AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene23058


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene23058.t1 MTR_0699s0020 100.000 112 0 0 1 112 1 112 2.57e-79 228
MS.gene23058.t1 MTR_0699s0010 99.107 112 1 0 1 112 1 112 1.25e-78 226
MS.gene23058.t1 MTR_5g081705 94.643 112 6 0 1 112 26 137 5.74e-77 223
MS.gene23058.t1 MTR_5g081705 94.949 99 5 0 1 99 26 124 2.98e-67 198
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene23058.t1 AT1G74270 91.964 112 9 0 1 112 1 112 6.63e-74 214
MS.gene23058.t1 AT1G07070 91.071 112 10 0 1 112 1 112 7.40e-74 214
MS.gene23058.t1 AT3G55750 87.387 111 14 0 2 112 1 111 4.97e-71 207
MS.gene23058.t1 AT1G41880 86.486 111 15 0 2 112 1 111 7.54e-71 207
MS.gene23058.t1 AT1G41880 86.486 111 15 0 2 112 1 111 7.54e-71 207

Find 48 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGAAGATTTGACTTGAATT+TGG 0.232635 7.2:+7223345 None:intergenic
TTAAATTATTACCATTGATT+TGG 0.240677 7.2:+7223321 None:intergenic
TGGTGTTCACTCCTTCAATT+TGG 0.242520 7.2:+7223503 None:intergenic
TAAATTATTACCATTGATTT+GGG 0.268294 7.2:+7223322 None:intergenic
GCCCCATATGCAGCGGTAAT+GGG 0.380708 7.2:+7223408 None:intergenic
CCAGAGATGTGTTTGGGTAC+TGG 0.398125 7.2:+7223527 None:intergenic
ATTTGGACCAGAGATGTGTT+TGG 0.405595 7.2:+7223520 None:intergenic
GAACCCATTACCGCTGCATA+TGG 0.409627 7.2:-7223411 MS.gene23058:CDS
TGCCCCATATGCAGCGGTAA+TGG 0.410420 7.2:+7223407 None:intergenic
GACGTCAAGGAGAGCGTGTC+AGG 0.412439 7.2:-7224194 MS.gene23058:intron
TTTGGACCAGAGATGTGTTT+GGG 0.422500 7.2:+7223521 None:intergenic
TTGGTATGCTGGCAAGAAAA+TGG 0.428506 7.2:-7223467 MS.gene23058:CDS
AGTTTACCTCATATATTGCT+TGG 0.429962 7.2:+7223196 None:intergenic
GAAGAGGTAGCTTGGTATGC+TGG 0.459649 7.2:-7223478 MS.gene23058:CDS
AACCCATTACCGCTGCATAT+GGG 0.459805 7.2:-7223410 MS.gene23058:CDS
ACATCTCTGGTCCAAATTGA+AGG 0.462436 7.2:-7223514 MS.gene23058:CDS
GTTTACCTCATATATTGCTT+GGG 0.467769 7.2:+7223197 None:intergenic
TACGTGAGGGGTACAATCCT+TGG 0.470557 7.2:-7223647 MS.gene23058:CDS
GGTTCCATTCTTCTTCACCT+TGG 0.492441 7.2:+7223429 None:intergenic
GTACAATCCTTGGATACAAA+AGG 0.498010 7.2:-7223637 MS.gene23058:intron
AAGGCCAAGGTGAAGAAGAA+TGG 0.517743 7.2:-7223433 MS.gene23058:CDS
GTTTGGGTACTGGTTTACTT+TGG 0.518411 7.2:+7223537 None:intergenic
ATACCAAGCTACCTCTTCCT+TGG 0.523366 7.2:+7223483 None:intergenic
GCATATGGGGCAAGGTTACA+AGG 0.526923 7.2:-7223396 MS.gene23058:CDS
CCAGTACCCAAACACATCTC+TGG 0.530530 7.2:-7223527 MS.gene23058:CDS
TTGTATTAGGCTTTACGTGA+GGG 0.533599 7.2:-7223660 MS.gene23058:intron
ACCCATTACCGCTGCATATG+GGG 0.539984 7.2:-7223409 MS.gene23058:CDS
TTTGTATTAGGCTTTACGTG+AGG 0.553810 7.2:-7223661 MS.gene23058:intron
AGGAGTGAACACCAAGGAAG+AGG 0.555068 7.2:-7223494 MS.gene23058:CDS
ATGTACCCAAGCAATATATG+AGG 0.556382 7.2:-7223202 None:intergenic
AATTATTACCATTGATTTGG+GGG 0.558553 7.2:+7223324 None:intergenic
GGCATATATCTACAAGGCCA+AGG 0.574061 7.2:-7223446 MS.gene23058:CDS
AAATTATTACCATTGATTTG+GGG 0.588097 7.2:+7223323 None:intergenic
ACACCAAGGAAGAGGTAGCT+TGG 0.593143 7.2:-7223486 MS.gene23058:CDS
GTACATAAATACTCTTACGC+GGG 0.601920 7.2:+7223219 None:intergenic
TGTATTAGGCTTTACGTGAG+GGG 0.604275 7.2:-7223659 MS.gene23058:intron
GGCAAGGTTACAAGGCCACA+TGG 0.606069 7.2:-7223388 MS.gene23058:CDS
AAGATGGTGAAGGGACGTCA+AGG 0.609822 7.2:-7224207 MS.gene23058:CDS
ATTATTACCATTGATTTGGG+GGG 0.627666 7.2:+7223325 None:intergenic
GAAAATGGCATATATCTACA+AGG 0.630318 7.2:-7223452 MS.gene23058:CDS
GGTACATAAATACTCTTACG+CGG 0.638869 7.2:+7223218 None:intergenic
TTACCGCTGCATATGGGGCA+AGG 0.645005 7.2:-7223404 MS.gene23058:CDS
AGTTGCCGTGAAGATGGTGA+AGG 0.661868 7.2:-7224217 None:intergenic
TAACCTTGCCCCATATGCAG+CGG 0.677626 7.2:+7223401 None:intergenic
ACAAGGCCACATGGTAACAG+TGG 0.690947 7.2:-7223379 MS.gene23058:CDS
GTTGCCGTGAAGATGGTGAA+GGG 0.718264 7.2:-7224216 None:intergenic
ACAATACCACTGTTACCATG+TGG 0.724821 7.2:+7223373 None:intergenic
AATTGAAGGAGTGAACACCA+AGG 0.776962 7.2:-7223500 MS.gene23058:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TATAATATTAGCTTATTATA+TGG + chr7.2:7223716-7223735 None:intergenic 10.0%
!!! TTTTTTTTTAATCATCATTT+GGG - chr7.2:7224120-7224139 MS.gene23058:intron 10.0%
!!! TTTTTTTTTTAATCATCATT+TGG - chr7.2:7224119-7224138 MS.gene23058:intron 10.0%
!!! AAACATGAAAATTTTCAAAT+TGG + chr7.2:7223613-7223632 None:intergenic 15.0%
!!! ATCATTGTTTTTAATTCATT+TGG - chr7.2:7223364-7223383 MS.gene23058:CDS 15.0%
!!! ATTTATTTTTGAATGATAGT+AGG + chr7.2:7223423-7223442 None:intergenic 15.0%
!!! ATTTTTGTTTCATTTGTATT+AGG - chr7.2:7223735-7223754 MS.gene23058:intron 15.0%
!!! TAAATTATTACCATTGATTT+GGG + chr7.2:7224089-7224108 None:intergenic 15.0%
!!! TTAAATTATTACCATTGATT+TGG + chr7.2:7224090-7224109 None:intergenic 15.0%
!!! AAATTATTACCATTGATTTG+GGG + chr7.2:7224088-7224107 None:intergenic 20.0%
! TAGTTTACAGAGTAAAGTAA+AGG - chr7.2:7223486-7223505 MS.gene23058:CDS 25.0%
!! ACTTTTCTAATGAAAATGTC+TGG - chr7.2:7223797-7223816 MS.gene23058:intron 25.0%
!! TATCAGACACTTATATTTTG+TGG - chr7.2:7223585-7223604 MS.gene23058:intron 25.0%
!!! AATTATTACCATTGATTTGG+GGG + chr7.2:7224087-7224106 None:intergenic 25.0%
ATCTGAAAATCAACTGTATC+TGG + chr7.2:7223561-7223580 None:intergenic 30.0%
GAAAATGGCATATATCTACA+AGG - chr7.2:7223956-7223975 MS.gene23058:intron 30.0%
TCGTGTTTGGATTAATTTCA+GGG - chr7.2:7224164-7224183 MS.gene23058:intron 30.0%
TGTTATCTTAATCTCGTGTT+TGG - chr7.2:7224151-7224170 MS.gene23058:intron 30.0%
! AAGTTTACCTTTTGTATCCA+AGG + chr7.2:7223781-7223800 None:intergenic 30.0%
! TAAATACGCATAGTTAGTCT+AGG + chr7.2:7223677-7223696 None:intergenic 30.0%
!! ATTATTACCATTGATTTGGG+GGG + chr7.2:7224086-7224105 None:intergenic 30.0%
AAATGTCTGGTTAGATGCTT+TGG - chr7.2:7223810-7223829 MS.gene23058:intron 35.0%
CTCGTGTTTGGATTAATTTC+AGG - chr7.2:7224163-7224182 MS.gene23058:intron 35.0%
GAAAATCAACTGTATCTGGT+TGG + chr7.2:7223557-7223576 None:intergenic 35.0%
GGTACATAAATACTCTTACG+CGG + chr7.2:7224193-7224212 None:intergenic 35.0%
GTACAATCCTTGGATACAAA+AGG - chr7.2:7223771-7223790 MS.gene23058:intron 35.0%
GTACATAAATACTCTTACGC+GGG + chr7.2:7224192-7224211 None:intergenic 35.0%
TTGTATTAGGCTTTACGTGA+GGG - chr7.2:7223748-7223767 MS.gene23058:intron 35.0%
TTTGTATTAGGCTTTACGTG+AGG - chr7.2:7223747-7223766 MS.gene23058:intron 35.0%
!! GGGAAGATTTGACTTGAATT+TGG + chr7.2:7224066-7224085 None:intergenic 35.0%
AAATCTTCCCCCCAAATCAA+TGG - chr7.2:7224076-7224095 MS.gene23058:intron 40.0%
AATTGAAGGAGTGAACACCA+AGG - chr7.2:7223908-7223927 MS.gene23058:intron 40.0%
ACAATACCACTGTTACCATG+TGG + chr7.2:7224038-7224057 None:intergenic 40.0%
ACATCTCTGGTCCAAATTGA+AGG - chr7.2:7223894-7223913 MS.gene23058:intron 40.0%
ATTTGGACCAGAGATGTGTT+TGG + chr7.2:7223891-7223910 None:intergenic 40.0%
TGGTGTTCACTCCTTCAATT+TGG + chr7.2:7223908-7223927 None:intergenic 40.0%
TGTATTAGGCTTTACGTGAG+GGG - chr7.2:7223749-7223768 MS.gene23058:intron 40.0%
TTGGTATGCTGGCAAGAAAA+TGG - chr7.2:7223941-7223960 MS.gene23058:intron 40.0%
TTTGGACCAGAGATGTGTTT+GGG + chr7.2:7223890-7223909 None:intergenic 40.0%
!! GTTTGGGTACTGGTTTACTT+TGG + chr7.2:7223874-7223893 None:intergenic 40.0%
AACCCATTACCGCTGCATAT+GGG - chr7.2:7223998-7224017 MS.gene23058:intron 45.0%
AAGGCCAAGGTGAAGAAGAA+TGG - chr7.2:7223975-7223994 MS.gene23058:intron 45.0%
ATACCAAGCTACCTCTTCCT+TGG + chr7.2:7223928-7223947 None:intergenic 45.0%
GGCATATATCTACAAGGCCA+AGG - chr7.2:7223962-7223981 MS.gene23058:intron 45.0%
GGTTCCATTCTTCTTCACCT+TGG + chr7.2:7223982-7224001 None:intergenic 45.0%
ACAAGGCCACATGGTAACAG+TGG - chr7.2:7224029-7224048 MS.gene23058:intron 50.0%
ACACCAAGGAAGAGGTAGCT+TGG - chr7.2:7223922-7223941 MS.gene23058:intron 50.0%
ACCCATTACCGCTGCATATG+GGG - chr7.2:7223999-7224018 MS.gene23058:intron 50.0%
AGGAGTGAACACCAAGGAAG+AGG - chr7.2:7223914-7223933 MS.gene23058:intron 50.0%
CCAGAGATGTGTTTGGGTAC+TGG + chr7.2:7223884-7223903 None:intergenic 50.0%
CCAGTACCCAAACACATCTC+TGG - chr7.2:7223881-7223900 MS.gene23058:intron 50.0%
GAACCCATTACCGCTGCATA+TGG - chr7.2:7223997-7224016 MS.gene23058:intron 50.0%
GAAGAGGTAGCTTGGTATGC+TGG - chr7.2:7223930-7223949 MS.gene23058:intron 50.0%
GCATATGGGGCAAGGTTACA+AGG - chr7.2:7224012-7224031 MS.gene23058:intron 50.0%
TAACCTTGCCCCATATGCAG+CGG + chr7.2:7224010-7224029 None:intergenic 50.0%
! TACGTGAGGGGTACAATCCT+TGG - chr7.2:7223761-7223780 MS.gene23058:intron 50.0%
GCCCCATATGCAGCGGTAAT+GGG + chr7.2:7224003-7224022 None:intergenic 55.0%
GGCAAGGTTACAAGGCCACA+TGG - chr7.2:7224020-7224039 MS.gene23058:intron 55.0%
TGCCCCATATGCAGCGGTAA+TGG + chr7.2:7224004-7224023 None:intergenic 55.0%
TTACCGCTGCATATGGGGCA+AGG - chr7.2:7224004-7224023 MS.gene23058:intron 55.0%
! GACGTCAAGGAGAGCGTGTC+AGG - chr7.2:7223214-7223233 MS.gene23058:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 7223204 7224226 7223204 ID=MS.gene23058
chr7.2 mRNA 7223204 7224226 7223204 ID=MS.gene23058.t1;Parent=MS.gene23058
chr7.2 exon 7224195 7224226 7224195 ID=MS.gene23058.t1.exon1;Parent=MS.gene23058.t1
chr7.2 CDS 7224195 7224226 7224195 ID=cds.MS.gene23058.t1;Parent=MS.gene23058.t1
chr7.2 exon 7223638 7223673 7223638 ID=MS.gene23058.t1.exon2;Parent=MS.gene23058.t1
chr7.2 CDS 7223638 7223673 7223638 ID=cds.MS.gene23058.t1;Parent=MS.gene23058.t1
chr7.2 exon 7223333 7223561 7223333 ID=MS.gene23058.t1.exon3;Parent=MS.gene23058.t1
chr7.2 CDS 7223333 7223561 7223333 ID=cds.MS.gene23058.t1;Parent=MS.gene23058.t1
chr7.2 exon 7223204 7223245 7223204 ID=MS.gene23058.t1.exon4;Parent=MS.gene23058.t1
chr7.2 CDS 7223204 7223245 7223204 ID=cds.MS.gene23058.t1;Parent=MS.gene23058.t1
Gene Sequence

>MS.gene23058

ATGGTGAAGGGACGTCAAGGAGAGCGTGTCAGGTACTCTTCTTTTCATCTGATACTTGTAGATTTTGATCTGATTCTGTAGCTTGATCTCTTTCTTTTCTGCTATTGACTGTTTTTATTTTCATCATTATCGTATATGTGTTTGAATTTTAGTAGTAATTATCATTGTTTTTAATTCATTTGGCTATAGTTAGTTACTGTTAGTAATTTGATGATGCCTACTATCATTCAAAAATAAATATCTGATTTTGAGAAATTAGCATACTTTGAATAATTTCATTTTTAGTTTACAGAGTAAAGTAAAGGCATAATTGAATGTTGAAAAAAGCATGTATATCAATTTTCAAAGTACCAACCAGATACAGTTGATTTTCAGATAATGTATCAGACACTTATATTTTGTGGTACCAATTTGAAAATTTTCATGTTTTTCTCACTTAAAATCAGTTTTGTGTATTTACTCTATTTTATCCTAGACTAACTATGCGTATTTACTTTACTCTGTTTTTGCCATATAATAAGCTAATATTATATTTTTGTTTCATTTGTATTAGGCTTTACGTGAGGGGTACAATCCTTGGATACAAAAGGTAAACTTTTCTAATGAAAATGTCTGGTTAGATGCTTTGGCTTAATTAATACTTACTGTTTTATGCTGTTTTTTAGATCCAAAGTAAACCAGTACCCAAACACATCTCTGGTCCAAATTGAAGGAGTGAACACCAAGGAAGAGGTAGCTTGGTATGCTGGCAAGAAAATGGCATATATCTACAAGGCCAAGGTGAAGAAGAATGGAACCCATTACCGCTGCATATGGGGCAAGGTTACAAGGCCACATGGTAACAGTGGTATTGTTCGTGCCAAATTCAAGTCAAATCTTCCCCCCAAATCAATGGTAATAATTTAACAGTGTTTTTTTTTTTTTTAATCATCATTTGGGTTTTATAATGTTATCTTAATCTCGTGTTTGGATTAATTTCAGGGTTCCCGCGTAAGAGTATTTATGTACCCAAGCAATATATGA

Protein sequence

>MS.gene23058.t1

MVKGRQGERVRLYVRGTILGYKRSKVNQYPNTSLVQIEGVNTKEEVAWYAGKKMAYIYKAKVKKNGTHYRCIWGKVTRPHGNSGIVRAKFKSNLPPKSMGSRVRVFMYPSNI