AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene90969


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene90969.t1 MTR_4g073950 99.479 192 1 0 1 192 1 192 9.06e-144 397
MS.gene90969.t1 MTR_4g013350 55.921 152 66 1 41 192 47 197 1.09e-60 187
MS.gene90969.t1 MTR_4g013330 54.902 153 68 1 41 192 47 199 2.56e-59 184
MS.gene90969.t1 MTR_4g013320 53.947 152 69 1 41 192 49 199 2.78e-57 179
MS.gene90969.t1 MTR_4g013345 53.289 152 70 1 41 192 46 196 1.22e-56 177
MS.gene90969.t1 MTR_4g013325 52.055 146 69 1 47 192 55 199 6.43e-54 171
MS.gene90969.t1 MTR_7g093820 48.205 195 95 4 3 192 1 194 7.57e-52 165
MS.gene90969.t1 MTR_7g093830 52.941 153 70 2 41 192 42 193 1.31e-51 164
MS.gene90969.t1 MTR_4g013335 48.684 152 75 1 41 192 48 196 7.09e-51 162
MS.gene90969.t1 MTR_7g093850 51.634 153 72 2 41 192 43 194 1.11e-50 162
MS.gene90969.t1 MTR_7g070390 47.647 170 82 2 23 192 30 192 2.30e-49 159
MS.gene90969.t1 MTR_1g054525 50.000 152 73 2 41 192 44 192 2.38e-49 159
MS.gene90969.t1 MTR_7g093790 47.712 153 78 2 41 192 40 191 1.66e-45 149
MS.gene90969.t1 MTR_4g013385 44.444 153 83 1 40 192 40 190 2.40e-45 148
MS.gene90969.t1 MTR_0433s0040 44.444 153 83 1 40 192 40 190 2.40e-45 148
MS.gene90969.t1 MTR_4g074020 78.313 83 18 0 3 85 1 83 2.06e-44 143
MS.gene90969.t1 MTR_3g105640 46.053 152 81 1 42 192 37 188 2.85e-44 145
MS.gene90969.t1 MTR_4g013310 47.020 151 77 2 42 192 50 197 3.12e-44 145
MS.gene90969.t1 MTR_7g093870 42.424 165 91 2 32 192 29 193 5.47e-43 143
MS.gene90969.t1 MTR_1g056370 42.208 154 86 2 39 191 34 185 1.04e-42 141
MS.gene90969.t1 MTR_4g013770 42.105 152 88 0 41 192 40 191 1.58e-42 141
MS.gene90969.t1 MTR_5g096120 45.033 151 78 3 46 192 40 189 7.52e-40 134
MS.gene90969.t1 MTR_3g105630 38.542 192 110 4 4 192 3 189 4.50e-38 130
MS.gene90969.t1 MTR_4g078885 38.667 150 89 1 43 192 39 185 4.15e-35 122
MS.gene90969.t1 MTR_3g034030 37.333 150 91 1 43 192 39 185 1.70e-33 118
MS.gene90969.t1 MTR_4g013355 40.260 154 79 3 40 192 38 179 7.77e-33 116
MS.gene90969.t1 MTR_4g122110 39.216 153 92 1 40 192 29 180 6.18e-30 108
MS.gene90969.t1 MTR_4g122130 38.217 157 95 2 36 192 26 180 1.18e-28 105
MS.gene90969.t1 MTR_4g049550 32.432 148 99 1 42 189 29 175 1.94e-18 79.0
MS.gene90969.t1 MTR_8g099115 32.624 141 87 3 38 171 29 168 4.89e-18 78.2
MS.gene90969.t1 MTR_4g049570 31.944 144 97 1 46 189 33 175 8.74e-18 77.4
MS.gene90969.t1 MTR_8g099135 29.240 171 97 4 8 171 11 164 3.08e-15 70.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene90969.t1 AT2G21100 57.895 190 76 3 3 191 1 187 2.95e-79 234
MS.gene90969.t1 AT2G21100 57.895 190 76 3 3 191 1 187 2.95e-79 234
MS.gene90969.t1 AT1G58170 47.853 163 80 2 34 192 24 185 3.42e-50 160
MS.gene90969.t1 AT5G42510 52.258 155 71 2 37 191 31 182 1.07e-49 159
MS.gene90969.t1 AT5G49040 42.857 189 101 3 10 192 4 191 6.24e-48 155
MS.gene90969.t1 AT5G42500 50.649 154 73 2 38 191 35 185 2.66e-47 153
MS.gene90969.t1 AT1G55210 45.395 152 79 1 41 192 40 187 9.25e-47 152
MS.gene90969.t1 AT1G55210 45.395 152 79 1 41 192 40 187 9.25e-47 152
MS.gene90969.t1 AT3G13650 39.683 189 100 3 8 192 8 186 2.17e-46 151
MS.gene90969.t1 AT1G65870 46.452 155 82 1 37 191 36 189 3.07e-44 145
MS.gene90969.t1 AT1G22900 46.452 155 80 2 37 191 42 193 2.52e-43 143
MS.gene90969.t1 AT2G21110 47.097 155 79 1 41 192 32 186 1.24e-42 141
MS.gene90969.t1 AT3G13662 39.306 173 99 2 9 179 4 172 8.92e-40 134
MS.gene90969.t1 AT3G13660 49.565 115 58 0 78 192 11 125 2.43e-38 128
MS.gene90969.t1 AT5G49030 47.826 138 71 1 41 178 41 177 4.23e-37 136
MS.gene90969.t1 AT4G38700 39.103 156 90 3 42 192 35 190 1.34e-36 126
MS.gene90969.t1 AT3G58090 49.541 109 55 0 83 191 163 271 1.56e-30 112
MS.gene90969.t1 AT4G11210 35.417 96 61 1 80 175 72 166 1.81e-13 65.9
MS.gene90969.t1 AT4G11190 31.496 127 85 2 50 175 41 166 3.17e-11 60.1

Find 53 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGCCCACGAGCTTGGATTT+TGG 0.153982 4.2:-34683808 None:intergenic
ATGCCTGTTGTTGGTGGTAC+TGG 0.188780 4.2:+34683973 MS.gene90969:CDS
GGATCAGATGTTTCAGTTAA+AGG 0.192736 4.2:-34683787 None:intergenic
TGAATTTAAAAGCAGGGAAT+TGG 0.267666 4.2:+34683599 MS.gene90969:CDS
TTTAAATTCAAGCTTTGAAT+TGG 0.322119 4.2:-34683586 None:intergenic
GGTAGCACATTTGCTCTTGT+TGG 0.341517 4.2:+34683919 MS.gene90969:CDS
GAACTGTGTAAGGTATGTTT+TGG 0.344125 4.2:-34683740 None:intergenic
GAATTTAAAAGCAGGGAATT+GGG 0.356220 4.2:+34683600 MS.gene90969:CDS
TCAGCCACCTTGATCGCGCT+TGG 0.357391 4.2:-34683703 None:intergenic
ATGCCATTGCTAAGACTCAT+TGG 0.391423 4.2:+34684019 MS.gene90969:CDS
TTTGTGGATGGGCCGTATAA+TGG 0.409954 4.2:+34683898 MS.gene90969:CDS
CAGCCACCTTGATCGCGCTT+GGG 0.411876 4.2:-34683702 None:intergenic
GCAAATGTGCTACCATTATA+CGG 0.416384 4.2:-34683910 None:intergenic
TGCCTGTTGTTGGTGGTACT+GGG 0.417635 4.2:+34683974 MS.gene90969:CDS
TTGAGCTACTCCTTTGTGGA+TGG 0.418314 4.2:+34683886 MS.gene90969:CDS
ACAACAGGCATCTCACGAAC+CGG 0.421283 4.2:-34683961 None:intergenic
TCATCGTGTCAGCAGGAGAT+TGG 0.421466 4.2:+34683850 MS.gene90969:CDS
GTCGTTGAGCTACTCCTTTG+TGG 0.422168 4.2:+34683882 MS.gene90969:CDS
AAATTCAAGCTTTGAATTGG+TGG 0.434298 4.2:-34683583 None:intergenic
TTGTGCTCGGCCCACGAGCT+TGG 0.436650 4.2:-34683815 None:intergenic
CATCGTGTCAGCAGGAGATT+GGG 0.452951 4.2:+34683851 MS.gene90969:CDS
TGCCATTGCTAAGACTCATT+GGG 0.463052 4.2:+34684020 MS.gene90969:CDS
TAATGTTTCCGAACTGTGTA+AGG 0.464436 4.2:-34683750 None:intergenic
TCACGAACCGGGTTCATAGC+AGG 0.470658 4.2:-34683949 None:intergenic
CAAAGCTTGAATTTAAAAGC+AGG 0.474536 4.2:+34683592 MS.gene90969:CDS
AAAACATACCTTACACAGTT+CGG 0.481108 4.2:+34683742 MS.gene90969:CDS
GTTCGTGAGATGCCTGTTGT+TGG 0.484455 4.2:+34683964 MS.gene90969:CDS
TGTCGTGGAAATAGAATTGA+AGG 0.486021 4.2:-34683663 None:intergenic
ACTACCGGTGATGCTATTGT+TGG 0.488037 4.2:+34684051 MS.gene90969:CDS
AGCCCAGTACCACCAACAAC+AGG 0.489992 4.2:-34683976 None:intergenic
TGAGCTACTCCTTTGTGGAT+GGG 0.497718 4.2:+34683887 MS.gene90969:CDS
TTCAAGCTTTGAATTGGTGG+TGG 0.503760 4.2:-34683580 None:intergenic
TTACGCGTCATCGTGTCAGC+AGG 0.513526 4.2:+34683843 MS.gene90969:CDS
AAAGCTTGAATTTAAAAGCA+GGG 0.524166 4.2:+34683593 MS.gene90969:CDS
CGTGAGATGCCTGTTGTTGG+TGG 0.528918 4.2:+34683967 MS.gene90969:CDS
TATTTCCACGACACACTAAG+TGG 0.531204 4.2:+34683673 MS.gene90969:CDS
CATTGGGTTGATATTACTAC+CGG 0.532156 4.2:+34684036 MS.gene90969:CDS
TGGCATAGCCCCTTGCCATA+CGG 0.538002 4.2:-34684002 None:intergenic
AAGCTCGTGGGCCGAGCACA+AGG 0.551866 4.2:+34683817 MS.gene90969:CDS
ACAGTTCGGAAACATTATGA+TGG 0.564400 4.2:+34683756 MS.gene90969:CDS
AATTTAAAAGCAGGGAATTG+GGG 0.569985 4.2:+34683601 MS.gene90969:CDS
CACGAACCGGGTTCATAGCA+GGG 0.575135 4.2:-34683948 None:intergenic
TGATCCAAAATCCAAGCTCG+TGG 0.590503 4.2:+34683804 MS.gene90969:CDS
CAACAGGCATCTCACGAACC+GGG 0.593590 4.2:-34683960 None:intergenic
GTAGCCAACAATAGCATCAC+CGG 0.603346 4.2:-34684055 None:intergenic
ACGCGTAAATACCTTGTGCT+CGG 0.608058 4.2:-34683828 None:intergenic
AAAGAACCCTGCTATGAACC+CGG 0.622651 4.2:+34683942 MS.gene90969:CDS
AACCCAATGAGTCTTAGCAA+TGG 0.636728 4.2:-34684022 None:intergenic
GATCCAAAATCCAAGCTCGT+GGG 0.650480 4.2:+34683805 MS.gene90969:CDS
ATGCTATTAATAATGAACGA+GGG 0.675318 4.2:-34684085 None:intergenic
ATTATACGGCCCATCCACAA+AGG 0.683112 4.2:-34683896 None:intergenic
AAACCCAAGCGCGATCAAGG+TGG 0.710921 4.2:+34683699 MS.gene90969:CDS
AATGCTATTAATAATGAACG+AGG 0.738092 4.2:-34684086 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTAAATTCAAGCTTTGAAT+TGG - chr4.2:34683589-34683608 None:intergenic 20.0%
! AAAGCTTGAATTTAAAAGCA+GGG + chr4.2:34683593-34683612 MS.gene90969:CDS 25.0%
AAAACATACCTTACACAGTT+CGG + chr4.2:34683742-34683761 MS.gene90969:CDS 30.0%
AATTTAAAAGCAGGGAATTG+GGG + chr4.2:34683601-34683620 MS.gene90969:CDS 30.0%
CAAAGCTTGAATTTAAAAGC+AGG + chr4.2:34683592-34683611 MS.gene90969:CDS 30.0%
GAATTTAAAAGCAGGGAATT+GGG + chr4.2:34683600-34683619 MS.gene90969:CDS 30.0%
TGAATTTAAAAGCAGGGAAT+TGG + chr4.2:34683599-34683618 MS.gene90969:CDS 30.0%
!! AAATTCAAGCTTTGAATTGG+TGG - chr4.2:34683586-34683605 None:intergenic 30.0%
ACAGTTCGGAAACATTATGA+TGG + chr4.2:34683756-34683775 MS.gene90969:CDS 35.0%
GCAAATGTGCTACCATTATA+CGG - chr4.2:34683913-34683932 None:intergenic 35.0%
GGATCAGATGTTTCAGTTAA+AGG - chr4.2:34683790-34683809 None:intergenic 35.0%
TAATGTTTCCGAACTGTGTA+AGG - chr4.2:34683753-34683772 None:intergenic 35.0%
TGTCGTGGAAATAGAATTGA+AGG - chr4.2:34683666-34683685 None:intergenic 35.0%
! GAACTGTGTAAGGTATGTTT+TGG - chr4.2:34683743-34683762 None:intergenic 35.0%
!! CATTGGGTTGATATTACTAC+CGG + chr4.2:34684036-34684055 MS.gene90969:CDS 35.0%
!!! TATGTTTTGGTCTTGTCTAC+AGG - chr4.2:34683730-34683749 None:intergenic 35.0%
AACCCAATGAGTCTTAGCAA+TGG - chr4.2:34684025-34684044 None:intergenic 40.0%
ATGCCATTGCTAAGACTCAT+TGG + chr4.2:34684019-34684038 MS.gene90969:CDS 40.0%
TATTTCCACGACACACTAAG+TGG + chr4.2:34683673-34683692 MS.gene90969:CDS 40.0%
TGCCATTGCTAAGACTCATT+GGG + chr4.2:34684020-34684039 MS.gene90969:CDS 40.0%
! TTTTTCCACTTAGTGTGTCG+TGG - chr4.2:34683681-34683700 None:intergenic 40.0%
!! TTCAAGCTTTGAATTGGTGG+TGG - chr4.2:34683583-34683602 None:intergenic 40.0%
AAAAAACCCAAGCGCGATCA+AGG + chr4.2:34683696-34683715 MS.gene90969:CDS 45.0%
AAAGAACCCTGCTATGAACC+CGG + chr4.2:34683942-34683961 MS.gene90969:CDS 45.0%
ACGCGTAAATACCTTGTGCT+CGG - chr4.2:34683831-34683850 None:intergenic 45.0%
ACTACCGGTGATGCTATTGT+TGG + chr4.2:34684051-34684070 MS.gene90969:CDS 45.0%
ATTATACGGCCCATCCACAA+AGG - chr4.2:34683899-34683918 None:intergenic 45.0%
GATCCAAAATCCAAGCTCGT+GGG + chr4.2:34683805-34683824 MS.gene90969:CDS 45.0%
GGTAGCACATTTGCTCTTGT+TGG + chr4.2:34683919-34683938 MS.gene90969:CDS 45.0%
GTAGCCAACAATAGCATCAC+CGG - chr4.2:34684058-34684077 None:intergenic 45.0%
TGAGCTACTCCTTTGTGGAT+GGG + chr4.2:34683887-34683906 MS.gene90969:CDS 45.0%
TGATCCAAAATCCAAGCTCG+TGG + chr4.2:34683804-34683823 MS.gene90969:CDS 45.0%
TTGAGCTACTCCTTTGTGGA+TGG + chr4.2:34683886-34683905 MS.gene90969:CDS 45.0%
TTTGTGGATGGGCCGTATAA+TGG + chr4.2:34683898-34683917 MS.gene90969:CDS 45.0%
ACAACAGGCATCTCACGAAC+CGG - chr4.2:34683964-34683983 None:intergenic 50.0%
CATCGTGTCAGCAGGAGATT+GGG + chr4.2:34683851-34683870 MS.gene90969:CDS 50.0%
GTCGTTGAGCTACTCCTTTG+TGG + chr4.2:34683882-34683901 MS.gene90969:CDS 50.0%
GTTCGTGAGATGCCTGTTGT+TGG + chr4.2:34683964-34683983 MS.gene90969:CDS 50.0%
TCATCGTGTCAGCAGGAGAT+TGG + chr4.2:34683850-34683869 MS.gene90969:CDS 50.0%
! TGGGCTTTTCCGTATGGCAA+GGG + chr4.2:34683993-34684012 MS.gene90969:CDS 50.0%
!! ATGCCTGTTGTTGGTGGTAC+TGG + chr4.2:34683973-34683992 MS.gene90969:CDS 50.0%
!! TGCCTGTTGTTGGTGGTACT+GGG + chr4.2:34683974-34683993 MS.gene90969:CDS 50.0%
!! TGGTACTGGGCTTTTCCGTA+TGG + chr4.2:34683987-34684006 MS.gene90969:CDS 50.0%
AAACCCAAGCGCGATCAAGG+TGG + chr4.2:34683699-34683718 MS.gene90969:CDS 55.0%
AGCCCAGTACCACCAACAAC+AGG - chr4.2:34683979-34683998 None:intergenic 55.0%
CAACAGGCATCTCACGAACC+GGG - chr4.2:34683963-34683982 None:intergenic 55.0%
CACGAACCGGGTTCATAGCA+GGG - chr4.2:34683951-34683970 None:intergenic 55.0%
CGTGAGATGCCTGTTGTTGG+TGG + chr4.2:34683967-34683986 MS.gene90969:CDS 55.0%
TCACGAACCGGGTTCATAGC+AGG - chr4.2:34683952-34683971 None:intergenic 55.0%
TGGCATAGCCCCTTGCCATA+CGG - chr4.2:34684005-34684024 None:intergenic 55.0%
TTACGCGTCATCGTGTCAGC+AGG + chr4.2:34683843-34683862 MS.gene90969:CDS 55.0%
! CTGGGCTTTTCCGTATGGCA+AGG + chr4.2:34683992-34684011 MS.gene90969:CDS 55.0%
! GGGCTTTTCCGTATGGCAAG+GGG + chr4.2:34683994-34684013 MS.gene90969:CDS 55.0%
CAGCCACCTTGATCGCGCTT+GGG - chr4.2:34683705-34683724 None:intergenic 60.0%
TCAGCCACCTTGATCGCGCT+TGG - chr4.2:34683706-34683725 None:intergenic 60.0%
! CGGCCCACGAGCTTGGATTT+TGG - chr4.2:34683811-34683830 None:intergenic 60.0%
AAGCTCGTGGGCCGAGCACA+AGG + chr4.2:34683817-34683836 MS.gene90969:CDS 65.0%
TTGTGCTCGGCCCACGAGCT+TGG - chr4.2:34683818-34683837 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 34683523 34684101 34683523 ID=MS.gene90969
chr4.2 mRNA 34683523 34684101 34683523 ID=MS.gene90969.t1;Parent=MS.gene90969
chr4.2 exon 34683523 34684101 34683523 ID=MS.gene90969.t1.exon1;Parent=MS.gene90969.t1
chr4.2 CDS 34683523 34684101 34683523 ID=cds.MS.gene90969.t1;Parent=MS.gene90969.t1
Gene Sequence

>MS.gene90969

ATGAAAATGTCTAAGCAAAATGTGCTTGTGATGATACTTCTAATAAGTGCTATACTTCCACCACCAATTCAAAGCTTGAATTTAAAAGCAGGGAATTGGGGTGAAACTTTTCAAAACAAGAAACAAGAAACAGAAACAAACCTTCAATTCTATTTCCACGACACACTAAGTGGAAAAAACCCAAGCGCGATCAAGGTGGCTGAACCTGTAGACAAGACCAAAACATACCTTACACAGTTCGGAAACATTATGATGGCAGATGATCCTTTAACTGAAACATCTGATCCAAAATCCAAGCTCGTGGGCCGAGCACAAGGTATTTACGCGTCATCGTGTCAGCAGGAGATTGGGCTTCTTATGTCGTTGAGCTACTCCTTTGTGGATGGGCCGTATAATGGTAGCACATTTGCTCTTGTTGGAAAGAACCCTGCTATGAACCCGGTTCGTGAGATGCCTGTTGTTGGTGGTACTGGGCTTTTCCGTATGGCAAGGGGCTATGCCATTGCTAAGACTCATTGGGTTGATATTACTACCGGTGATGCTATTGTTGGCTACAATGTCACCCTCGTTCATTATTAA

Protein sequence

>MS.gene90969.t1

MKMSKQNVLVMILLISAILPPPIQSLNLKAGNWGETFQNKKQETETNLQFYFHDTLSGKNPSAIKVAEPVDKTKTYLTQFGNIMMADDPLTETSDPKSKLVGRAQGIYASSCQQEIGLLMSLSYSFVDGPYNGSTFALVGKNPAMNPVREMPVVGGTGLFRMARGYAIAKTHWVDITTGDAIVGYNVTLVHY