AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene061654


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene061654.t1 MTR_1g033750 93.274 223 15 0 1 223 1 223 6.25e-156 431
MS.gene061654.t1 MTR_1g114640 66.516 221 71 2 2 222 3 220 2.88e-101 293
MS.gene061654.t1 MTR_1g114690 55.111 225 83 3 4 222 5 217 3.82e-80 239
MS.gene061654.t1 MTR_1g114690 54.425 226 85 3 4 223 5 218 1.96e-79 237
MS.gene061654.t1 MTR_1g114750 52.915 223 100 3 2 223 3 221 1.33e-78 235
MS.gene061654.t1 MTR_1g114640 67.059 170 53 2 2 171 3 169 1.46e-72 218
MS.gene061654.t1 MTR_1g114690 47.308 260 85 4 4 223 5 252 8.18e-72 219
MS.gene061654.t1 MTR_1g115130 51.570 223 78 2 1 223 2 194 2.07e-69 211
MS.gene061654.t1 MTR_8g100065 51.630 184 88 1 41 223 2 185 3.59e-64 197
MS.gene061654.t1 MTR_8g100065 56.442 163 70 1 62 223 45 207 4.07e-62 193
MS.gene061654.t1 MTR_6g077990 54.321 162 74 0 62 223 37 198 1.10e-59 186
MS.gene061654.t1 MTR_6g077990 54.321 162 74 0 62 223 38 199 1.26e-59 186
MS.gene061654.t1 MTR_6g077990 56.376 149 65 0 75 223 8 156 8.16e-57 177
MS.gene061654.t1 MTR_1g114690 47.087 206 79 5 4 203 5 186 8.16e-51 164
MS.gene061654.t1 MTR_1g114680 70.270 111 33 0 113 223 53 163 6.44e-48 156
MS.gene061654.t1 MTR_7g083570 37.143 175 110 0 48 222 102 276 1.86e-41 142
MS.gene061654.t1 MTR_3g100750 39.355 155 93 1 66 220 102 255 4.89e-40 138
MS.gene061654.t1 MTR_8g069110 36.872 179 102 2 52 220 90 267 1.08e-38 135
MS.gene061654.t1 MTR_8g100065 49.606 127 63 1 42 167 3 129 3.07e-37 127
MS.gene061654.t1 MTR_6g077990 53.704 108 50 0 62 169 37 144 2.94e-36 125
MS.gene061654.t1 MTR_8g100065 56.075 107 46 1 62 167 45 151 2.12e-35 123
MS.gene061654.t1 MTR_2g076350 33.043 230 143 4 1 222 1 227 1.20e-33 121
MS.gene061654.t1 MTR_5g015750 50.685 73 33 2 2 74 3 72 1.96e-13 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene061654.t1 AT5G08350 53.810 210 83 3 15 223 19 215 9.41e-76 228
MS.gene061654.t1 AT5G23370 51.570 223 92 4 5 223 6 216 1.32e-72 220
MS.gene061654.t1 AT5G23350 49.099 222 95 4 5 221 6 214 1.51e-71 217
MS.gene061654.t1 AT5G23360 47.945 219 98 3 5 223 6 208 4.59e-69 211
MS.gene061654.t1 AT4G01600 37.209 215 121 4 23 223 13 227 1.35e-43 146
MS.gene061654.t1 AT4G01600 39.227 181 102 2 51 223 8 188 1.03e-42 143
MS.gene061654.t1 AT5G13200 33.333 207 133 2 16 221 59 261 5.86e-42 143
MS.gene061654.t1 AT4G01600 36.967 211 122 5 23 223 13 222 1.12e-39 136
MS.gene061654.t1 AT1G28200 35.849 159 101 1 62 220 97 254 8.98e-37 129
MS.gene061654.t1 AT1G28200 35.849 159 101 1 62 220 97 254 8.98e-37 129
MS.gene061654.t1 AT2G22475 33.939 165 108 1 56 220 128 291 9.19e-36 128
MS.gene061654.t1 AT5G13200 31.373 153 100 2 16 167 59 207 1.31e-23 94.4
MS.gene061654.t1 AT4G40100 29.891 184 95 3 40 220 64 216 4.13e-22 90.9
MS.gene061654.t1 AT2G22475 29.565 115 80 1 56 170 128 241 1.15e-16 76.6

Find 35 sgRNAs with CRISPR-Local

Find 69 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAGCAATTTCAATGTACTTT+TGG 0.206367 1.3:+18678970 None:intergenic
AACATAACTGATACACTTAA+AGG 0.236535 1.3:-18679470 MS.gene061654:CDS
GTTCTAATAAAGTGGCCTTT+TGG 0.325622 1.3:+18679242 None:intergenic
TTTCTTCAAGAGCTATTAGT+TGG 0.372608 1.3:-18680157 MS.gene061654:CDS
CTCACTAGGATGAACAATCT+TGG 0.396062 1.3:-18679865 MS.gene061654:CDS
AATTGATCTCTCACTACAAA+AGG 0.403914 1.3:+18679277 None:intergenic
ATTCACCTCAGCAGCATACT+TGG 0.404852 1.3:-18680128 MS.gene061654:CDS
CTTTATTAGAACACATTACA+AGG 0.441996 1.3:-18679231 MS.gene061654:intron
ATTAAAATCTCTTCTCCAAA+AGG 0.451169 1.3:-18679257 MS.gene061654:CDS
GCTGGACTTATTGTAGTAGT+TGG 0.453049 1.3:+18680063 None:intergenic
TCACTAGGATGAACAATCTT+GGG 0.454379 1.3:-18679864 MS.gene061654:CDS
CTTATTGTAGTAGTTGGACT+TGG 0.455357 1.3:+18680069 None:intergenic
TTATTCCACTTGGCAAGATA+AGG 0.462580 1.3:-18679028 MS.gene061654:CDS
TGTTATCTATCAACAACATC+TGG 0.466437 1.3:-18679341 MS.gene061654:CDS
GGAGCTAGAATTCTTCAAGT+TGG 0.473121 1.3:-18679434 MS.gene061654:CDS
TGTAATGTGTTCTAATAAAG+TGG 0.482439 1.3:+18679234 None:intergenic
TTTAACAATGTAGTGAAACT+TGG 0.484836 1.3:-18679497 MS.gene061654:intron
TCAAGTTGGAGGAGTGGAAA+AGG 0.489991 1.3:-18679420 MS.gene061654:CDS
CAACTATTTAGTGTAAAAGA+TGG 0.490960 1.3:-18679389 MS.gene061654:CDS
CTTAAAGGAAAGCTGAGCTT+AGG 0.511360 1.3:-18679455 MS.gene061654:CDS
GCTAGAATTCTTCAAGTTGG+AGG 0.512754 1.3:-18679431 MS.gene061654:CDS
ACAACATCTGGTCCTCTAGC+AGG 0.532145 1.3:-18679329 MS.gene061654:CDS
AAGTATGCTGCTGAGGTGAA+TGG 0.545777 1.3:+18680130 None:intergenic
TTGTAGGTCATTATTCCACT+TGG 0.560547 1.3:-18679038 MS.gene061654:intron
AATTCTTCAAGTTGGAGGAG+TGG 0.572161 1.3:-18679426 MS.gene061654:CDS
TATTAGTTGATATGAAGAGT+AGG 0.579318 1.3:+18679306 None:intergenic
TTCACCTCAGCAGCATACTT+GGG 0.589074 1.3:-18680127 MS.gene061654:CDS
GAGCAAATTCAGTTCTCACT+AGG 0.589590 1.3:-18679879 MS.gene061654:CDS
AAAGTACATTGAAATTGCTA+CGG 0.602017 1.3:-18678967 MS.gene061654:CDS
ACAAACCTTATCTTGCCAAG+TGG 0.607201 1.3:+18679023 None:intergenic
ATCACCCAAGTATGCTGCTG+AGG 0.611603 1.3:+18680123 None:intergenic
GTACATTGAAATTGCTACGG+TGG 0.620058 1.3:-18678964 MS.gene061654:CDS
GCAACGGGACTCAAAGAACA+TGG 0.647266 1.3:-18679823 MS.gene061654:intron
ATGAAGAGTAGGCCTGCTAG+AGG 0.659927 1.3:+18679317 None:intergenic
TTAGTGTAAAAGATGGAGAG+AGG 0.661609 1.3:-18679382 MS.gene061654:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAGTTTTTCTTTATATTTCT+TGG + chr1.3:18679074-18679093 None:intergenic 15.0%
!! TTAAAAATCATATGAAGCAA+AGG + chr1.3:18679961-18679980 None:intergenic 20.0%
!!! AATCATTATTTTTTCTCTTC+AGG - chr1.3:18679143-18679162 MS.gene061654:intron 20.0%
!!! AATTTTTTTAACCGCATTAT+TGG - chr1.3:18679354-18679373 MS.gene061654:CDS 20.0%
! AAAGTACATTGAAATTGCTA+CGG - chr1.3:18680080-18680099 MS.gene061654:CDS 25.0%
! AACATAACTGATACACTTAA+AGG - chr1.3:18679577-18679596 MS.gene061654:intron 25.0%
! ATTAAAATCTCTTCTCCAAA+AGG - chr1.3:18679790-18679809 MS.gene061654:intron 25.0%
! CAACTATTTAGTGTAAAAGA+TGG - chr1.3:18679658-18679677 MS.gene061654:intron 25.0%
! CTTTATTAGAACACATTACA+AGG - chr1.3:18679816-18679835 MS.gene061654:intron 25.0%
! TGTAATGTGTTCTAATAAAG+TGG + chr1.3:18679816-18679835 None:intergenic 25.0%
! TGTAATTTATCTATCCTTGT+AGG - chr1.3:18679993-18680012 MS.gene061654:intron 25.0%
! TTTAACAATGTAGTGAAACT+TGG - chr1.3:18679550-18679569 MS.gene061654:intron 25.0%
!! AGCAATTTCAATGTACTTTT+GGG + chr1.3:18680079-18680098 None:intergenic 25.0%
!! TAGCAATTTCAATGTACTTT+TGG + chr1.3:18680080-18680099 None:intergenic 25.0%
!! TATTAGTTGATATGAAGAGT+AGG + chr1.3:18679744-18679763 None:intergenic 25.0%
!!! GATTTTGAGTTTTGGTTTAT+GGG - chr1.3:18680108-18680127 MS.gene061654:CDS 25.0%
!!! TGATTTTGAGTTTTGGTTTA+TGG - chr1.3:18680107-18680126 MS.gene061654:CDS 25.0%
AATTGATCTCTCACTACAAA+AGG + chr1.3:18679773-18679792 None:intergenic 30.0%
ATAGCTGTTAAGTACATGTT+TGG - chr1.3:18679868-18679887 MS.gene061654:CDS 30.0%
GATAAATCTCACCAATAATG+CGG + chr1.3:18679368-18679387 None:intergenic 30.0%
TGTTATCTATCAACAACATC+TGG - chr1.3:18679706-18679725 MS.gene061654:intron 30.0%
TTTCTTCAAGAGCTATTAGT+TGG - chr1.3:18678890-18678909 MS.gene061654:CDS 30.0%
! AAAAGCTGACAATTTTGCAA+CGG - chr1.3:18679208-18679227 MS.gene061654:intron 30.0%
!! ATTTAGCTGACCATTTTTAG+TGG - chr1.3:18679410-18679429 MS.gene061654:CDS 30.0%
!! ATTTCAATGTACTTTTGGGT+AGG + chr1.3:18680075-18680094 None:intergenic 30.0%
!! GATGAAAAAAAGTGTCTAAG+AGG + chr1.3:18679443-18679462 None:intergenic 30.0%
!!! AGACACTTTTTTTCATCTAG+AGG - chr1.3:18679446-18679465 MS.gene061654:CDS 30.0%
!!! GACACTTTTTTTCATCTAGA+GGG - chr1.3:18679447-18679466 MS.gene061654:CDS 30.0%
!!! TTTAGCTGACCATTTTTAGT+GGG - chr1.3:18679411-18679430 MS.gene061654:CDS 30.0%
AAGTGGAATAATGACCTACA+AGG + chr1.3:18680010-18680029 None:intergenic 35.0%
AATTCCTCGTTACGTAACAT+CGG + chr1.3:18679393-18679412 None:intergenic 35.0%
CAAAGGATTTAGTATCTGCA+TGG + chr1.3:18679944-18679963 None:intergenic 35.0%
CTTATTGTAGTAGTTGGACT+TGG + chr1.3:18678981-18679000 None:intergenic 35.0%
GATTTAGTATCTGCATGGAT+TGG + chr1.3:18679939-18679958 None:intergenic 35.0%
TCACTAGGATGAACAATCTT+GGG - chr1.3:18679183-18679202 MS.gene061654:intron 35.0%
TTAGTGTAAAAGATGGAGAG+AGG - chr1.3:18679665-18679684 MS.gene061654:intron 35.0%
TTATTCCACTTGGCAAGATA+AGG - chr1.3:18680019-18680038 MS.gene061654:intron 35.0%
TTGTAGGTCATTATTCCACT+TGG - chr1.3:18680009-18680028 MS.gene061654:intron 35.0%
! AAAGCTGACAATTTTGCAAC+GGG - chr1.3:18679209-18679228 MS.gene061654:intron 35.0%
! ACAAGAGCATATGAGAAGAA+CGG + chr1.3:18679105-18679124 None:intergenic 35.0%
! GTTCTAATAAAGTGGCCTTT+TGG + chr1.3:18679808-18679827 None:intergenic 35.0%
!!! ACTTTGTTTTGAACTTGTGC+TGG + chr1.3:18679005-18679024 None:intergenic 35.0%
ACAAACCTTATCTTGCCAAG+TGG + chr1.3:18680027-18680046 None:intergenic 40.0%
AGGAGAGATCCCACTAAAAA+TGG + chr1.3:18679423-18679442 None:intergenic 40.0%
CTCACTAGGATGAACAATCT+TGG - chr1.3:18679182-18679201 MS.gene061654:intron 40.0%
CTTAAAGGAAAGCTGAGCTT+AGG - chr1.3:18679592-18679611 MS.gene061654:intron 40.0%
GAGCAAATTCAGTTCTCACT+AGG - chr1.3:18679168-18679187 MS.gene061654:intron 40.0%
GCTGGACTTATTGTAGTAGT+TGG + chr1.3:18678987-18679006 None:intergenic 40.0%
GGAGCTAGAATTCTTCAAGT+TGG - chr1.3:18679613-18679632 MS.gene061654:intron 40.0%
GTACATTGAAATTGCTACGG+TGG - chr1.3:18680083-18680102 MS.gene061654:CDS 40.0%
!! AATTCTTCAAGTTGGAGGAG+TGG - chr1.3:18679621-18679640 MS.gene061654:intron 40.0%
!! GCTAGAATTCTTCAAGTTGG+AGG - chr1.3:18679616-18679635 MS.gene061654:intron 40.0%
!! TTAGTATCTGCATGGATTGG+CGG + chr1.3:18679936-18679955 None:intergenic 40.0%
!!! CGGTGGATGATTTTGAGTTT+TGG - chr1.3:18680100-18680119 MS.gene061654:CDS 40.0%
AAGTATGCTGCTGAGGTGAA+TGG + chr1.3:18678920-18678939 None:intergenic 45.0%
ATTCACCTCAGCAGCATACT+TGG - chr1.3:18678919-18678938 MS.gene061654:CDS 45.0%
GTATCGCGTAGGCAATGTTT+CGG + chr1.3:18679480-18679499 None:intergenic 45.0%
TATCGCGTAGGCAATGTTTC+GGG + chr1.3:18679479-18679498 None:intergenic 45.0%
TTCACCTCAGCAGCATACTT+GGG - chr1.3:18678920-18678939 MS.gene061654:CDS 45.0%
! TCCTTTTACTCGTATCGCGT+AGG + chr1.3:18679491-18679510 None:intergenic 45.0%
!! TCAAGTTGGAGGAGTGGAAA+AGG - chr1.3:18679627-18679646 MS.gene061654:intron 45.0%
ACAACATCTGGTCCTCTAGC+AGG - chr1.3:18679718-18679737 MS.gene061654:intron 50.0%
ATCACCCAAGTATGCTGCTG+AGG + chr1.3:18678927-18678946 None:intergenic 50.0%
ATGAAGAGTAGGCCTGCTAG+AGG + chr1.3:18679733-18679752 None:intergenic 50.0%
GCAACGGGACTCAAAGAACA+TGG - chr1.3:18679224-18679243 MS.gene061654:intron 50.0%
GCCTACGCGATACGAGTAAA+AGG - chr1.3:18679487-18679506 MS.gene061654:CDS 50.0%
TCCACCGATGTTACGTAACG+AGG - chr1.3:18679386-18679405 MS.gene061654:CDS 50.0%
TCCTCGTTACGTAACATCGG+TGG + chr1.3:18679390-18679409 None:intergenic 50.0%
!! GCATGGATTGGCGGTGAGTT+TGG + chr1.3:18679927-18679946 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 18678881 18680188 18678881 ID=MS.gene061654
chr1.3 mRNA 18678881 18680188 18678881 ID=MS.gene061654.t1;Parent=MS.gene061654
chr1.3 exon 18680047 18680188 18680047 ID=MS.gene061654.t1.exon1;Parent=MS.gene061654.t1
chr1.3 CDS 18680047 18680188 18680047 ID=cds.MS.gene061654.t1;Parent=MS.gene061654.t1
chr1.3 exon 18679824 18679904 18679824 ID=MS.gene061654.t1.exon2;Parent=MS.gene061654.t1
chr1.3 CDS 18679824 18679904 18679824 ID=cds.MS.gene061654.t1;Parent=MS.gene061654.t1
chr1.3 exon 18679232 18679506 18679232 ID=MS.gene061654.t1.exon3;Parent=MS.gene061654.t1
chr1.3 CDS 18679232 18679506 18679232 ID=cds.MS.gene061654.t1;Parent=MS.gene061654.t1
chr1.3 exon 18678881 18679054 18678881 ID=MS.gene061654.t1.exon4;Parent=MS.gene061654.t1
chr1.3 CDS 18678881 18679054 18678881 ID=cds.MS.gene061654.t1;Parent=MS.gene061654.t1
Gene Sequence

>MS.gene061654

ATGACTTATTTTCTTCAAGAGCTATTAGTTGGATTTCCATTCACCTCAGCAGCATACTTGGGTGATAATTCATCAAACAGATACTTGATAAATTCTTCCAAGTCCAACTACTACAATAAGTCCAGCACAAGTTCAAAACAAAGTAAGAAATCTTTTAATTTAAATTTAATCTTCATTGATCAAGTATTTACCAAGAAATATAAAGAAAAACTTTATTTGATCCGTTCTTCTCATATGCTCTTGTTGTATTCACAATATTGAAAATCATTATTTTTTCTCTTCAGGTAGAGCAAATTCAGTTCTCACTAGGATGAACAATCTTGGGAGAAAAGCTGACAATTTTGCAACGGGACTCAAAGAACATGGTATACACATATACTAATATAATTAGTTTGCACATGTCTAAATAATTTACTAAATTTTAGAACTAGTATGTTAGTATTTCTCAACAATATAATATACAATAAATTTGTAATTTTTTTAACCGCATTATTGGTGAGATTTATCCACCGATGTTACGTAACGAGGAATTTAGCTGACCATTTTTAGTGGGATCTCTCCTCTTAGACACTTTTTTTCATCTAGAGGGCTTCAACCCGAAACATTGCCTACGCGATACGAGTAAAAGGATTCTAGTCTAGACTCGAGACGTCACTTATAATGTTATTTTTTAACAATGTAGTGAAACTTGGTTCAAACATAACTGATACACTTAAAGGAAAGCTGAGCTTAGGAGCTAGAATTCTTCAAGTTGGAGGAGTGGAAAAGGTGTTCATGCAACTATTTAGTGTAAAAGATGGAGAGAGGCTACTAAAAGCATCTCAATGTTATCTATCAACAACATCTGGTCCTCTAGCAGGCCTACTCTTCATATCAACTAATAAAATTTCCTTTTGTAGTGAGAGATCAATTAAAATCTCTTCTCCAAAAGGCCACTTTATTAGAACACATTACAAGGTAATAATACACATATTGATTTGTATAAAAATAGCTGTTAAGTACATGTTTGGATCGATAGTGAGTTTGACTAAATCGTGATTTCTCCAAACTCACCGCCAATCCATGCAGATACTAAATCCTTTGCTTCATATGATTTTTAATCTCATAAACATTGTAATTTATCTATCCTTGTAGGTCATTATTCCACTTGGCAAGATAAGGTTTGTTAATCAAAGTGAGCATGTGAAGAAGCCTACCCAAAAGTACATTGAAATTGCTACGGTGGATGATTTTGAGTTTTGGTTTATGGGTTTCTTAAATCATCAGCAAGCTTTCAAATATTTGAAGCAAGCTATCTCTCAATCTTAG

Protein sequence

>MS.gene061654.t1

MTYFLQELLVGFPFTSAAYLGDNSSNRYLINSSKSNYYNKSSTSSKQSRANSVLTRMNNLGRKADNFATGLKEHVKLGSNITDTLKGKLSLGARILQVGGVEKVFMQLFSVKDGERLLKASQCYLSTTSGPLAGLLFISTNKISFCSERSIKISSPKGHFIRTHYKVIIPLGKIRFVNQSEHVKKPTQKYIEIATVDDFEFWFMGFLNHQQAFKYLKQAISQS