983-65018002 MS.gene67957:CDS 40.0%
!! TCTGAGCTTTGAGTTTGATC+AGG - chr7.2:65018270-65018289 MS.gene67957:CDS 40.0%
!!! CAAGCTTTTTGGTTTCCGTA+TGG - chr7.2:65017976-65017995 MS.gene67957:CDS 40.0%
!!! TTTTGGTTTCCGTATGGACA+AGG - chr7.2:65017982-65018001 MS.gene67957:CDS 40.0%
AAGCGATCCCTCACGATTAA+AGG + chr7.2:65018146-65018165 None:intergenic 45.0%
AGAGAAGGAAGTAGAACCGA+AGG + chr7.2:65018013-65018032 None:intergenic 45.0%
AGCGATCCCTCACGATTAAA+GGG + chr7.2:65018145-65018164 None:intergenic 45.0%
CTCTGTCCACATAGAGATGA+AGG + chr7.2:65017901-65017920 None:intergenic 45.0%
CTTCATCTCTATGTGGACAG+AGG - chr7.2:65017899-65017918 MS.gene67957:CDS 45.0%
GATGTGCCCTTTAATCGTGA+GGG - chr7.2:65018136-65018155 MS.gene67957:CDS 45.0%
TCATCTCTATGTGGACAGAG+GGG - chr7.2:65017901-65017920 MS.gene67957:CDS 45.0%
TGATGTGCCCTTTAATCGTG+AGG - chr7.2:65018135-65018154 MS.gene67957:CDS 45.0%
! AATAGGAAGTGCAGCATCTC+GGG + chr7.2:65017774-65017793 None:intergenic 45.0%
! GATCGCTTACCTCTGAAGAA+TGG - chr7.2:65018158-65018177 MS.gene67957:CDS 45.0%
CATCTCTATGTGGACAGAGG+GGG - chr7.2:65017902-65017921 MS.gene67957:CDS 50.0%
CTCAACTTTGTGCTACCACG+CGG - chr7.2:65017866-65017885 MS.gene67957:CDS 50.0%
TTACTCGGGCAGTGAAGTTC+AGG + chr7.2:65017830-65017849 None:intergenic 50.0%
! TGAAGGTTTTCAACACCGCG+TGG + chr7.2:65017884-65017903 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 65017710 65018300 65017710 ID=MS.gene67957
chr7.2 mRNA 65017710 65018300 65017710 ID=MS.gene67957.t1;Parent=MS.gene67957
chr7.2 exon 65017710 65018300 65017710 ID=MS.gene67957.t1.exon1;Parent=MS.gene67957.t1
chr7.2 CDS 65017710 65018300 65017710 ID=cds.MS.gene67957.t1;Parent=MS.gene67957.t1
Gene Sequence

>MS.gene67957

ATGGTGCGCGAGAAAAACATTGAGTTTCGATTTAACGACTTTATATACTCAGTTTTGCTGTCCCGAGATGCTGCACTTCCTATTAAGACTTTCCGTCTCAAGGCGCTATATGATTCTCCTGAACTTCACTGCCCGAGTAACAGTATCTCCATATGGCTCAACTTTGTGCTACCACGCGGTGTTGAAAACCTTCATCTCTATGTGGACAGAGGGGGTTTACAAAAATTACCCATTAGTATTTTAACATGCAGGACGCTTGTTGTTCTCAAGCTTTTTGGTTTCCGTATGGACAAGGGTTTTCCTTCGGTTCTACTTCCTTCTCTCAAAACTCTTCATTTGGAACAGATTCGGTTTTGGTTTCTTGAACTTCGAGATTTTATGTCATTTCTAAAGGGTTGCCCAATCCTTGAGAATTTACTCACATATGATGTGCCCTTTAATCGTGAGGGATCGCTTACCTCTGAAGAATGGAAAAGCTTTTGCTTAAATAACTTGATCCAAGCGGATATTGATTGTGTTGGTTCTTATTTTCCATTGAAAGCAGTTCGCAATGTACTGTCTCTGAGCTTTGAGTTTGATCAGGTCTGTTAA
Protein sequence

>MS.gene67957.t1

MVREKNIEFRFNDFIYSVLLSRDAALPIKTFRLKALYDSPELHCPSNSISIWLNFVLPRGVENLHLYVDRGGLQKLPISILTCRTLVVLKLFGFRMDKGFPSVLLPSLKTLHLEQIRFWFLELRDFMSFLKGCPILENLLTYDVPFNREGSLTSEEWKSFCLNNLIQADIDCVGSYFPLKAVRNVLSLSFEFDQVC