AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene044944

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene044944.t1 MTR_7g024780 96.226 106 4 0 1 106 71 176 6.06e-74 217
MS.gene044944.t1 MTR_7g024765 68.868 106 32 1 1 106 71 175 3.75e-48 151
MS.gene044944.t1 MTR_7g024760 69.903 103 30 1 1 103 71 172 6.53e-46 145
MS.gene044944.t1 MTR_7g114410 61.905 105 40 0 2 106 73 177 1.95e-42 137
MS.gene044944.t1 MTR_7g114410 61.628 86 33 0 2 87 73 158 5.30e-33 112
MS.gene044944.t1 MTR_3g463610 54.348 92 42 0 9 100 82 173 3.75e-32 112
MS.gene044944.t1 MTR_5g006510 53.488 86 40 0 15 100 103 188 5.94e-27 98.2
MS.gene044944.t1 MTR_1g103150 51.163 86 42 0 15 100 102 187 1.30e-25 94.7
MS.gene044944.t1 MTR_1g103110 53.012 83 39 0 15 97 102 184 9.36e-25 92.4
MS.gene044944.t1 MTR_5g006460 49.474 95 45 2 9 100 96 190 2.53e-24 91.7
MS.gene044944.t1 MTR_5g006470 47.368 95 50 0 6 100 91 185 5.12e-24 90.5
MS.gene044944.t1 MTR_5g006450 46.316 95 51 0 6 100 93 187 6.11e-23 87.8
MS.gene044944.t1 MTR_5g006520 45.263 95 52 0 6 100 1811 1905 2.48e-21 87.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene044944.t1 AT2G32030 45.652 92 50 0 11 102 96 187 8.06e-29 103
MS.gene044944.t1 AT2G32020 44.565 92 51 0 11 102 91 182 6.93e-27 97.8
MS.gene044944.t1 AT3G22560 44.444 99 55 0 2 100 74 172 4.03e-26 95.9

Find 24 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGCTATTGGATTCAACTAT+TGG 0.220333 7.1:+73034415 MS.gene044944:CDS
TGCTATTGGATTCAACTATT+GGG 0.279552 7.1:+73034416 MS.gene044944:CDS
TGAGAAGTATAAAGCAGATA+TGG 0.323753 7.1:+73034389 MS.gene044944:CDS
ACCACTCCATTGGAATGGTT+TGG 0.355259 7.1:+73034346 None:intergenic
GCAGATATGGGTTATGCTAT+TGG 0.359042 7.1:+73034402 MS.gene044944:CDS
AGCTTGCAACCTTCTCAAAT+CGG 0.366599 7.1:-73034499 None:intergenic
CATAGCTTCTCAGAGGGTAT+TGG 0.423997 7.1:+73034539 MS.gene044944:CDS
GCTTGCAACCTTCTCAAATC+GGG 0.427428 7.1:-73034498 None:intergenic
AAGAATCTTCACTGCATTAG+TGG 0.453856 7.1:-73034451 None:intergenic
CAAAGAGGGTTTGCTCAGAA+AGG 0.466394 7.1:+73034578 MS.gene044944:CDS
TTCTCAAATCGGGGAACTCA+TGG 0.488747 7.1:-73034488 None:intergenic
CAGAGGGTATTGGAAAAGCT+AGG 0.497928 7.1:+73034549 MS.gene044944:CDS
GAGAAGTATAAAGCAGATAT+GGG 0.502094 7.1:+73034390 MS.gene044944:CDS
GGATTCAACTATTGGGGTCA+AGG 0.521820 7.1:+73034423 MS.gene044944:CDS
GCTATTGGATTCAACTATTG+GGG 0.539184 7.1:+73034417 MS.gene044944:CDS
ATGAGTTCCCCGATTTGAGA+AGG 0.555146 7.1:+73034490 MS.gene044944:CDS
AATACTAACTAAACAACAGA+AGG 0.576587 7.1:-73034666 None:intergenic
AAGCTAGGGTTCTACAAAGA+GGG 0.577948 7.1:+73034564 MS.gene044944:CDS
AGAGGGTATTGGAAAAGCTA+GGG 0.597985 7.1:+73034550 MS.gene044944:CDS
TACTTCTCATCATTAGCATG+AGG 0.611961 7.1:-73034375 None:intergenic
AAAGCTAGGGTTCTACAAAG+AGG 0.630805 7.1:+73034563 MS.gene044944:CDS
CTTGCAACCTTCTCAAATCG+GGG 0.653528 7.1:-73034497 None:intergenic
TAGAGAACATAGCTTCTCAG+AGG 0.672958 7.1:+73034532 MS.gene044944:CDS
AGAGAACATAGCTTCTCAGA+GGG 0.687021 7.1:+73034533 MS.gene044944:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGAAAGGTTTTTTATTTTAA+AGG + chr7.1:73034594-73034613 MS.gene044944:CDS 15.0%
!!! TCTATATTTTTAGCTTTCTT+TGG + chr7.1:73034631-73034650 MS.gene044944:CDS 20.0%
!!! TTATTTTAAAGGAAACTTTG+TGG + chr7.1:73034605-73034624 MS.gene044944:CDS 20.0%
ATGCTATTGGATTCAACTAT+TGG + chr7.1:73034415-73034434 MS.gene044944:CDS 30.0%
TGCTATTGGATTCAACTATT+GGG + chr7.1:73034416-73034435 MS.gene044944:CDS 30.0%
! GAGAAGTATAAAGCAGATAT+GGG + chr7.1:73034390-73034409 MS.gene044944:CDS 30.0%
! TGAGAAGTATAAAGCAGATA+TGG + chr7.1:73034389-73034408 MS.gene044944:CDS 30.0%
AAGAATCTTCACTGCATTAG+TGG - chr7.1:73034454-73034473 None:intergenic 35.0%
GCTATTGGATTCAACTATTG+GGG + chr7.1:73034417-73034436 MS.gene044944:CDS 35.0%
TACTTCTCATCATTAGCATG+AGG - chr7.1:73034378-73034397 None:intergenic 35.0%
AAAGCTAGGGTTCTACAAAG+AGG + chr7.1:73034563-73034582 MS.gene044944:CDS 40.0%
AAGCTAGGGTTCTACAAAGA+GGG + chr7.1:73034564-73034583 MS.gene044944:CDS 40.0%
AGAGAACATAGCTTCTCAGA+GGG + chr7.1:73034533-73034552 MS.gene044944:CDS 40.0%
AGCTTGCAACCTTCTCAAAT+CGG - chr7.1:73034502-73034521 None:intergenic 40.0%
TAGAGAACATAGCTTCTCAG+AGG + chr7.1:73034532-73034551 MS.gene044944:CDS 40.0%
! GCAGATATGGGTTATGCTAT+TGG + chr7.1:73034402-73034421 MS.gene044944:CDS 40.0%
!! AGAGGGTATTGGAAAAGCTA+GGG + chr7.1:73034550-73034569 MS.gene044944:CDS 40.0%
CTTGCAACCTTCTCAAATCG+GGG - chr7.1:73034500-73034519 None:intergenic 45.0%
GCTTGCAACCTTCTCAAATC+GGG - chr7.1:73034501-73034520 None:intergenic 45.0%
GGATTCAACTATTGGGGTCA+AGG + chr7.1:73034423-73034442 MS.gene044944:CDS 45.0%
TTCTCAAATCGGGGAACTCA+TGG - chr7.1:73034491-73034510 None:intergenic 45.0%
! ATGAGTTCCCCGATTTGAGA+AGG + chr7.1:73034490-73034509 MS.gene044944:CDS 45.0%
! CAAAGAGGGTTTGCTCAGAA+AGG + chr7.1:73034578-73034597 MS.gene044944:CDS 45.0%
! CATAGCTTCTCAGAGGGTAT+TGG + chr7.1:73034539-73034558 MS.gene044944:CDS 45.0%
!! CAGAGGGTATTGGAAAAGCT+AGG + chr7.1:73034549-73034568 MS.gene044944:CDS 45.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 73034360 73034680 73034360 ID=MS.gene044944
chr7.1 mRNA 73034360 73034680 73034360 ID=MS.gene044944.t1;Parent=MS.gene044944
chr7.1 exon 73034360 73034680 73034360 ID=MS.gene044944.t1.exon1;Parent=MS.gene044944.t1
chr7.1 CDS 73034360 73034680 73034360 ID=cds.MS.gene044944.t1;Parent=MS.gene044944.t1
Gene Sequence

>MS.gene044944

ATGGTTTGGATTCTTCCTCATGCTAATGATGAGAAGTATAAAGCAGATATGGGTTATGCTATTGGATTCAACTATTGGGGTCAAGGAATTGCCACTAATGCAGTGAAGATTCTTCTGTCAAAAGTGTTCCATGAGTTCCCCGATTTGAGAAGGTTGCAAGCTTATACTGTTCTAGAGAACATAGCTTCTCAGAGGGTATTGGAAAAGCTAGGGTTCTACAAAGAGGGTTTGCTCAGAAAGGTTTTTTATTTTAAAGGAAACTTTGTGGATTTCTATATTTTTAGCTTTCTTTGGACAGATGAAATTCCTTCTGTTGTTTAG
Protein sequence

>MS.gene044944.t1

MVWILPHANDEKYKADMGYAIGFNYWGQGIATNAVKILLSKVFHEFPDLRRLQAYTVLENIASQRVLEKLGFYKEGLLRKVFYFKGNFVDFYIFSFLWTDEIPSVV