AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene064800


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene064800.t1 MTR_3g114850 98.802 167 2 0 1 167 1 167 3.88e-118 331
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene064800.t1 AT1G20340 65.868 167 57 0 1 167 1 167 7.48e-73 216
MS.gene064800.t1 AT1G76100 64.327 171 57 2 1 167 1 171 1.28e-72 216
MS.gene064800.t1 AT1G76100 64.327 171 57 2 1 167 37 207 2.45e-72 216

Find 50 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTCAGGCATGGAAATTT+TGG 0.145348 3.4:+98290343 None:intergenic
CTTTGCTTGCGTTTGCCTTA+AGG 0.331286 3.4:+98290657 None:intergenic
GCGTTCACTGTGAAATTGTT+TGG 0.355945 3.4:+98290455 None:intergenic
TCCATCATTCACAGGCCTTA+AGG 0.363430 3.4:-98290672 MS.gene064800:CDS
CTTGCAGTTGAAGTGTTGCT+TGG 0.408427 3.4:-98290506 MS.gene064800:CDS
CAGCAACTCCAAAGTCTTTG+AGG 0.421507 3.4:+98290570 None:intergenic
AGAGCTTCCCTCAAAGACTT+TGG 0.423979 3.4:-98290578 MS.gene064800:CDS
GCATTGAGAAGATCTTCTTC+AGG 0.435974 3.4:+98290329 None:intergenic
GAAGATCTTCTCAATGCTCC+TGG 0.437678 3.4:-98290323 MS.gene064800:CDS
CAGCGTTACTTTGGATGCTA+AGG 0.446131 3.4:-98290291 MS.gene064800:CDS
GGCAATTGAGAAGTTGAAGT+TGG 0.447601 3.4:+98290614 None:intergenic
AGGTGAACAGTAGAATTTGT+AGG 0.459706 3.4:+98290265 None:intergenic
GGAGACTTACAGCGTTACTT+TGG 0.478413 3.4:-98290300 MS.gene064800:CDS
TGTTGCTTGGTGCTAGTGAT+GGG 0.479693 3.4:-98290493 MS.gene064800:CDS
GTGTTGCTTGGTGCTAGTGA+TGG 0.482949 3.4:-98290494 MS.gene064800:CDS
ACCTCACGCAGGAGCTGGTA+TGG 0.490163 3.4:-98290246 MS.gene064800:CDS
GCCTTAAGGCCTGTGAATGA+TGG 0.494140 3.4:+98290671 None:intergenic
ATTACATTCAAGAACAATGC+TGG 0.496557 3.4:-98290422 MS.gene064800:CDS
AGCATTGTTCTTGAATGTAA+TGG 0.506572 3.4:+98290424 None:intergenic
AAGATCTTCTCAATGCTCCT+GGG 0.518214 3.4:-98290322 MS.gene064800:CDS
AGCAACTCCAAAGTCTTTGA+GGG 0.521503 3.4:+98290571 None:intergenic
CTTCAACTTCTCAATTGCCA+AGG 0.523550 3.4:-98290610 MS.gene064800:CDS
TGTTCACCTCACGCAGGAGC+TGG 0.531287 3.4:-98290251 MS.gene064800:CDS
TTGGCTGCATCAACCCCGCT+TGG 0.532446 3.4:+98290362 None:intergenic
GAGAAGATCTTCTTCAGGCA+TGG 0.537563 3.4:+98290334 None:intergenic
CACGCAGGAGCTGGTATGGT+TGG 0.542139 3.4:-98290242 MS.gene064800:CDS
AACAATTTCACAGTGAACGC+TGG 0.547209 3.4:-98290452 MS.gene064800:CDS
TAACAATGCACTTGCAGCAG+TGG 0.551331 3.4:+98290541 None:intergenic
AGCAACGGTGGTGGAAGTAA+CGG 0.554653 3.4:+98290697 None:intergenic
CAAAGTTAATGCCATAGCTA+AGG 0.556491 3.4:-98290639 MS.gene064800:CDS
GAAGCTCTGACACAAAGCCT+TGG 0.567176 3.4:+98290593 None:intergenic
GTTGCTATTCCATCATTCAC+AGG 0.569968 3.4:-98290680 MS.gene064800:CDS
TGAAGTTGGAACCTTAGCTA+TGG 0.578592 3.4:+98290628 None:intergenic
GTTGCTTGGTGCTAGTGATG+GGG 0.579404 3.4:-98290492 MS.gene064800:CDS
AGCGTTACTTTGGATGCTAA+GGG 0.580511 3.4:-98290290 MS.gene064800:CDS
GTAACGCTGTAAGTCTCCCC+AGG 0.594723 3.4:+98290305 None:intergenic
TGATGGAATAGCAACGGTGG+TGG 0.597217 3.4:+98290688 None:intergenic
CAAGCAACACTTCAACTGCA+AGG 0.598151 3.4:+98290507 None:intergenic
TTGCTTGGTGCTAGTGATGG+GGG 0.603056 3.4:-98290491 MS.gene064800:CDS
ATGAAGACGAGATTCCAAGC+GGG 0.608107 3.4:-98290376 MS.gene064800:CDS
AAGCAACACTTCAACTGCAA+GGG 0.614894 3.4:+98290508 None:intergenic
ACCATACCAGCTCCTGCGTG+AGG 0.641555 3.4:+98290245 None:intergenic
TCATCGAAGATAACGTTGTG+AGG 0.653170 3.4:+98290395 None:intergenic
TGAAGACGAGATTCCAAGCG+GGG 0.662660 3.4:-98290375 MS.gene064800:CDS
AGATCTTCTCAATGCTCCTG+GGG 0.672138 3.4:-98290321 MS.gene064800:CDS
AACGGTGGTGGAAGTAACGG+TGG 0.682356 3.4:+98290700 None:intergenic
TTCTACTGTTCACCTCACGC+AGG 0.697342 3.4:-98290257 MS.gene064800:CDS
TGTGAATGATGGAATAGCAA+CGG 0.697370 3.4:+98290682 None:intergenic
GATGAAGACGAGATTCCAAG+CGG 0.752965 3.4:-98290377 MS.gene064800:CDS
GAATGATGGAATAGCAACGG+TGG 0.782143 3.4:+98290685 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGCATTGTTCTTGAATGTAA+TGG + chr3.4:98290506-98290525 None:intergenic 30.0%
ATTACATTCAAGAACAATGC+TGG - chr3.4:98290505-98290524 MS.gene064800:CDS 30.0%
AGGTGAACAGTAGAATTTGT+AGG + chr3.4:98290665-98290684 None:intergenic 35.0%
CAAAGTTAATGCCATAGCTA+AGG - chr3.4:98290288-98290307 MS.gene064800:CDS 35.0%
! TGTGAATGATGGAATAGCAA+CGG + chr3.4:98290248-98290267 None:intergenic 35.0%
! TTCTTCAGGCATGGAAATTT+TGG + chr3.4:98290587-98290606 None:intergenic 35.0%
AACAATTTCACAGTGAACGC+TGG - chr3.4:98290475-98290494 MS.gene064800:CDS 40.0%
AAGATCTTCTCAATGCTCCT+GGG - chr3.4:98290605-98290624 MS.gene064800:CDS 40.0%
AAGCAACACTTCAACTGCAA+GGG + chr3.4:98290422-98290441 None:intergenic 40.0%
AGCAACTCCAAAGTCTTTGA+GGG + chr3.4:98290359-98290378 None:intergenic 40.0%
CTTCAACTTCTCAATTGCCA+AGG - chr3.4:98290317-98290336 MS.gene064800:CDS 40.0%
GCATTGAGAAGATCTTCTTC+AGG + chr3.4:98290601-98290620 None:intergenic 40.0%
GCGTTCACTGTGAAATTGTT+TGG + chr3.4:98290475-98290494 None:intergenic 40.0%
GGCAATTGAGAAGTTGAAGT+TGG + chr3.4:98290316-98290335 None:intergenic 40.0%
TCATCGAAGATAACGTTGTG+AGG + chr3.4:98290535-98290554 None:intergenic 40.0%
TGAAGTTGGAACCTTAGCTA+TGG + chr3.4:98290302-98290321 None:intergenic 40.0%
! AGCGTTACTTTGGATGCTAA+GGG - chr3.4:98290637-98290656 MS.gene064800:CDS 40.0%
! GTTGCTATTCCATCATTCAC+AGG - chr3.4:98290247-98290266 MS.gene064800:CDS 40.0%
AGAGCTTCCCTCAAAGACTT+TGG - chr3.4:98290349-98290368 MS.gene064800:CDS 45.0%
AGATCTTCTCAATGCTCCTG+GGG - chr3.4:98290606-98290625 MS.gene064800:CDS 45.0%
ATGAAGACGAGATTCCAAGC+GGG - chr3.4:98290551-98290570 MS.gene064800:CDS 45.0%
CAAGCAACACTTCAACTGCA+AGG + chr3.4:98290423-98290442 None:intergenic 45.0%
CAGCAACTCCAAAGTCTTTG+AGG + chr3.4:98290360-98290379 None:intergenic 45.0%
CTTTGCTTGCGTTTGCCTTA+AGG + chr3.4:98290273-98290292 None:intergenic 45.0%
GAAGATCTTCTCAATGCTCC+TGG - chr3.4:98290604-98290623 MS.gene064800:CDS 45.0%
GAGAAGATCTTCTTCAGGCA+TGG + chr3.4:98290596-98290615 None:intergenic 45.0%
GATGAAGACGAGATTCCAAG+CGG - chr3.4:98290550-98290569 MS.gene064800:CDS 45.0%
GGAGACTTACAGCGTTACTT+TGG - chr3.4:98290627-98290646 MS.gene064800:CDS 45.0%
TAACAATGCACTTGCAGCAG+TGG + chr3.4:98290389-98290408 None:intergenic 45.0%
TCCATCATTCACAGGCCTTA+AGG - chr3.4:98290255-98290274 MS.gene064800:CDS 45.0%
! CAGCGTTACTTTGGATGCTA+AGG - chr3.4:98290636-98290655 MS.gene064800:CDS 45.0%
! GAATGATGGAATAGCAACGG+TGG + chr3.4:98290245-98290264 None:intergenic 45.0%
!! CTTGCAGTTGAAGTGTTGCT+TGG - chr3.4:98290421-98290440 MS.gene064800:CDS 45.0%
!! TGTTGCTTGGTGCTAGTGAT+GGG - chr3.4:98290434-98290453 MS.gene064800:CDS 45.0%
GCCTTAAGGCCTGTGAATGA+TGG + chr3.4:98290259-98290278 None:intergenic 50.0%
TGAAGACGAGATTCCAAGCG+GGG - chr3.4:98290552-98290571 MS.gene064800:CDS 50.0%
TGATGGAATAGCAACGGTGG+TGG + chr3.4:98290242-98290261 None:intergenic 50.0%
TTCTACTGTTCACCTCACGC+AGG - chr3.4:98290670-98290689 MS.gene064800:CDS 50.0%
! GAAGCTCTGACACAAAGCCT+TGG + chr3.4:98290337-98290356 None:intergenic 50.0%
!! AGCAACGGTGGTGGAAGTAA+CGG + chr3.4:98290233-98290252 None:intergenic 50.0%
!! GTGTTGCTTGGTGCTAGTGA+TGG - chr3.4:98290433-98290452 MS.gene064800:CDS 50.0%
!! GTTGCTTGGTGCTAGTGATG+GGG - chr3.4:98290435-98290454 MS.gene064800:CDS 50.0%
!! TTGCTTGGTGCTAGTGATGG+GGG - chr3.4:98290436-98290455 MS.gene064800:CDS 50.0%
GTAACGCTGTAAGTCTCCCC+AGG + chr3.4:98290625-98290644 None:intergenic 55.0%
! TGGTGCTAGTGATGGGGGTT+TGG - chr3.4:98290441-98290460 MS.gene064800:CDS 55.0%
!! AACGGTGGTGGAAGTAACGG+TGG + chr3.4:98290230-98290249 None:intergenic 55.0%
ACCATACCAGCTCCTGCGTG+AGG + chr3.4:98290685-98290704 None:intergenic 60.0%
ACCTCACGCAGGAGCTGGTA+TGG - chr3.4:98290681-98290700 MS.gene064800:CDS 60.0%
CACGCAGGAGCTGGTATGGT+TGG - chr3.4:98290685-98290704 MS.gene064800:CDS 60.0%
TGTTCACCTCACGCAGGAGC+TGG - chr3.4:98290676-98290695 MS.gene064800:CDS 60.0%
TTGGCTGCATCAACCCCGCT+TGG + chr3.4:98290568-98290587 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr3.4 gene 98290223 98290726 98290223 ID=MS.gene064800
chr3.4 mRNA 98290223 98290726 98290223 ID=MS.gene064800.t1;Parent=MS.gene064800
chr3.4 exon 98290223 98290726 98290223 ID=MS.gene064800.t1.exon1;Parent=MS.gene064800.t1
chr3.4 CDS 98290223 98290726 98290223 ID=cds.MS.gene064800.t1;Parent=MS.gene064800.t1
Gene Sequence

>MS.gene064800

ATGGCCACCGTTACTTCCACCACCGTTGCTATTCCATCATTCACAGGCCTTAAGGCAAACGCAAGCAAAGTTAATGCCATAGCTAAGGTTCCAACTTCAACTTCTCAATTGCCAAGGCTTTGTGTCAGAGCTTCCCTCAAAGACTTTGGAGTTGCTGTTGTTGCCACTGCTGCAAGTGCATTGTTAGCTAGCAATGCCCTTGCAGTTGAAGTGTTGCTTGGTGCTAGTGATGGGGGTTTGGCTTTTGTTCCAAACAATTTCACAGTGAACGCTGGAGACACCATTACATTCAAGAACAATGCTGGTTTTCCTCACAACGTTATCTTCGATGAAGACGAGATTCCAAGCGGGGTTGATGCAGCCAAAATTTCCATGCCTGAAGAAGATCTTCTCAATGCTCCTGGGGAGACTTACAGCGTTACTTTGGATGCTAAGGGAACCTACAAATTCTACTGTTCACCTCACGCAGGAGCTGGTATGGTTGGACAAGTCACTGTTAATTAA

Protein sequence

>MS.gene064800.t1

MATVTSTTVAIPSFTGLKANASKVNAIAKVPTSTSQLPRLCVRASLKDFGVAVVATAASALLASNALAVEVLLGASDGGLAFVPNNFTVNAGDTITFKNNAGFPHNVIFDEDEIPSGVDAAKISMPEEDLLNAPGETYSVTLDAKGTYKFYCSPHAGAGMVGQVTVN