AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36596

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36596.t1 MTR_7g029400 92.188 192 13 2 1 190 1 192 4.05e-131 365
MS.gene36596.t1 MTR_8g015250 93.158 190 4 1 1 190 1 181 2.44e-129 360
MS.gene36596.t1 MTR_6g016375 51.685 178 57 4 1 160 1 167 3.11e-47 153
MS.gene36596.t1 MTR_7g017880 61.194 134 50 2 54 186 58 190 6.56e-44 144
MS.gene36596.t1 MTR_4g070860 53.425 73 34 0 79 151 26 98 3.89e-19 80.1
MS.gene36596.t1 MTR_1g022495 40.206 97 57 1 57 153 5 100 1.14e-16 73.9
MS.gene36596.t1 MTR_3g117120 49.315 73 37 0 79 151 26 98 3.80e-16 72.4
MS.gene36596.t1 MTR_4g097440 38.318 107 56 1 71 167 63 169 9.48e-16 71.6
MS.gene36596.t1 MTR_8g086020 35.294 102 66 0 50 151 2 103 3.53e-15 70.1
MS.gene36596.t1 MTR_5g015090 40.625 96 50 1 80 168 58 153 7.42e-14 66.2
MS.gene36596.t1 MTR_1g087040 43.478 92 46 3 60 151 10 95 5.51e-13 63.9
MS.gene36596.t1 MTR_5g028850 40.426 94 51 2 58 146 278 371 2.39e-12 64.7
MS.gene36596.t1 MTR_5g028850 40.426 94 51 2 58 146 280 373 2.47e-12 64.7
MS.gene36596.t1 MTR_3g109310 40.426 94 53 1 78 168 121 214 2.78e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36596.t1 AT3G30530 70.690 116 32 1 61 174 57 172 4.82e-52 165
MS.gene36596.t1 AT1G13600 46.961 181 77 5 2 170 4 177 5.12e-42 140
MS.gene36596.t1 AT5G38800 56.250 128 54 1 45 170 34 161 9.67e-41 135
MS.gene36596.t1 AT5G15830 50.694 144 66 3 47 190 40 178 2.47e-37 128
MS.gene36596.t1 AT2G04038 63.158 95 35 0 64 158 55 149 8.97e-36 123
MS.gene36596.t1 AT1G68880 45.455 99 52 1 62 160 28 124 1.28e-22 89.0
MS.gene36596.t1 AT5G60830 47.500 80 42 0 81 160 69 148 4.01e-17 76.3
MS.gene36596.t1 AT1G75390 46.809 94 45 1 63 151 16 109 6.36e-17 74.7
MS.gene36596.t1 AT1G75390 45.055 91 46 1 61 147 15 105 1.39e-15 70.1
MS.gene36596.t1 AT2G18160 47.222 72 38 0 80 151 28 99 1.50e-15 71.2
MS.gene36596.t1 AT3G62420 37.624 101 59 1 79 175 21 121 7.22e-14 66.2
MS.gene36596.t1 AT4G37730 46.429 84 45 0 75 158 189 272 2.92e-12 64.3
MS.gene36596.t1 AT4G34590 43.243 74 42 0 78 151 22 95 3.31e-12 62.0
MS.gene36596.t1 AT3G49760 30.973 113 63 2 50 155 47 151 5.75e-11 58.5

Find 31 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATCAAAAGTTTCTTCTTTA+AGG 0.049723 8.4:-76248378 None:intergenic
AGATTATTTATATGATAATT+TGG 0.173759 8.4:-76248046 None:intergenic
TTCTCAATCATGAACTTTAG+AGG 0.310979 8.4:-76248503 None:intergenic
TTCTGTGGCAAGACAAAGTT+TGG 0.311505 8.4:-76248016 None:intergenic
ACATAAATCTTCCATGTTGC+AGG 0.321423 8.4:-76248443 None:intergenic
ATGGTAGCTGACATGCAAAT+TGG 0.415880 8.4:+76248409 MS.gene36596:CDS
AGACAAAGTTTGGTTGAACT+TGG 0.417616 8.4:-76248006 None:intergenic
TTTGCATGTCAGCTACCATT+TGG 0.441661 8.4:-76248405 None:intergenic
GCTGATGGGTAATGGAAGTT+TGG 0.447856 8.4:-76248082 None:intergenic
ACGATGGTGGAGCAAATTCA+TGG 0.483705 8.4:-76248108 None:intergenic
GAGAATCAGCTAGGAGATCA+AGG 0.496394 8.4:+76248224 MS.gene36596:CDS
CATGGCCTGCTGATGGGTAA+TGG 0.501858 8.4:-76248090 None:intergenic
TGAACTTGGAATGAATTCTC+AGG 0.503018 8.4:-76247992 None:intergenic
CATGGTTGAGTTTGTCAACA+AGG 0.513554 8.4:-76248315 None:intergenic
TTAACTCCTCTGATCTCTCT+AGG 0.517612 8.4:-76247956 None:intergenic
CTCTGTTTGATATCATTCGC+CGG 0.528366 8.4:-76248204 None:intergenic
CAAATTCATGGCCTGCTGAT+GGG 0.533266 8.4:-76248096 None:intergenic
AACTTCCATTACCCATCAGC+AGG 0.542481 8.4:+76248085 MS.gene36596:CDS
TAATTTGGAATTTCATTCTG+TGG 0.545612 8.4:-76248031 None:intergenic
CAGCTAGGAGATCAAGGATG+AGG 0.553553 8.4:+76248230 MS.gene36596:CDS
GCAAATTCATGGCCTGCTGA+TGG 0.554547 8.4:-76248097 None:intergenic
TTGTGTTGAGATGTGTTGCA+TGG 0.567617 8.4:-76248472 None:intergenic
TCTGATCTCTCTAGGAACCA+TGG 0.617254 8.4:-76247948 None:intergenic
AGTTTAACATCATCGACGAA+AGG 0.620965 8.4:+76248176 MS.gene36596:CDS
TATCAAACAGAGAATCAGCT+AGG 0.629542 8.4:+76248215 MS.gene36596:CDS
TCATCGACGAAAGGAAGCAC+CGG 0.644213 8.4:+76248185 MS.gene36596:CDS
ACTTGGAATGAATTCTCAGG+AGG 0.648127 8.4:-76247989 None:intergenic
TTGCTGCTTAAACACGATGG+TGG 0.650100 8.4:-76248121 None:intergenic
ATGGTTCCTAGAGAGATCAG+AGG 0.663186 8.4:+76247950 MS.gene36596:CDS
TGTCATGTGACTCAGACACA+TGG 0.723782 8.4:-76248333 None:intergenic
GAGTTGCTGCTTAAACACGA+TGG 0.774209 8.4:-76248124 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGATTATTTATATGATAATT+TGG - chr8.4:76248049-76248068 None:intergenic 10.0%
!!! TATCATATAAATAATCTTTT+AGG + chr8.4:76248052-76248071 MS.gene36596:CDS 10.0%
! GATCAAAAGTTTCTTCTTTA+AGG - chr8.4:76248381-76248400 None:intergenic 25.0%
!! TAATTTGGAATTTCATTCTG+TGG - chr8.4:76248034-76248053 None:intergenic 25.0%
AAAAACACTTGGATGAACTT+TGG + chr8.4:76248257-76248276 MS.gene36596:CDS 30.0%
ACATAAATCTTCCATGTTGC+AGG - chr8.4:76248446-76248465 None:intergenic 35.0%
AGACAAAGTTTGGTTGAACT+TGG - chr8.4:76248009-76248028 None:intergenic 35.0%
AGTTTAACATCATCGACGAA+AGG + chr8.4:76248176-76248195 MS.gene36596:CDS 35.0%
GATGAGGAAACAAAAACACT+TGG + chr8.4:76248246-76248265 MS.gene36596:CDS 35.0%
TATCAAACAGAGAATCAGCT+AGG + chr8.4:76248215-76248234 MS.gene36596:CDS 35.0%
TGAACTTGGAATGAATTCTC+AGG - chr8.4:76247995-76248014 None:intergenic 35.0%
! AACTTTTGATCTTCGCCAAA+TGG + chr8.4:76248390-76248409 MS.gene36596:CDS 35.0%
! TAACTCTTTTACCTGCAACA+TGG + chr8.4:76248432-76248451 MS.gene36596:CDS 35.0%
ACTTGGAATGAATTCTCAGG+AGG - chr8.4:76247992-76248011 None:intergenic 40.0%
ATGGTAGCTGACATGCAAAT+TGG + chr8.4:76248409-76248428 MS.gene36596:CDS 40.0%
CATGGTTGAGTTTGTCAACA+AGG - chr8.4:76248318-76248337 None:intergenic 40.0%
CTCTGTTTGATATCATTCGC+CGG - chr8.4:76248207-76248226 None:intergenic 40.0%
TTAACTCCTCTGATCTCTCT+AGG - chr8.4:76247959-76247978 None:intergenic 40.0%
TTCTGTGGCAAGACAAAGTT+TGG - chr8.4:76248019-76248038 None:intergenic 40.0%
TTGTGTTGAGATGTGTTGCA+TGG - chr8.4:76248475-76248494 None:intergenic 40.0%
TTTGCATGTCAGCTACCATT+TGG - chr8.4:76248408-76248427 None:intergenic 40.0%
AACTTCCATTACCCATCAGC+AGG + chr8.4:76248085-76248104 MS.gene36596:CDS 45.0%
ATGGTTCCTAGAGAGATCAG+AGG + chr8.4:76247950-76247969 MS.gene36596:CDS 45.0%
CAAATTCATGGCCTGCTGAT+GGG - chr8.4:76248099-76248118 None:intergenic 45.0%
GAGAATCAGCTAGGAGATCA+AGG + chr8.4:76248224-76248243 MS.gene36596:CDS 45.0%
TGTCATGTGACTCAGACACA+TGG - chr8.4:76248336-76248355 None:intergenic 45.0%
! GAGTTGCTGCTTAAACACGA+TGG - chr8.4:76248127-76248146 None:intergenic 45.0%
! TTGCTGCTTAAACACGATGG+TGG - chr8.4:76248124-76248143 None:intergenic 45.0%
!! ACGATGGTGGAGCAAATTCA+TGG - chr8.4:76248111-76248130 None:intergenic 45.0%
!! GCTGATGGGTAATGGAAGTT+TGG - chr8.4:76248085-76248104 None:intergenic 45.0%
CAGCTAGGAGATCAAGGATG+AGG + chr8.4:76248230-76248249 MS.gene36596:CDS 50.0%
GCAAATTCATGGCCTGCTGA+TGG - chr8.4:76248100-76248119 None:intergenic 50.0%
! TCATCGACGAAAGGAAGCAC+CGG + chr8.4:76248185-76248204 MS.gene36596:CDS 50.0%
! CATGGCCTGCTGATGGGTAA+TGG - chr8.4:76248093-76248112 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 76247950 76248522 76247950 ID=MS.gene36596
chr8.4 mRNA 76247950 76248522 76247950 ID=MS.gene36596.t1;Parent=MS.gene36596
chr8.4 exon 76247950 76248522 76247950 ID=MS.gene36596.t1.exon1;Parent=MS.gene36596.t1
chr8.4 CDS 76247950 76248522 76247950 ID=cds.MS.gene36596.t1;Parent=MS.gene36596.t1
Gene Sequence

>MS.gene36596

ATGGTTCCTAGAGAGATCAGAGGAGTTAATTATCTAACTCCTCCTGAGAATTCATTCCAAGTTCAACCAAACTTTGTCTTGCCACAGAATGAAATTCCAAATTATCATATAAATAATCTTTTAGGCAGCTTACCAAACTTCCATTACCCATCAGCAGGCCATGAATTTGCTCCACCATCGTGTTTAAGCAGCAACTCGACTACTTCTGATGAAGCAGATGAACTTCAGTTTAACATCATCGACGAAAGGAAGCACCGGCGAATGATATCAAACAGAGAATCAGCTAGGAGATCAAGGATGAGGAAACAAAAACACTTGGATGAACTTTGGTCACAAGTGATGAAACTCAGAACTGAAAATCACAACCTTGTTGACAAACTCAACCATGTGTCTGAGTCACATGACAAAGTTGTTCAAGAGAATGCACGCCTTAAAGAAGAAACTTTTGATCTTCGCCAAATGGTAGCTGACATGCAAATTGGTAACTCTTTTACCTGCAACATGGAAGATTTATGTGAAATTCCATGCAACACATCTCAACACAAAGATGATTCCTCTAAAGTTCATGATTGA
Protein sequence

>MS.gene36596.t1

MVPREIRGVNYLTPPENSFQVQPNFVLPQNEIPNYHINNLLGSLPNFHYPSAGHEFAPPSCLSSNSTTSDEADELQFNIIDERKHRRMISNRESARRSRMRKQKHLDELWSQVMKLRTENHNLVDKLNHVSESHDKVVQENARLKEETFDLRQMVADMQIGNSFTCNMEDLCEIPCNTSQHKDDSSKVHD