AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene55766

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene55766.t1 MTR_8g099135 96.512 172 6 0 1 172 14 185 1.58e-126 353
MS.gene55766.t1 MTR_8g099115 67.251 171 52 1 6 172 19 189 3.96e-86 251
MS.gene55766.t1 MTR_1051s0010 81.818 44 8 0 1 44 1 44 9.41e-19 77.8
MS.gene55766.t1 MTR_8g064660 81.818 44 8 0 1 44 1 44 3.01e-18 77.4
MS.gene55766.t1 MTR_4g013310 32.593 135 80 4 25 157 59 184 4.67e-15 69.7
MS.gene55766.t1 MTR_4g013320 32.576 132 80 3 25 155 59 182 6.21e-15 69.7
MS.gene55766.t1 MTR_4g122110 31.373 153 93 4 21 169 36 180 9.18e-15 68.9
MS.gene55766.t1 MTR_4g073950 34.586 133 77 4 21 151 47 171 1.05e-14 68.9
MS.gene55766.t1 MTR_4g013345 34.211 152 78 6 24 166 55 193 9.95e-14 66.2
MS.gene55766.t1 MTR_4g013335 31.061 132 80 3 25 155 58 179 1.28e-13 65.9
MS.gene55766.t1 MTR_4g013325 32.836 134 79 4 24 155 58 182 1.65e-13 65.9
MS.gene55766.t1 MTR_4g013330 35.821 134 67 5 25 151 57 178 1.70e-13 65.9
MS.gene55766.t1 MTR_4g013350 32.576 132 72 4 25 151 57 176 1.03e-12 63.5
MS.gene55766.t1 MTR_7g070390 33.673 98 64 1 61 157 80 177 2.92e-12 62.4
MS.gene55766.t1 MTR_4g013770 31.677 161 84 5 5 155 30 174 5.58e-12 61.6
MS.gene55766.t1 MTR_4g122130 31.169 154 92 5 21 169 36 180 6.17e-12 61.2
MS.gene55766.t1 MTR_3g105640 27.160 162 106 5 2 155 14 171 2.28e-11 59.7
MS.gene55766.t1 MTR_7g093870 31.200 125 76 4 25 145 48 166 3.64e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene55766.t1 AT1G64160 51.479 169 75 2 4 172 21 182 1.14e-61 189
MS.gene55766.t1 AT4G23690 52.258 155 68 1 18 172 39 187 1.09e-58 181
MS.gene55766.t1 AT4G11210 49.032 155 73 1 18 172 35 183 1.29e-53 168
MS.gene55766.t1 AT4G11190 41.714 175 93 2 1 172 15 183 4.40e-50 159
MS.gene55766.t1 AT4G11180 45.509 167 84 2 7 172 25 185 8.99e-44 143
MS.gene55766.t1 AT1G22900 35.374 147 73 5 11 147 37 171 1.33e-15 71.2
MS.gene55766.t1 AT2G21110 29.452 146 94 4 11 151 24 165 9.98e-15 68.9
MS.gene55766.t1 AT1G65870 29.870 154 97 4 4 154 27 172 2.41e-13 65.1
MS.gene55766.t1 AT2G21100 33.824 136 81 5 21 155 44 171 2.09e-12 62.8
MS.gene55766.t1 AT2G21100 33.824 136 81 5 21 155 44 171 2.09e-12 62.8
MS.gene55766.t1 AT1G58170 31.933 119 74 2 43 154 49 167 3.26e-12 62.0
MS.gene55766.t1 AT3G13662 28.477 151 85 6 10 155 36 168 4.63e-12 61.6

Find 22 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGTGCTAATTTAACTATAT+TGG 0.304835 4.3:+4996468 MS.gene55766:CDS
ATCTCTATAACTGGTGGAAC+TGG 0.361381 4.3:+4996715 MS.gene55766:CDS
AGGTTGTTATCCAATGTGAT+AGG 0.375533 4.3:-4996532 None:intergenic
AGTAGAGATATCTCTATAAC+TGG 0.379528 4.3:+4996706 MS.gene55766:CDS
AACACATACACTTCTTGGCT+TGG 0.394278 4.3:+4996607 MS.gene55766:CDS
AACCTTTATTCAAAACCAAT+TGG 0.402372 4.3:+4996550 MS.gene55766:CDS
AAATTATGTCATGAAAATAA+AGG 0.418683 4.3:-4996393 None:intergenic
AAGCCTTGTGCTCTTCCAAT+TGG 0.427146 4.3:-4996565 None:intergenic
GGAGATTTCTTTATGCATAG+AGG 0.463190 4.3:+4996736 MS.gene55766:CDS
AGATTAAGTTCTTTGAGTGC+TGG 0.486262 4.3:+4996818 MS.gene55766:CDS
TTGGCACCTCAATTCCACTT+TGG 0.514974 4.3:+4996487 MS.gene55766:CDS
CTTAACAGCACTTATCATGA+AGG 0.529875 4.3:+4996643 MS.gene55766:CDS
ATTTACAATGGAATGAATGC+AGG 0.530803 4.3:+4996412 MS.gene55766:CDS
TTTCATGACATAATTTACAA+TGG 0.548025 4.3:+4996400 MS.gene55766:CDS
GGTTGTTATCCAATGTGATA+GGG 0.551932 4.3:-4996531 None:intergenic
AAACCAATTGGAAGAGCACA+AGG 0.569554 4.3:+4996562 MS.gene55766:CDS
AAACTGCTATGTTACCAAAG+TGG 0.599214 4.3:-4996501 None:intergenic
AGAGATATCTCTATAACTGG+TGG 0.609760 4.3:+4996709 MS.gene55766:CDS
GCAATAGTTGCAGCACCACA+AGG 0.631845 4.3:+4996448 MS.gene55766:CDS
ATGTTACCAAAGTGGAATTG+AGG 0.636937 4.3:-4996493 None:intergenic
GTCAGCACCAGCAAAAGTAA+TGG 0.638672 4.3:-4996668 None:intergenic
ATAGTTAAATTAGCACCTTG+TGG 0.685706 4.3:-4996463 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTATGTCATGAAAATAA+AGG - chr4.3:4996396-4996415 None:intergenic 15.0%
!! TTTCATGACATAATTTACAA+TGG + chr4.3:4996400-4996419 MS.gene55766:CDS 20.0%
! AACCTTTATTCAAAACCAAT+TGG + chr4.3:4996550-4996569 MS.gene55766:CDS 25.0%
! AGGTGCTAATTTAACTATAT+TGG + chr4.3:4996468-4996487 MS.gene55766:CDS 25.0%
!!! TTCCAATTGGTTTTGAATAA+AGG - chr4.3:4996555-4996574 None:intergenic 25.0%
AGTAGAGATATCTCTATAAC+TGG + chr4.3:4996706-4996725 MS.gene55766:CDS 30.0%
ATAGTTAAATTAGCACCTTG+TGG - chr4.3:4996466-4996485 None:intergenic 30.0%
ATTTACAATGGAATGAATGC+AGG + chr4.3:4996412-4996431 MS.gene55766:CDS 30.0%
! ATTATGACTGATGCTTTTGA+AGG + chr4.3:4996769-4996788 MS.gene55766:CDS 30.0%
!! CTCTACTTTTCTGCATAATT+GGG - chr4.3:4996693-4996712 None:intergenic 30.0%
!! TCTCTACTTTTCTGCATAAT+TGG - chr4.3:4996694-4996713 None:intergenic 30.0%
AAACTGCTATGTTACCAAAG+TGG - chr4.3:4996504-4996523 None:intergenic 35.0%
AGAGATATCTCTATAACTGG+TGG + chr4.3:4996709-4996728 MS.gene55766:CDS 35.0%
AGATTAAGTTCTTTGAGTGC+TGG + chr4.3:4996818-4996837 MS.gene55766:CDS 35.0%
AGGTTGTTATCCAATGTGAT+AGG - chr4.3:4996535-4996554 None:intergenic 35.0%
ATACACACCATGCAAAAACA+TGG + chr4.3:4996369-4996388 MS.gene55766:CDS 35.0%
ATGTTACCAAAGTGGAATTG+AGG - chr4.3:4996496-4996515 None:intergenic 35.0%
CCAAAAACACATACACTTCT+TGG + chr4.3:4996602-4996621 MS.gene55766:CDS 35.0%
CTTAACAGCACTTATCATGA+AGG + chr4.3:4996643-4996662 MS.gene55766:CDS 35.0%
GGAGATTTCTTTATGCATAG+AGG + chr4.3:4996736-4996755 MS.gene55766:CDS 35.0%
GGTTGTTATCCAATGTGATA+GGG - chr4.3:4996534-4996553 None:intergenic 35.0%
!! ATGTTTTTGCATGGTGTGTA+TGG - chr4.3:4996370-4996389 None:intergenic 35.0%
!! CCAAGAAGTGTATGTGTTTT+TGG - chr4.3:4996605-4996624 None:intergenic 35.0%
!! TAAAGGACCATGTTTTTGCA+TGG - chr4.3:4996379-4996398 None:intergenic 35.0%
!! TTTTGATGACCCTATCACAT+TGG + chr4.3:4996522-4996541 MS.gene55766:CDS 35.0%
AACACATACACTTCTTGGCT+TGG + chr4.3:4996607-4996626 MS.gene55766:CDS 40.0%
ATCTCTATAACTGGTGGAAC+TGG + chr4.3:4996715-4996734 MS.gene55766:CDS 40.0%
! AAACCAATTGGAAGAGCACA+AGG + chr4.3:4996562-4996581 MS.gene55766:CDS 40.0%
! GTGTATGGCTTTCTTTTGCT+TGG - chr4.3:4996355-4996374 None:intergenic 40.0%
!! GAAGGAACCATTACTTTTGC+TGG + chr4.3:4996661-4996680 MS.gene55766:CDS 40.0%
GTCAGCACCAGCAAAAGTAA+TGG - chr4.3:4996671-4996690 None:intergenic 45.0%
TTGGCACCTCAATTCCACTT+TGG + chr4.3:4996487-4996506 MS.gene55766:CDS 45.0%
! AAGCCTTGTGCTCTTCCAAT+TGG - chr4.3:4996568-4996587 None:intergenic 45.0%
!! GACTGATGCTTTTGAAGGTG+AGG + chr4.3:4996774-4996793 MS.gene55766:CDS 45.0%
GCAATAGTTGCAGCACCACA+AGG + chr4.3:4996448-4996467 MS.gene55766:CDS 50.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 4996325 4996843 4996325 ID=MS.gene55766
chr4.3 mRNA 4996325 4996843 4996325 ID=MS.gene55766.t1;Parent=MS.gene55766
chr4.3 exon 4996325 4996843 4996325 ID=MS.gene55766.t1.exon1;Parent=MS.gene55766.t1
chr4.3 CDS 4996325 4996843 4996325 ID=cds.MS.gene55766.t1;Parent=MS.gene55766.t1
Gene Sequence

>MS.gene55766

ATGTTGTGTGCTTTAAGTTCAGCAATTCCAAGCAAAAGAAAGCCATACACACCATGCAAAAACATGGTCCTTTATTTTCATGACATAATTTACAATGGAATGAATGCAGGTAATGCAACATCTGCAATAGTTGCAGCACCACAAGGTGCTAATTTAACTATATTGGCACCTCAATTCCACTTTGGTAACATAGCAGTTTTTGATGACCCTATCACATTGGATAACAACCTTTATTCAAAACCAATTGGAAGAGCACAAGGCTTTTACATTTATGATACCAAAAACACATACACTTCTTGGCTTGGTTTCACATTTGTTCTTAACAGCACTTATCATGAAGGAACCATTACTTTTGCTGGTGCTGACCCAATTATGCAGAAAAGTAGAGATATCTCTATAACTGGTGGAACTGGAGATTTCTTTATGCATAGAGGAATTGCTACTATTATGACTGATGCTTTTGAAGGTGAGGTCTATTTTCGACTTCGTGTTGAGATTAAGTTCTTTGAGTGCTGGTGA
Protein sequence

>MS.gene55766.t1

MLCALSSAIPSKRKPYTPCKNMVLYFHDIIYNGMNAGNATSAIVAAPQGANLTILAPQFHFGNIAVFDDPITLDNNLYSKPIGRAQGFYIYDTKNTYTSWLGFTFVLNSTYHEGTITFAGADPIMQKSRDISITGGTGDFFMHRGIATIMTDAFEGEVYFRLRVEIKFFECW