AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene72337


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene72337.t1 MTR_4g101990 83.146 89 10 1 4 87 142 230 1.41e-44 147
MS.gene72337.t1 MTR_8g036160 81.690 71 13 0 17 87 158 228 2.21e-35 123
MS.gene72337.t1 MTR_7g074935 84.722 72 10 1 16 87 142 212 8.03e-35 121
MS.gene72337.t1 MTR_1g076710 65.169 89 24 3 4 87 132 218 1.06e-26 100
MS.gene72337.t1 MTR_6g061670 56.180 89 33 2 4 87 123 210 3.61e-21 85.5
MS.gene72337.t1 MTR_6g061670 56.180 89 33 2 4 87 128 215 4.06e-21 85.5
MS.gene72337.t1 MTR_1g061530 59.722 72 27 2 17 87 157 227 2.65e-20 83.6
MS.gene72337.t1 MTR_5g011620 61.111 72 22 1 16 87 130 195 3.59e-20 84.0
MS.gene72337.t1 MTR_8g098390 59.155 71 28 1 17 87 182 251 5.98e-19 79.7
MS.gene72337.t1 MTR_8g031100 53.521 71 32 1 17 87 171 240 1.47e-18 78.6
MS.gene72337.t1 MTR_5g011680 56.579 76 28 2 16 87 157 231 8.51e-18 76.3
MS.gene72337.t1 MTR_5g010330 54.930 71 31 1 17 87 150 219 1.58e-17 75.5
MS.gene72337.t1 MTR_7g116320 52.857 70 29 1 17 86 159 224 1.97e-17 75.9
MS.gene72337.t1 MTR_7g116320 52.857 70 29 1 17 86 159 224 3.17e-17 74.3
MS.gene72337.t1 MTR_4g055803 59.459 74 26 3 17 87 141 213 3.80e-17 75.1
MS.gene72337.t1 MTR_5g011610 55.556 72 26 1 16 87 73 138 2.46e-16 72.4
MS.gene72337.t1 MTR_5g011610 52.113 71 30 1 17 87 228 294 2.39e-13 64.3
MS.gene72337.t1 MTR_4g055813 69.231 52 15 1 17 67 35 86 7.16e-16 70.9
MS.gene72337.t1 MTR_4g098460 57.746 71 28 2 17 87 97 165 2.80e-15 69.3
MS.gene72337.t1 MTR_1g079780 60.345 58 19 1 29 86 138 191 1.69e-14 67.4
MS.gene72337.t1 MTR_4g055833 58.462 65 24 2 17 78 138 202 4.20e-14 66.2
MS.gene72337.t1 MTR_4g098460 53.947 76 28 3 17 87 97 170 4.06e-13 63.2
MS.gene72337.t1 MTR_7g080980 41.026 78 44 1 6 81 87 164 5.04e-13 62.8
MS.gene72337.t1 MTR_7g077120 50.704 71 34 1 17 87 173 242 9.89e-13 62.4
MS.gene72337.t1 MTR_3g068035 47.458 59 31 0 18 76 123 181 1.08e-12 62.4
MS.gene72337.t1 MTR_8g036060 50.000 66 31 1 6 69 116 181 2.67e-12 61.2
MS.gene72337.t1 MTR_4g098450 43.548 62 35 0 18 79 120 181 4.19e-12 60.5
MS.gene72337.t1 MTR_5g011520 51.923 52 25 0 18 69 144 195 1.32e-11 59.3
MS.gene72337.t1 MTR_5g091630 43.939 66 35 1 13 76 84 149 4.23e-11 57.4
MS.gene72337.t1 MTR_1g073860 43.333 60 34 0 18 77 138 197 4.40e-11 57.8
MS.gene72337.t1 MTR_1g044155 42.373 59 34 0 18 76 170 228 5.31e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene72337.t1 AT4G12080 86.111 72 9 1 16 87 185 255 1.71e-37 129
MS.gene72337.t1 AT4G00200 67.416 89 23 2 4 87 121 208 1.39e-31 112
MS.gene72337.t1 AT4G00200 67.416 89 23 2 4 87 121 208 1.39e-31 112
MS.gene72337.t1 AT4G22770 77.465 71 15 1 17 87 166 235 9.78e-31 111
MS.gene72337.t1 AT4G22770 77.465 71 15 1 17 87 166 235 9.78e-31 111
MS.gene72337.t1 AT5G51590 75.000 72 17 1 16 87 193 263 1.55e-28 106
MS.gene72337.t1 AT4G25320 63.636 88 26 2 4 86 164 250 2.11e-28 105
MS.gene72337.t1 AT5G62260 69.444 72 21 1 16 87 175 245 5.27e-27 100
MS.gene72337.t1 AT5G62260 69.444 72 21 1 16 87 175 245 1.41e-26 100
MS.gene72337.t1 AT5G62260 69.444 72 21 1 16 87 175 245 1.41e-26 100
MS.gene72337.t1 AT2G33620 64.789 71 24 1 17 87 179 248 4.93e-22 88.2
MS.gene72337.t1 AT2G33620 64.789 71 24 1 17 87 179 248 4.93e-22 88.2
MS.gene72337.t1 AT2G33620 64.789 71 24 1 17 87 179 248 4.93e-22 88.2
MS.gene72337.t1 AT2G33620 64.789 71 24 1 17 87 179 248 4.93e-22 88.2
MS.gene72337.t1 AT1G63480 61.972 71 26 1 17 87 170 239 7.47e-22 87.8
MS.gene72337.t1 AT1G63480 61.972 71 26 1 17 87 170 239 7.47e-22 87.8
MS.gene72337.t1 AT1G63480 61.972 71 26 1 17 87 170 239 7.47e-22 87.8
MS.gene72337.t1 AT1G63480 61.972 71 26 1 17 87 170 239 7.47e-22 87.8
MS.gene72337.t1 AT1G63480 61.972 71 26 1 17 87 170 239 7.47e-22 87.8
MS.gene72337.t1 AT1G63480 61.972 71 26 1 17 87 176 245 7.79e-22 87.8
MS.gene72337.t1 AT1G63480 61.972 71 26 1 17 87 176 245 7.79e-22 87.8
MS.gene72337.t1 AT1G63470 60.563 71 27 1 17 87 193 262 2.90e-21 86.3
MS.gene72337.t1 AT3G61310 47.191 89 44 2 1 87 162 249 1.72e-18 78.6
MS.gene72337.t1 AT2G45850 48.315 89 43 2 1 87 160 247 2.61e-18 78.2
MS.gene72337.t1 AT2G45850 48.315 89 43 2 1 87 160 247 2.61e-18 78.2
MS.gene72337.t1 AT2G45850 48.315 89 43 2 1 87 160 247 3.56e-18 77.0
MS.gene72337.t1 AT4G17950 54.795 73 30 2 17 87 237 308 6.75e-18 77.4
MS.gene72337.t1 AT3G04590 52.113 71 30 1 17 87 187 253 1.39e-16 73.2
MS.gene72337.t1 AT3G04590 52.113 71 30 1 17 87 187 253 3.07e-16 72.8
MS.gene72337.t1 AT5G46640 53.521 71 32 1 17 87 196 265 1.54e-15 70.5
MS.gene72337.t1 AT4G17800 41.935 62 36 0 18 79 126 187 4.76e-12 60.5
MS.gene72337.t1 AT2G42940 54.902 51 23 0 20 70 99 149 7.22e-12 59.7
MS.gene72337.t1 AT4G14465 45.000 60 33 0 18 77 111 170 3.67e-11 57.8
MS.gene72337.t1 AT2G35270 40.323 62 37 0 18 79 122 183 4.70e-11 57.8

Find 24 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCGTCAGCCCGATTCTTC+TGG 0.153062 8.4:-22993867 MS.gene72337:CDS
TTTGAAATTCTGTCTTTATC+TGG 0.274522 8.4:-22993641 MS.gene72337:CDS
TTCGTCAGCCCGATTCTTCT+GGG 0.316075 8.4:-22993866 MS.gene72337:CDS
GTTCCTCCTCCACTTTCATT+TGG 0.347793 8.4:+22993608 None:intergenic
GAGAAAATGAAATAACCTTC+AGG 0.395203 8.4:+22993949 None:intergenic
TTTGTGTGTATGGTTATGTT+AGG 0.395916 8.4:-22993978 MS.gene72337:CDS
GGAGGAACACGAAGCAGATC+AGG 0.444348 8.4:-22993593 MS.gene72337:CDS
GTATGCATTCTTTCAGCAAA+TGG 0.463040 8.4:-22993909 MS.gene72337:CDS
AGTCCTGATGGACGTGTTGT+TGG 0.477746 8.4:-22993549 MS.gene72337:CDS
CCGCCAACAACACGTCCATC+AGG 0.492937 8.4:+22993546 None:intergenic
ACAAAATTGCTGACAATCAT+CGG 0.525956 8.4:+22993996 None:intergenic
TCGTCAGCCCGATTCTTCTG+GGG 0.541650 8.4:-22993865 MS.gene72337:CDS
CCTGATGGACGTGTTGTTGG+CGG 0.547329 8.4:-22993546 MS.gene72337:CDS
ATGCCAAATGAAAGTGGAGG+AGG 0.551611 8.4:-22993611 MS.gene72337:CDS
CAGGCGGCATGAGTGTGTCT+TGG 0.556024 8.4:-22993574 MS.gene72337:CDS
TCGTTCATGCCAAATGAAAG+TGG 0.559940 8.4:-22993617 MS.gene72337:CDS
TGTGTCTTGGCAAGTCCTGA+TGG 0.566228 8.4:-22993561 MS.gene72337:CDS
CGTCAGCCCGATTCTTCTGG+GGG 0.586127 8.4:-22993864 MS.gene72337:CDS
GATGGACGTGTTGTTGGCGG+AGG 0.605100 8.4:-22993543 MS.gene72337:CDS
GAAAGAATGCATACCGCTCG+AGG 0.613852 8.4:+22993918 None:intergenic
TATGTTAGGATGTTACCTGA+AGG 0.616476 8.4:-22993964 MS.gene72337:CDS
TTCTCAGCAAGGACCTCGAG+CGG 0.641808 8.4:-22993931 MS.gene72337:CDS
GGAACACGAAGCAGATCAGG+CGG 0.674892 8.4:-22993590 MS.gene72337:CDS
TTCATGCCAAATGAAAGTGG+AGG 0.721594 8.4:-22993614 MS.gene72337:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TATAGAAGAGAACTTTCATT+TGG - chr8.4:22993743-22993762 MS.gene72337:intron 25.0%
!! TTTGAAATTCTGTCTTTATC+TGG - chr8.4:22993890-22993909 MS.gene72337:CDS 25.0%
GAGAAAATGAAATAACCTTC+AGG + chr8.4:22993585-22993604 None:intergenic 30.0%
GTAGATCATTAAATGCATTG+TGG + chr8.4:22993771-22993790 None:intergenic 30.0%
TGAAAGTTCTCTTCTATAGA+TGG + chr8.4:22993741-22993760 None:intergenic 30.0%
TTTGTGTGTATGGTTATGTT+AGG - chr8.4:22993553-22993572 MS.gene72337:CDS 30.0%
!! GTTATTTCATTTTCTCAGCA+AGG - chr8.4:22993589-22993608 MS.gene72337:CDS 30.0%
ATCCCACTATATGCTCAAAA+AGG + chr8.4:22993820-22993839 None:intergenic 35.0%
GTATGCATTCTTTCAGCAAA+TGG - chr8.4:22993622-22993641 MS.gene72337:CDS 35.0%
TATGTTAGGATGTTACCTGA+AGG - chr8.4:22993567-22993586 MS.gene72337:CDS 35.0%
! TGTCAGCAATTTTGTGTGTA+TGG - chr8.4:22993543-22993562 MS.gene72337:CDS 35.0%
!! TGCCTTTTTGAGCATATAGT+GGG - chr8.4:22993815-22993834 MS.gene72337:intron 35.0%
!! TTTTGAGCATATAGTGGGAT+TGG - chr8.4:22993820-22993839 MS.gene72337:intron 35.0%
TCGTTCATGCCAAATGAAAG+TGG - chr8.4:22993914-22993933 MS.gene72337:CDS 40.0%
TTCATGCCAAATGAAAGTGG+AGG - chr8.4:22993917-22993936 MS.gene72337:CDS 40.0%
!! ACTTATCTCGGTGTTTCTAC+AGG - chr8.4:22993862-22993881 MS.gene72337:CDS 40.0%
!! CTTATCTCGGTGTTTCTACA+GGG - chr8.4:22993863-22993882 MS.gene72337:CDS 40.0%
!! GTGCCTTTTTGAGCATATAG+TGG - chr8.4:22993814-22993833 MS.gene72337:intron 40.0%
ATGCCAAATGAAAGTGGAGG+AGG - chr8.4:22993920-22993939 MS.gene72337:CDS 45.0%
GCACGCACAGTTACTTATCT+CGG - chr8.4:22993850-22993869 MS.gene72337:CDS 45.0%
GTTCCTCCTCCACTTTCATT+TGG + chr8.4:22993926-22993945 None:intergenic 45.0%
AATGTGCCCCCAGAAGAATC+GGG + chr8.4:22993676-22993695 None:intergenic 50.0%
CAATGTGCCCCCAGAAGAAT+CGG + chr8.4:22993677-22993696 None:intergenic 50.0%
GAAAGAATGCATACCGCTCG+AGG + chr8.4:22993616-22993635 None:intergenic 50.0%
TGTGTCTTGGCAAGTCCTGA+TGG - chr8.4:22993970-22993989 MS.gene72337:CDS 50.0%
TTCGTCAGCCCGATTCTTCT+GGG - chr8.4:22993665-22993684 MS.gene72337:intron 50.0%
! AGTCCTGATGGACGTGTTGT+TGG - chr8.4:22993982-22994001 MS.gene72337:CDS 50.0%
! TGGGGGCACATTGACATATG+AGG - chr8.4:22993684-22993703 MS.gene72337:intron 50.0%
CTTCGTCAGCCCGATTCTTC+TGG - chr8.4:22993664-22993683 MS.gene72337:intron 55.0%
GGAACACGAAGCAGATCAGG+CGG - chr8.4:22993941-22993960 MS.gene72337:CDS 55.0%
GGAGGAACACGAAGCAGATC+AGG - chr8.4:22993938-22993957 MS.gene72337:CDS 55.0%
TCGTCAGCCCGATTCTTCTG+GGG - chr8.4:22993666-22993685 MS.gene72337:intron 55.0%
TTCTCAGCAAGGACCTCGAG+CGG - chr8.4:22993600-22993619 MS.gene72337:CDS 55.0%
! CCTGATGGACGTGTTGTTGG+CGG - chr8.4:22993985-22994004 MS.gene72337:CDS 55.0%
CAGGCGGCATGAGTGTGTCT+TGG - chr8.4:22993957-22993976 MS.gene72337:CDS 60.0%
CCGCCAACAACACGTCCATC+AGG + chr8.4:22993988-22994007 None:intergenic 60.0%
CGTCAGCCCGATTCTTCTGG+GGG - chr8.4:22993667-22993686 MS.gene72337:intron 60.0%
! GATGGACGTGTTGTTGGCGG+AGG - chr8.4:22993988-22994007 MS.gene72337:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 22993538 22994015 22993538 ID=MS.gene72337
chr8.4 mRNA 22993538 22994015 22993538 ID=MS.gene72337.t1;Parent=MS.gene72337
chr8.4 exon 22993848 22994015 22993848 ID=MS.gene72337.t1.exon1;Parent=MS.gene72337.t1
chr8.4 CDS 22993848 22994015 22993848 ID=cds.MS.gene72337.t1;Parent=MS.gene72337.t1
chr8.4 exon 22993538 22993669 22993538 ID=MS.gene72337.t1.exon2;Parent=MS.gene72337.t1
chr8.4 CDS 22993538 22993669 22993538 ID=cds.MS.gene72337.t1;Parent=MS.gene72337.t1
Gene Sequence

>MS.gene72337

ATGATTGTCAGCAATTTTGTGTGTATGGTTATGTTAGGATGTTACCTGAAGGTTATTTCATTTTCTCAGCAAGGACCTCGAGCGGTATGCATTCTTTCAGCAAATGGTGTCATAAAAAGTGTCACACTTCGTCAGCCCGATTCTTCTGGGGGCACATTGACATATGAGGTGAAGCATTTGTGCAAATTTTTATTATCATTCCATCTATAGAAGAGAACTTTCATTTGGTTCCACAATGCATTTAATGATCTACACAGTTCAAGAATGTTGTTTCTCGTGCCTTTTTGAGCATATAGTGGGATTGGATTATTTGCACGCACAGTTACTTATCTCGGTGTTTCTACAGGGACTGTTTGAAATTCTGTCTTTATCTGGTTCGTTCATGCCAAATGAAAGTGGAGGAGGAACACGAAGCAGATCAGGCGGCATGAGTGTGTCTTGGCAAGTCCTGATGGACGTGTTGTTGGCGGAGGAGTAG

Protein sequence

>MS.gene72337.t1

MIVSNFVCMVMLGCYLKVISFSQQGPRAVCILSANGVIKSVTLRQPDSSGGTLTYEGLFEILSLSGSFMPNESGGGTRSRSGGMSVSWQVLMDVLLAEE