AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene63915

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63915.t1 MTR_3g040810 96.939 98 3 0 1 98 1 98 2.35e-61 194
MS.gene63915.t1 MTR_3g040520 91.837 98 8 0 1 98 3 100 5.08e-58 186
MS.gene63915.t1 MTR_4g076670 72.603 73 20 0 1 73 1 73 3.79e-34 114
MS.gene63915.t1 MTR_4g094430 53.623 69 32 0 23 91 4 72 2.01e-20 83.2
MS.gene63915.t1 MTR_2g032060 53.623 69 32 0 23 91 4 72 2.80e-20 82.8
MS.gene63915.t1 MTR_4g103810 60.000 65 26 0 18 82 103 167 4.59e-20 83.2
MS.gene63915.t1 MTR_3g085650 58.108 74 31 0 16 89 409 482 1.63e-19 82.0
MS.gene63915.t1 MTR_3g085650 58.108 74 31 0 16 89 409 482 1.84e-19 81.6
MS.gene63915.t1 MTR_3g085650 58.108 74 31 0 16 89 409 482 1.85e-19 81.6
MS.gene63915.t1 MTR_4g103810 60.000 65 26 0 18 82 213 277 1.92e-19 81.6
MS.gene63915.t1 MTR_4g109090 58.333 72 28 2 21 91 103 173 1.97e-18 79.0
MS.gene63915.t1 MTR_3g085650 58.108 74 31 0 16 89 409 482 3.30e-18 78.2
MS.gene63915.t1 MTR_8g080190 56.000 75 33 0 15 89 377 451 4.35e-18 77.8
MS.gene63915.t1 MTR_8g080190 56.000 75 33 0 15 89 377 451 6.80e-18 77.4
MS.gene63915.t1 MTR_1g081870 56.000 75 31 2 18 91 117 190 7.44e-18 77.4
MS.gene63915.t1 MTR_4g007750 60.000 55 22 0 23 77 4 58 1.07e-17 75.9
MS.gene63915.t1 MTR_3g098760 54.667 75 32 2 18 91 92 165 2.57e-17 75.9
MS.gene63915.t1 MTR_8g099770 54.667 75 32 2 18 91 85 158 2.75e-17 75.5
MS.gene63915.t1 MTR_4g118780 56.000 75 31 2 18 91 99 172 3.15e-17 75.5
MS.gene63915.t1 MTR_2g020210 53.333 75 33 2 18 91 97 170 3.30e-17 75.5
MS.gene63915.t1 MTR_7g114300 53.333 75 33 2 18 91 102 175 4.03e-17 75.1
MS.gene63915.t1 MTR_7g114300 53.333 75 33 2 18 91 102 175 4.36e-17 75.1
MS.gene63915.t1 MTR_7g114300 53.333 75 33 2 18 91 102 175 5.21e-17 74.7
MS.gene63915.t1 MTR_7g114300 53.333 75 33 2 18 91 102 175 5.39e-17 74.7
MS.gene63915.t1 MTR_2g085200 54.667 75 32 2 18 91 129 202 7.58e-17 74.3
MS.gene63915.t1 MTR_1g075610 49.275 69 34 1 21 88 16 84 3.32e-16 72.0
MS.gene63915.t1 MTR_7g011800 51.389 72 33 2 21 91 118 188 3.69e-16 72.4
MS.gene63915.t1 MTR_6g013030 47.222 72 36 2 21 91 108 178 2.75e-15 70.1
MS.gene63915.t1 MTR_4g078290 48.000 75 37 2 18 91 124 197 5.02e-15 69.3
MS.gene63915.t1 MTR_4g078290 48.000 75 37 2 18 91 124 197 5.11e-15 69.3
MS.gene63915.t1 MTR_6g080470 48.529 68 35 0 18 85 9 76 6.12e-15 68.9
MS.gene63915.t1 MTR_5g008860 48.000 75 37 2 18 91 135 208 1.13e-14 68.2
MS.gene63915.t1 MTR_8g092290 44.000 75 40 2 18 91 136 209 6.25e-14 66.2
MS.gene63915.t1 MTR_3g054080 45.714 70 36 1 21 88 12 81 1.58e-13 64.7
MS.gene63915.t1 MTR_2g090405 45.333 75 39 2 18 91 136 209 2.88e-13 64.3
MS.gene63915.t1 MTR_1g098300 40.000 75 45 0 17 91 120 194 5.36e-13 63.5
MS.gene63915.t1 MTR_1g087310 85.294 34 5 0 1 34 1 34 2.07e-12 61.6
MS.gene63915.t1 MTR_5g091975 85.714 28 4 0 1 28 1 28 5.00e-12 57.4
MS.gene63915.t1 MTR_8g461270 37.143 70 44 0 24 93 48 117 3.31e-11 58.2
MS.gene63915.t1 MTR_8g012450 42.424 66 33 2 26 89 7 69 9.53e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63915.t1 AT5G10270 84.848 99 14 1 1 98 3 101 1.95e-51 168
MS.gene63915.t1 AT5G64960 85.714 98 13 1 2 98 4 101 1.45e-50 166
MS.gene63915.t1 AT1G67580 58.667 75 31 0 15 89 398 472 6.51e-24 94.7
MS.gene63915.t1 AT1G67580 58.667 75 31 0 15 89 398 472 6.51e-24 94.7
MS.gene63915.t1 AT3G48750 54.167 72 33 0 20 91 1 72 4.19e-21 85.1
MS.gene63915.t1 AT5G63370 46.154 91 41 2 3 89 147 233 4.59e-19 80.5
MS.gene63915.t1 AT5G63370 46.154 91 41 2 3 89 147 233 4.59e-19 80.5
MS.gene63915.t1 AT5G63370 46.154 91 41 2 3 89 281 367 4.61e-19 80.9
MS.gene63915.t1 AT5G63370 46.154 91 41 2 3 89 281 367 4.61e-19 80.9
MS.gene63915.t1 AT5G63370 46.154 91 41 2 3 89 281 367 4.61e-19 80.9
MS.gene63915.t1 AT5G63370 46.154 91 41 2 3 89 281 367 4.61e-19 80.9
MS.gene63915.t1 AT5G63370 46.154 91 41 2 3 89 281 367 4.61e-19 80.9
MS.gene63915.t1 AT5G63370 46.154 91 41 2 3 89 147 233 4.64e-19 80.5
MS.gene63915.t1 AT5G63370 47.191 89 39 2 5 89 283 367 4.77e-19 80.5
MS.gene63915.t1 AT5G63370 47.191 89 39 2 5 89 283 367 4.77e-19 80.5
MS.gene63915.t1 AT1G18670 61.111 72 26 2 21 91 129 199 5.53e-19 80.5
MS.gene63915.t1 AT1G18670 61.111 72 26 2 21 91 129 199 8.53e-19 80.1
MS.gene63915.t1 AT1G18670 61.111 72 26 2 21 91 129 199 9.03e-19 80.1
MS.gene63915.t1 AT1G76540 50.704 71 34 1 19 88 10 80 1.05e-17 76.3
MS.gene63915.t1 AT1G33770 53.247 77 30 2 18 91 136 209 1.50e-17 76.3
MS.gene63915.t1 AT1G74330 56.944 72 29 2 21 91 119 189 1.87e-17 76.3
MS.gene63915.t1 AT5G50860 53.333 75 33 2 18 91 109 182 2.54e-17 75.9
MS.gene63915.t1 AT1G74330 56.944 72 29 2 21 91 119 189 2.66e-17 75.9
MS.gene63915.t1 AT1G74330 56.944 72 29 2 21 91 119 189 2.67e-17 75.9
MS.gene63915.t1 AT3G05050 57.333 75 30 2 18 91 133 206 2.87e-17 75.5
MS.gene63915.t1 AT3G05050 57.333 75 30 2 18 91 133 206 2.87e-17 75.5
MS.gene63915.t1 AT3G05050 57.333 75 30 2 18 91 133 206 2.87e-17 75.5
MS.gene63915.t1 AT5G50860 53.333 75 33 2 18 91 109 182 4.07e-17 75.1
MS.gene63915.t1 AT1G54610 53.333 75 33 2 18 91 113 186 4.31e-17 75.1
MS.gene63915.t1 AT1G54610 53.333 75 33 2 18 91 113 186 4.31e-17 75.1
MS.gene63915.t1 AT1G54610 53.333 75 33 2 18 91 113 186 4.31e-17 75.1
MS.gene63915.t1 AT1G57700 51.948 77 31 2 18 91 141 214 5.16e-17 75.1
MS.gene63915.t1 AT1G71530 51.948 77 31 2 18 91 142 215 5.59e-17 74.3
MS.gene63915.t1 AT1G66750 45.946 74 40 0 12 85 2 75 6.53e-17 74.3
MS.gene63915.t1 AT1G09600 48.649 74 38 0 18 91 158 231 7.64e-17 74.3
MS.gene63915.t1 AT5G39420 50.704 71 35 0 21 91 103 173 7.66e-17 74.3
MS.gene63915.t1 AT1G71530 51.948 77 31 2 18 91 142 215 8.06e-17 74.3
MS.gene63915.t1 AT1G71530 51.948 77 31 2 18 91 142 215 1.27e-16 73.6
MS.gene63915.t1 AT1G20930 47.887 71 36 1 19 88 12 82 2.10e-16 72.4
MS.gene63915.t1 AT1G53050 52.000 75 34 2 18 91 129 202 2.67e-16 72.8
MS.gene63915.t1 AT1G53050 52.000 75 34 2 18 91 129 202 2.67e-16 72.8
MS.gene63915.t1 AT1G71530 51.948 77 31 2 18 91 142 215 5.27e-16 72.0
MS.gene63915.t1 AT2G38620 44.578 83 36 1 23 95 4 86 6.83e-16 71.2
MS.gene63915.t1 AT4G10010 50.649 77 32 2 18 91 151 224 8.07e-16 71.6
MS.gene63915.t1 AT1G73690 43.210 81 42 1 18 98 6 82 3.12e-15 69.7
MS.gene63915.t1 AT1G18040 41.860 86 46 1 13 98 2 83 4.76e-15 69.3
MS.gene63915.t1 AT2G38620 44.578 83 36 1 23 95 4 86 4.92e-15 68.2
MS.gene63915.t1 AT2G38620 44.578 83 36 1 23 95 4 86 4.92e-15 68.2
MS.gene63915.t1 AT3G54180 56.364 55 24 0 23 77 4 58 5.06e-15 68.6
MS.gene63915.t1 AT1G03740 46.053 76 39 2 18 92 208 282 7.11e-15 68.9
MS.gene63915.t1 AT1G03740 46.053 76 39 2 18 92 208 282 8.10e-15 68.6
MS.gene63915.t1 AT5G64960 86.111 36 5 0 63 98 13 48 1.64e-14 67.8
MS.gene63915.t1 AT5G44290 40.217 92 49 3 1 91 119 205 1.09e-13 65.5
MS.gene63915.t1 AT3G01085 50.000 70 33 2 23 91 115 183 1.26e-13 65.1
MS.gene63915.t1 AT3G01085 50.000 70 33 2 23 91 115 183 1.26e-13 65.1
MS.gene63915.t1 AT3G01085 50.000 70 33 2 23 91 115 183 1.42e-13 65.1
MS.gene63915.t1 AT5G44290 40.217 92 49 3 1 91 119 205 1.92e-13 64.7
MS.gene63915.t1 AT5G44290 40.217 92 49 3 1 91 119 205 1.98e-13 64.7
MS.gene63915.t1 AT5G44290 40.217 92 49 3 1 91 119 205 1.98e-13 64.7
MS.gene63915.t1 AT5G44290 40.217 92 49 3 1 91 119 205 1.98e-13 64.7
MS.gene63915.t1 AT5G44290 40.217 92 49 3 1 91 119 205 1.98e-13 64.7
MS.gene63915.t1 AT5G44290 40.217 92 49 3 1 91 119 205 1.98e-13 64.7
MS.gene63915.t1 AT4G22940 43.333 90 45 3 1 89 85 169 4.90e-12 60.8
MS.gene63915.t1 AT4G22940 43.333 90 45 3 1 89 85 169 1.19e-11 59.7

Find 25 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAATCGGCGAAGGCACTTA+TGG 0.185430 5.1:+76164907 MS.gene63915:CDS
TGAAAATGTTATCAAGTTAA+AGG 0.254582 5.1:+76165244 MS.gene63915:CDS
CTTCCTTAATCTTCTTTCTC+AGG 0.290546 5.1:-76165287 None:intergenic
ATTTCTCGTATAGCAGTAAT+AGG 0.291287 5.1:-76165197 None:intergenic
GGCCCTGAGAAAGAAGATTA+AGG 0.391298 5.1:+76165284 MS.gene63915:CDS
TAATCTTCTTTCTCAGGGCC+TGG 0.395120 5.1:-76165281 None:intergenic
TTCCTTAATCTTCTTTCTCA+GGG 0.404520 5.1:-76165286 None:intergenic
CAACTAGCAATGGCAGCAGC+TGG 0.409192 5.1:+76164817 None:intergenic
TTCACCGGTTTCGATCTCTT+TGG 0.427011 5.1:-76165032 None:intergenic
TTTGAGAAACTCGAACAAAT+CGG 0.450626 5.1:+76164892 MS.gene63915:CDS
AAATCGGCGAAGGCACTTAT+GGG 0.452605 5.1:+76164908 MS.gene63915:CDS
AAGGAAATCGTTACGTCTCC+AGG 0.454720 5.1:+76165263 MS.gene63915:CDS
TGCTTGCAGTCAAGTTTACA+TGG 0.493561 5.1:+76165009 MS.gene63915:intron
CTTGAGAGCAACAATTTCAC+CGG 0.511084 5.1:-76165047 None:intergenic
CTCAAAGCAATCGACGCTAC+GGG 0.511892 5.1:-76164875 None:intergenic
GTATGGATAATGAAAGAGAA+GGG 0.512036 5.1:+76165077 MS.gene63915:CDS
AACTAGCAATGGCAGCAGCT+GGG 0.520780 5.1:+76164818 None:intergenic
TGCTCTCAAGCAAATACGTA+TGG 0.526233 5.1:+76165060 MS.gene63915:CDS
TCTCAAAGCAATCGACGCTA+CGG 0.534411 5.1:-76164876 None:intergenic
ATGGCCAAAGAGATCGAAAC+CGG 0.536311 5.1:+76165028 MS.gene63915:CDS
CGTATGGATAATGAAAGAGA+AGG 0.557605 5.1:+76165076 MS.gene63915:CDS
TATGGATAATGAAAGAGAAG+GGG 0.649789 5.1:+76165078 MS.gene63915:CDS
ACGCTACGGGAACCACGCGA+AGG 0.656742 5.1:-76164862 None:intergenic
AAACTCGAACAAATCGGCGA+AGG 0.657326 5.1:+76164898 MS.gene63915:CDS
TTAATTGATTCACCTTCGCG+TGG 0.661011 5.1:+76164850 MS.gene63915:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTGGAATTTTAAATAGAAT+TGG - chr5.1:76164981-76165000 None:intergenic 15.0%
!!! TTGGAATTTTAAATAGAATT+GGG - chr5.1:76164980-76164999 None:intergenic 15.0%
!! TGAAAATGTTATCAAGTTAA+AGG + chr5.1:76165244-76165263 MS.gene63915:CDS 20.0%
AATTACACAGAATTGCACAT+AGG - chr5.1:76165137-76165156 None:intergenic 30.0%
ACTGCAAGCATAATAAACAT+TGG - chr5.1:76164999-76165018 None:intergenic 30.0%
ATTTCTCGTATAGCAGTAAT+AGG - chr5.1:76165200-76165219 None:intergenic 30.0%
GTATGGATAATGAAAGAGAA+GGG + chr5.1:76165077-76165096 MS.gene63915:CDS 30.0%
TATGGATAATGAAAGAGAAG+GGG + chr5.1:76165078-76165097 MS.gene63915:CDS 30.0%
TTTGAGAAACTCGAACAAAT+CGG + chr5.1:76164892-76164911 MS.gene63915:CDS 30.0%
CGTATGGATAATGAAAGAGA+AGG + chr5.1:76165076-76165095 MS.gene63915:CDS 35.0%
CTTGAGAGCAACAATTTCAC+CGG - chr5.1:76165050-76165069 None:intergenic 40.0%
TGCTCTCAAGCAAATACGTA+TGG + chr5.1:76165060-76165079 MS.gene63915:CDS 40.0%
TGCTTGCAGTCAAGTTTACA+TGG + chr5.1:76165009-76165028 MS.gene63915:intron 40.0%
! TTAATTGATTCACCTTCGCG+TGG + chr5.1:76164850-76164869 MS.gene63915:CDS 40.0%
AAACTCGAACAAATCGGCGA+AGG + chr5.1:76164898-76164917 MS.gene63915:CDS 45.0%
AAGGAAATCGTTACGTCTCC+AGG + chr5.1:76165263-76165282 MS.gene63915:CDS 45.0%
ATGGCCAAAGAGATCGAAAC+CGG + chr5.1:76165028-76165047 MS.gene63915:CDS 45.0%
TAATCTTCTTTCTCAGGGCC+TGG - chr5.1:76165284-76165303 None:intergenic 45.0%
TCTCAAAGCAATCGACGCTA+CGG - chr5.1:76164879-76164898 None:intergenic 45.0%
!! AAATCGGCGAAGGCACTTAT+GGG + chr5.1:76164908-76164927 MS.gene63915:CDS 45.0%
!! TTCACCGGTTTCGATCTCTT+TGG - chr5.1:76165035-76165054 None:intergenic 45.0%
CTCAAAGCAATCGACGCTAC+GGG - chr5.1:76164878-76164897 None:intergenic 50.0%
!! CAAATCGGCGAAGGCACTTA+TGG + chr5.1:76164907-76164926 MS.gene63915:CDS 50.0%
ACGCTACGGGAACCACGCGA+AGG - chr5.1:76164865-76164884 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 76164826 76165304 76164826 ID=MS.gene63915
chr5.1 mRNA 76164826 76165304 76164826 ID=MS.gene63915.t1;Parent=MS.gene63915
chr5.1 exon 76164826 76164929 76164826 ID=MS.gene63915.t1.exon1;Parent=MS.gene63915.t1
chr5.1 CDS 76164826 76164929 76164826 ID=cds.MS.gene63915.t1;Parent=MS.gene63915.t1
chr5.1 exon 76165018 76165099 76165018 ID=MS.gene63915.t1.exon2;Parent=MS.gene63915.t1
chr5.1 CDS 76165018 76165099 76165018 ID=cds.MS.gene63915.t1;Parent=MS.gene63915.t1
chr5.1 exon 76165194 76165304 76165194 ID=MS.gene63915.t1.exon3;Parent=MS.gene63915.t1
chr5.1 CDS 76165194 76165304 76165194 ID=cds.MS.gene63915.t1;Parent=MS.gene63915.t1
Gene Sequence

>MS.gene63915

ATGGCAGCAGCTGGGCAACTAAACTTAATTGATTCACCTTCGCGTGGTTCCCGTAGCGTCGATTGCTTTGAGAAACTCGAACAAATCGGCGAAGGCACTTATGGGTACTTACTTTTTCTCAATTTCACTTTCATCTTTTTCTTCAACATTTCCCAATTCTATTTAAAATTCCAATGTTTATTATGCTTGCAGTCAAGTTTACATGGCCAAAGAGATCGAAACCGGTGAAATTGTTGCTCTCAAGCAAATACGTATGGATAATGAAAGAGAAGGGGTATGAATATGAATGTATTTTCAAACATTTCATTCCTATGTGCAATTCTGTGTAATTAATTAATTAATACTGTAAATTATGCTTGTCATTGTAGTTTCCTATTACTGCTATACGAGAAATCAAAATTCTAAAGAAACTACATCATGAAAATGTTATCAAGTTAAAGGAAATCGTTACGTCTCCAGGCCCTGAGAAAGAAGATTAA
Protein sequence

>MS.gene63915.t1

MAAAGQLNLIDSPSRGSRSVDCFEKLEQIGEGTYGQVYMAKEIETGEIVALKQIRMDNEREGFPITAIREIKILKKLHHENVIKLKEIVTSPGPEKED