AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene69937


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69937.t1 MTR_1g080910 92.806 139 7 1 1 136 1 139 3.49e-75 220
MS.gene69937.t1 MTR_1g080910 92.000 100 5 1 1 97 1 100 2.04e-46 146
MS.gene69937.t1 MTR_7g115180 70.707 99 24 2 43 136 46 144 7.76e-41 133
MS.gene69937.t1 MTR_7g115180 68.919 74 21 1 43 114 46 119 3.37e-27 98.2
MS.gene69937.t1 MTR_1g100220 40.260 77 45 1 45 121 75 150 7.68e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69937.t1 AT5G28750 60.000 105 37 2 33 132 38 142 1.62e-37 125
MS.gene69937.t1 AT5G52440 52.083 48 23 0 56 103 85 132 3.65e-11 59.3

Find 31 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACGCTTTGTGCTTCTGTTTC+TGG 0.042249 1.4:+65826261 None:intergenic
CCAACTTCGGGCAATTTCTT+AGG 0.195754 1.4:+65826160 None:intergenic
TGTGCTTCTGTTTCTGGTTC+TGG 0.214291 1.4:+65826267 None:intergenic
CATTATTGTCTTGATCTTCT+TGG 0.219177 1.4:+65825725 None:intergenic
GAAATTTCTTCAGTAGAATT+AGG 0.222712 1.4:+65825760 None:intergenic
CCCGAGCTTGTTGTTATTGC+AGG 0.253511 1.4:-65826205 MS.gene69937:CDS
GCCGATGCTGCGACCAACTT+CGG 0.342708 1.4:+65826147 None:intergenic
TTTACTTGCAACGCCTTCTT+CGG 0.349544 1.4:-65826238 MS.gene69937:CDS
AAGTGAGGTAGTATTGGAAT+TGG 0.350889 1.4:+65826303 None:intergenic
CCGATGCTGCGACCAACTTC+GGG 0.355688 1.4:+65826148 None:intergenic
TAAGAAGGATAAGGTGGAAT+AGG 0.383721 1.4:+65826330 None:intergenic
GTGGAATAGGATGAAGAGAT+TGG 0.421445 1.4:+65826343 None:intergenic
GCGAATTAAAGAAGAAGAAA+GGG 0.424605 1.4:+65826375 None:intergenic
CTTCTTCTTTAATTCGCCCT+AGG 0.426973 1.4:-65826369 MS.gene69937:CDS
GGCGAATTAAAGAAGAAGAA+AGG 0.452383 1.4:+65826374 None:intergenic
AACTGTCAAAAGCTTCCAAC+AGG 0.455252 1.4:-65826122 MS.gene69937:intron
CCCGAAGTTGGTCGCAGCAT+CGG 0.463383 1.4:-65826148 MS.gene69937:CDS
ATTGGAATTGGAAGCTAAGA+AGG 0.471201 1.4:+65826315 None:intergenic
CCTAAGAAATTGCCCGAAGT+TGG 0.474122 1.4:-65826160 MS.gene69937:CDS
CAAGAGAAGTGAGGTAGTAT+TGG 0.479165 1.4:+65826297 None:intergenic
TGAAACCTTGTAGGCAGCAA+AGG 0.513076 1.4:-65825809 MS.gene69937:intron
TGCAACGCCTTCTTCGGATT+AGG 0.521226 1.4:-65826232 MS.gene69937:CDS
ATTGGAAGCTAAGAAGGATA+AGG 0.521310 1.4:+65826321 None:intergenic
TCCTGCAATAACAACAAGCT+CGG 0.534091 1.4:+65826204 None:intergenic
CAATAATGTTTCTAGTACAA+AGG 0.541741 1.4:-65825710 MS.gene69937:CDS
ATGAAGAGATTGGAAGCCTA+GGG 0.550257 1.4:+65826353 None:intergenic
GATGAAGAGATTGGAAGCCT+AGG 0.550349 1.4:+65826352 None:intergenic
CCTGCAATAACAACAAGCTC+GGG 0.555493 1.4:+65826205 None:intergenic
GGAAGCTAAGAAGGATAAGG+TGG 0.578078 1.4:+65826324 None:intergenic
GGGCACGCCTAATCCGAAGA+AGG 0.614059 1.4:+65826225 None:intergenic
GGCTTTCTTCAAGAGAAGTG+AGG 0.628856 1.4:+65826288 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAAAATTGAAATTGTTTTAT+AGG - chr1.4:65826154-65826173 MS.gene69937:CDS 10.0%
!! GCAATTTCTTATCTAATTAA+CGG - chr1.4:65826065-65826084 MS.gene69937:intron 20.0%
!!! GCAAATTTTTATTGTTTGTT+TGG - chr1.4:65826243-65826262 MS.gene69937:CDS 20.0%
! GAAATTTCTTCAGTAGAATT+AGG + chr1.4:65826333-65826352 None:intergenic 25.0%
! TTATCCTAAGAATGAGAAAA+TGG + chr1.4:65825996-65826015 None:intergenic 25.0%
!!! ATTAGATTTTGAAACCTTGT+AGG - chr1.4:65826272-65826291 MS.gene69937:CDS 25.0%
!!! ATTAGGTTCCTTTTTTAACT+CGG + chr1.4:65826316-65826335 None:intergenic 25.0%
!!! CAATAATGTTTCTAGTACAA+AGG - chr1.4:65826380-65826399 MS.gene69937:CDS 25.0%
ATGTAGAACTCCTATATGTT+AGG + chr1.4:65826043-65826062 None:intergenic 30.0%
CATTATTGTCTTGATCTTCT+TGG + chr1.4:65826368-65826387 None:intergenic 30.0%
GCGAATTAAAGAAGAAGAAA+GGG + chr1.4:65825718-65825737 None:intergenic 30.0%
TCATTCGTTGTATTTGAATG+AGG - chr1.4:65826198-65826217 MS.gene69937:CDS 30.0%
!! ATTTGTTGTGCCTAACATAT+AGG - chr1.4:65826030-65826049 MS.gene69937:intron 30.0%
AATGAGAAAATGGAACCTGT+TGG + chr1.4:65825986-65826005 None:intergenic 35.0%
ATTGGAAGCTAAGAAGGATA+AGG + chr1.4:65825772-65825791 None:intergenic 35.0%
ATTGGAATTGGAAGCTAAGA+AGG + chr1.4:65825778-65825797 None:intergenic 35.0%
GGCGAATTAAAGAAGAAGAA+AGG + chr1.4:65825719-65825738 None:intergenic 35.0%
TAAGAAGGATAAGGTGGAAT+AGG + chr1.4:65825763-65825782 None:intergenic 35.0%
! AAGTGAGGTAGTATTGGAAT+TGG + chr1.4:65825790-65825809 None:intergenic 35.0%
! GGTTCCATTTTCTCATTCTT+AGG - chr1.4:65825989-65826008 MS.gene69937:intron 35.0%
! GTTTGAGACCGAGTTAAAAA+AGG - chr1.4:65826305-65826324 MS.gene69937:CDS 35.0%
AACTGTCAAAAGCTTCCAAC+AGG - chr1.4:65825968-65825987 MS.gene69937:intron 40.0%
ATGAAGAGATTGGAAGCCTA+GGG + chr1.4:65825740-65825759 None:intergenic 40.0%
CAAGAGAAGTGAGGTAGTAT+TGG + chr1.4:65825796-65825815 None:intergenic 40.0%
CTTCTTCTTTAATTCGCCCT+AGG - chr1.4:65825721-65825740 MS.gene69937:CDS 40.0%
GTGGAATAGGATGAAGAGAT+TGG + chr1.4:65825750-65825769 None:intergenic 40.0%
TCCTGCAATAACAACAAGCT+CGG + chr1.4:65825889-65825908 None:intergenic 40.0%
TTTACTTGCAACGCCTTCTT+CGG - chr1.4:65825852-65825871 MS.gene69937:intron 40.0%
AAACTCCTTTGCTGCCTACA+AGG + chr1.4:65826289-65826308 None:intergenic 45.0%
ACGCTTTGTGCTTCTGTTTC+TGG + chr1.4:65825832-65825851 None:intergenic 45.0%
CCAACTTCGGGCAATTTCTT+AGG + chr1.4:65825933-65825952 None:intergenic 45.0%
CCTAAGAAATTGCCCGAAGT+TGG - chr1.4:65825930-65825949 MS.gene69937:intron 45.0%
CCTGCAATAACAACAAGCTC+GGG + chr1.4:65825888-65825907 None:intergenic 45.0%
GATGAAGAGATTGGAAGCCT+AGG + chr1.4:65825741-65825760 None:intergenic 45.0%
GGAAGCTAAGAAGGATAAGG+TGG + chr1.4:65825769-65825788 None:intergenic 45.0%
GGCTTTCTTCAAGAGAAGTG+AGG + chr1.4:65825805-65825824 None:intergenic 45.0%
TGAAACCTTGTAGGCAGCAA+AGG - chr1.4:65826281-65826300 MS.gene69937:CDS 45.0%
!! TGTGCTTCTGTTTCTGGTTC+TGG + chr1.4:65825826-65825845 None:intergenic 45.0%
TGCAACGCCTTCTTCGGATT+AGG - chr1.4:65825858-65825877 MS.gene69937:intron 50.0%
!! CCCGAGCTTGTTGTTATTGC+AGG - chr1.4:65825885-65825904 MS.gene69937:intron 50.0%
!!! GGAGTCGCTGCTCTTGTTTT+CGG - chr1.4:65825906-65825925 MS.gene69937:intron 50.0%
CCGATGCTGCGACCAACTTC+GGG + chr1.4:65825945-65825964 None:intergenic 60.0%
GCCGATGCTGCGACCAACTT+CGG + chr1.4:65825946-65825965 None:intergenic 60.0%
GGGCACGCCTAATCCGAAGA+AGG + chr1.4:65825868-65825887 None:intergenic 60.0%
! CCCGAAGTTGGTCGCAGCAT+CGG - chr1.4:65825942-65825961 MS.gene69937:intron 60.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 65825699 65826413 65825699 ID=MS.gene69937
chr1.4 mRNA 65825699 65826413 65825699 ID=MS.gene69937.t1;Parent=MS.gene69937
chr1.4 exon 65826123 65826413 65826123 ID=MS.gene69937.t1.exon1;Parent=MS.gene69937.t1
chr1.4 CDS 65826123 65826413 65826123 ID=cds.MS.gene69937.t1;Parent=MS.gene69937.t1
chr1.4 exon 65825699 65825818 65825699 ID=MS.gene69937.t1.exon2;Parent=MS.gene69937.t1
chr1.4 CDS 65825699 65825818 65825699 ID=cds.MS.gene69937.t1;Parent=MS.gene69937.t1
Gene Sequence

>MS.gene69937

ATGGAGACAACACTTTCCCTTTCTTCTTCTTTAATTCGCCCTAGGCTTCCAATCTCTTCATCCTATTCCACCTTATCCTTCTTAGCTTCCAATTCCAATACTACCTCACTTCTCTTGAAGAAAGCCAGAACCAGAAACAGAAGCACAAAGCGTTTTACTTGCAACGCCTTCTTCGGATTAGGCGTGCCCGAGCTTGTTGTTATTGCAGGAGTCGCTGCTCTTGTTTTCGGTCCTAAGAAATTGCCCGAAGTTGGTCGCAGCATCGGCAAAACTGTCAAAAGCTTCCAACAGGTTCCATTTTCTCATTCTTAGGATAAGTTGCATTTTTTTTATTTGTTGTGCCTAACATATAGGAGTTCTACATTTGCAATTTCTTATCTAATTAACGGATCATATTTTTTTTAAATAATCGCATAAAATTTTGTAACATGTATATCTATCTCAAATTAGTCGCGTAAAATTGAAATTGTTTTATAGGTTCATTTGTATTTGTACTTACTCATTCGTTGTATTTGAATGAGGAGTTTTTAATAATTCAGTTGAAGCAAATTTTTATTGTTTGTTTGGTTACTTATTAGATTTTGAAACCTTGTAGGCAGCAAAGGAGTTTGAGACCGAGTTAAAAAAGGAACCTAATTCTACTGAAGAAATTTCTGTTGCGAATGACCAAGAAGATCAAGACAATAATGTTTCTAGTACAAAGGATAGCGTATGA

Protein sequence

>MS.gene69937.t1

METTLSLSSSLIRPRLPISSSYSTLSFLASNSNTTSLLLKKARTRNRSTKRFTCNAFFGLGVPELVVIAGVAALVFGPKKLPEVGRSIGKTVKSFQQAAKEFETELKKEPNSTEEISVANDQEDQDNNVSSTKDSV