AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene75319

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75319.t1 MTR_3g110030 100.000 97 0 0 1 97 1 97 9.29e-66 193
MS.gene75319.t1 MTR_3g077350 84.706 85 13 0 1 85 1 85 2.00e-48 149
MS.gene75319.t1 MTR_7g089300 74.227 97 25 0 1 97 1 97 3.13e-48 149
MS.gene75319.t1 MTR_3g089960 85.714 42 6 0 56 97 212 253 2.84e-19 79.3
MS.gene75319.t1 MTR_3g077580 86.486 37 5 0 1 37 1 37 1.21e-16 68.9
MS.gene75319.t1 MTR_2g043230 38.947 95 56 2 3 95 159 253 1.45e-11 58.5
MS.gene75319.t1 MTR_4g124910 37.778 90 54 2 7 95 64 152 3.05e-11 57.8
MS.gene75319.t1 MTR_4g124910 37.895 95 57 2 3 95 158 252 8.06e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75319.t1 AT1G23100 75.258 97 24 0 1 97 1 97 7.18e-52 158
MS.gene75319.t1 AT1G14980 75.258 97 24 0 1 97 1 97 5.22e-51 155
MS.gene75319.t1 AT1G14980 75.610 82 20 0 1 82 1 82 5.04e-41 130
MS.gene75319.t1 AT5G20720 36.842 95 58 2 3 95 158 252 3.53e-11 57.8
MS.gene75319.t1 AT5G20720 36.842 95 58 2 3 95 158 252 3.53e-11 57.8
MS.gene75319.t1 AT5G20720 36.842 95 58 2 3 95 158 252 3.53e-11 57.8
MS.gene75319.t1 AT5G20720 36.842 95 58 2 3 95 158 252 3.53e-11 57.8

Find 33 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTTAGGGATGAGGACATTT+TGG 0.181417 3.1:-87523044 MS.gene75319:CDS
ACAAAGAGTTTCATTTGTTT+AGG 0.264498 3.1:-87523060 MS.gene75319:CDS
GTTTGAAAACAGCTTAATTC+AGG 0.277309 3.1:-87523205 MS.gene75319:intron
CAAAGAGTTTCATTTGTTTA+GGG 0.318510 3.1:-87523059 MS.gene75319:CDS
CACGTTCTCTTGCCGGAATA+TGG 0.350941 3.1:-87523106 MS.gene75319:CDS
CTCGACGAGGATGCGGTTGA+AGG 0.354705 3.1:+87523365 None:intergenic
CAAACCTGGGAGGTCTTCTC+AGG 0.357034 3.1:+87523300 None:intergenic
AAGAATACCGGCGGAGGTCT+TGG 0.361115 3.1:+87523326 None:intergenic
ATTTGAGAGCCACCATATTC+CGG 0.366812 3.1:+87523094 None:intergenic
CAAATCTGGGAATTTGATTC+CGG 0.387419 3.1:-87523149 MS.gene75319:CDS
CCTGGATCGAGAGACAAATC+TGG 0.418950 3.1:-87523163 MS.gene75319:CDS
AGGTGACCACGTTCTCTTGC+CGG 0.420998 3.1:-87523113 MS.gene75319:CDS
GTTTCATTTGTTTAGGGATG+AGG 0.443213 3.1:-87523053 MS.gene75319:CDS
ACGAGGATGCGGTTGAAGGT+TGG 0.459998 3.1:+87523369 None:intergenic
CCAGATTTGTCTCTCGATCC+AGG 0.466866 3.1:+87523163 None:intergenic
TCAGGAAAGGTTGTAGCTGT+TGG 0.477328 3.1:-87523187 MS.gene75319:CDS
TCTCCCTGAGAAGACCTCCC+AGG 0.483550 3.1:-87523304 MS.gene75319:intron
ATTCCGGTGTCTGTCAAAGA+AGG 0.501127 3.1:-87523133 MS.gene75319:CDS
CCGGCGGAGGTCTTGGAAGG+AGG 0.529929 3.1:+87523333 None:intergenic
AAAACAGCTTAATTCAGGAA+AGG 0.534414 3.1:-87523200 MS.gene75319:intron
CGGCGGAGGTCTTGGAAGGA+GGG 0.543498 3.1:+87523334 None:intergenic
AAGGTTGTAGCTGTTGGACC+TGG 0.547728 3.1:-87523181 MS.gene75319:CDS
CTTCTCAGGGAGAAGAATAC+CGG 0.548614 3.1:+87523314 None:intergenic
CTGGATCGAGAGACAAATCT+GGG 0.579563 3.1:-87523162 MS.gene75319:CDS
CCTCCTTCCAAGACCTCCGC+CGG 0.595748 3.1:-87523333 MS.gene75319:CDS
ATACCGGCGGAGGTCTTGGA+AGG 0.597082 3.1:+87523330 None:intergenic
GTTCTCTTGCCGGAATATGG+TGG 0.611791 3.1:-87523103 MS.gene75319:CDS
TCACCTTCTTTGACAGACAC+CGG 0.618503 3.1:+87523130 None:intergenic
AGGGAGAAGAATACCGGCGG+AGG 0.620138 3.1:+87523320 None:intergenic
CATATTCCGGCAAGAGAACG+TGG 0.633016 3.1:+87523107 None:intergenic
AAACCTGGGAGGTCTTCTCA+GGG 0.670497 3.1:+87523301 None:intergenic
CTCAGGGAGAAGAATACCGG+CGG 0.675295 3.1:+87523317 None:intergenic
AGAGTTTCTACAAACCTGGG+AGG 0.716301 3.1:+87523290 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACAAAGAGTTTCATTTGTTT+AGG - chr3.1:87523354-87523373 MS.gene75319:CDS 25.0%
! CAAAGAGTTTCATTTGTTTA+GGG - chr3.1:87523355-87523374 MS.gene75319:CDS 25.0%
!! GATTTGGATTTAATTGATTC+TGG - chr3.1:87523187-87523206 MS.gene75319:CDS 25.0%
AAAACAGCTTAATTCAGGAA+AGG - chr3.1:87523214-87523233 MS.gene75319:intron 30.0%
GTTTGAAAACAGCTTAATTC+AGG - chr3.1:87523209-87523228 MS.gene75319:intron 30.0%
AAGAGAGTTTCTACAAACCT+GGG + chr3.1:87523130-87523149 None:intergenic 35.0%
CAAATCTGGGAATTTGATTC+CGG - chr3.1:87523265-87523284 MS.gene75319:intron 35.0%
GTTTCATTTGTTTAGGGATG+AGG - chr3.1:87523361-87523380 MS.gene75319:CDS 35.0%
TGTCTCTGTGTTAATCGATT+TGG - chr3.1:87523171-87523190 MS.gene75319:CDS 35.0%
! TTTAGGGATGAGGACATTTT+GGG - chr3.1:87523371-87523390 MS.gene75319:CDS 35.0%
ATTTGAGAGCCACCATATTC+CGG + chr3.1:87523323-87523342 None:intergenic 40.0%
GAAGAGAGTTTCTACAAACC+TGG + chr3.1:87523131-87523150 None:intergenic 40.0%
! GTTTAGGGATGAGGACATTT+TGG - chr3.1:87523370-87523389 MS.gene75319:CDS 40.0%
AGAGTTTCTACAAACCTGGG+AGG + chr3.1:87523127-87523146 None:intergenic 45.0%
ATTCCGGTGTCTGTCAAAGA+AGG - chr3.1:87523281-87523300 MS.gene75319:intron 45.0%
CTGGATCGAGAGACAAATCT+GGG - chr3.1:87523252-87523271 MS.gene75319:intron 45.0%
CTTCTCAGGGAGAAGAATAC+CGG + chr3.1:87523103-87523122 None:intergenic 45.0%
TCACCTTCTTTGACAGACAC+CGG + chr3.1:87523287-87523306 None:intergenic 45.0%
TCAGGAAAGGTTGTAGCTGT+TGG - chr3.1:87523227-87523246 MS.gene75319:intron 45.0%
! TGATTTTCTCGACGAGGATG+CGG + chr3.1:87523059-87523078 None:intergenic 45.0%
AAACCTGGGAGGTCTTCTCA+GGG + chr3.1:87523116-87523135 None:intergenic 50.0%
AAGGTTGTAGCTGTTGGACC+TGG - chr3.1:87523233-87523252 MS.gene75319:intron 50.0%
CACGTTCTCTTGCCGGAATA+TGG - chr3.1:87523308-87523327 MS.gene75319:CDS 50.0%
CATATTCCGGCAAGAGAACG+TGG + chr3.1:87523310-87523329 None:intergenic 50.0%
CCAGATTTGTCTCTCGATCC+AGG + chr3.1:87523254-87523273 None:intergenic 50.0%
CCTGGATCGAGAGACAAATC+TGG - chr3.1:87523251-87523270 MS.gene75319:intron 50.0%
GTTCTCTTGCCGGAATATGG+TGG - chr3.1:87523311-87523330 MS.gene75319:CDS 50.0%
! GAGGGATGATTTTCTCGACG+AGG + chr3.1:87523065-87523084 None:intergenic 50.0%
AAGAATACCGGCGGAGGTCT+TGG + chr3.1:87523091-87523110 None:intergenic 55.0%
ACGAGGATGCGGTTGAAGGT+TGG + chr3.1:87523048-87523067 None:intergenic 55.0%
AGGTGACCACGTTCTCTTGC+CGG - chr3.1:87523301-87523320 MS.gene75319:intron 55.0%
CAAACCTGGGAGGTCTTCTC+AGG + chr3.1:87523117-87523136 None:intergenic 55.0%
CTCAGGGAGAAGAATACCGG+CGG + chr3.1:87523100-87523119 None:intergenic 55.0%
AGGGAGAAGAATACCGGCGG+AGG + chr3.1:87523097-87523116 None:intergenic 60.0%
ATACCGGCGGAGGTCTTGGA+AGG + chr3.1:87523087-87523106 None:intergenic 60.0%
CTCGACGAGGATGCGGTTGA+AGG + chr3.1:87523052-87523071 None:intergenic 60.0%
TCTCCCTGAGAAGACCTCCC+AGG - chr3.1:87523110-87523129 MS.gene75319:CDS 60.0%
CCTCCTTCCAAGACCTCCGC+CGG - chr3.1:87523081-87523100 MS.gene75319:CDS 65.0%
CGGCGGAGGTCTTGGAAGGA+GGG + chr3.1:87523083-87523102 None:intergenic 65.0%
CCGGCGGAGGTCTTGGAAGG+AGG + chr3.1:87523084-87523103 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 87523027 87523409 87523027 ID=MS.gene75319
chr3.1 mRNA 87523027 87523409 87523027 ID=MS.gene75319.t1;Parent=MS.gene75319
chr3.1 exon 87523305 87523409 87523305 ID=MS.gene75319.t1.exon1;Parent=MS.gene75319.t1
chr3.1 CDS 87523305 87523409 87523305 ID=cds.MS.gene75319.t1;Parent=MS.gene75319.t1
chr3.1 exon 87523027 87523215 87523027 ID=MS.gene75319.t1.exon2;Parent=MS.gene75319.t1
chr3.1 CDS 87523027 87523215 87523027 ID=cds.MS.gene75319.t1;Parent=MS.gene75319.t1
Gene Sequence

>MS.gene75319

ATGGCTAAGCGTTTGATTCCAACCTTCAACCGCATCCTCGTCGAGAAAATCATCCCTCCTTCCAAGACCTCCGCCGGTATTCTTCTCCCTGAGAAGACCTCCCAGGTTTGTAGAAACTCTCTTCTTCATTTTTTTATATATGTATGTCTCTGTGTTAATCGATTTGGATTTAATTGATTCTGGTTTGAAAACAGCTTAATTCAGGAAAGGTTGTAGCTGTTGGACCTGGATCGAGAGACAAATCTGGGAATTTGATTCCGGTGTCTGTCAAAGAAGGTGACCACGTTCTCTTGCCGGAATATGGTGGCTCTCAAATTAAGCTTGATGACAAAGAGTTTCATTTGTTTAGGGATGAGGACATTTTGGGCATTCTGCGTGATTGA
Protein sequence

>MS.gene75319.t1

MAKRLIPTFNRILVEKIIPPSKTSAGILLPEKTSQLNSGKVVAVGPGSRDKSGNLIPVSVKEGDHVLLPEYGGSQIKLDDKEFHLFRDEDILGILRD