AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene047093

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene047093.t1 MTR_7g100280 100.000 105 0 0 1 105 1 105 1.57e-71 208
MS.gene047093.t1 MTR_4g094308 100.000 105 0 0 1 105 1 105 1.57e-71 208
MS.gene047093.t1 MTR_2g008180 100.000 105 0 0 1 105 1 105 1.57e-71 208
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene047093.t1 AT4G14320 92.381 105 8 0 1 105 1 105 1.00e-66 196
MS.gene047093.t1 AT3G23390 92.381 105 8 0 1 105 1 105 1.00e-66 196
MS.gene047093.t1 AT4G14320 91.398 93 8 0 1 93 1 93 3.30e-57 174

Find 25 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTTTACCCTTCTTGTATT+GGG 0.247979 2.3:-74294020 None:intergenic
TATCTTTACCCTTCTTGTAT+TGG 0.312780 2.3:-74294021 None:intergenic
CAAGGGAACTTCTCTCTTCT+AGG 0.380957 2.3:+74294886 MS.gene047093:CDS
GATCGCAAACAGTCTGGTTA+TGG 0.387570 2.3:+74294073 MS.gene047093:CDS
TGTTCTGAGGTTGCAATGCC+AGG 0.414173 2.3:+74294675 MS.gene047093:CDS
GCATTCCTTGCTCTTGCAGT+AGG 0.441918 2.3:-74293972 None:intergenic
TGAGATTGGTGGTGATAAGA+AGG 0.451732 2.3:+74294862 MS.gene047093:CDS
CGTTACGATCGCAAACAGTC+TGG 0.464861 2.3:+74294067 MS.gene047093:CDS
TGTTTCTCAACATGCAATCA+AGG 0.468902 2.3:+74294708 MS.gene047093:CDS
GTTACCTTCTTGTGAAAGAC+GGG 0.495280 2.3:-74294109 None:intergenic
GAGAAACATGCTTGCAACCC+TGG 0.514679 2.3:-74294693 None:intergenic
GAGATTGGTGGTGATAAGAA+GGG 0.526133 2.3:+74294863 MS.gene047093:CDS
CAAGGTTACCCAATACAAGA+AGG 0.553515 2.3:+74294012 MS.gene047093:CDS
CGCAAACAGTCTGGTTATGG+TGG 0.554816 2.3:+74294076 MS.gene047093:CDS
TGGTGGTGATAAGAAGGGCA+AGG 0.556388 2.3:+74294868 MS.gene047093:CDS
AAAGATAGCATCGCCGCTCA+AGG 0.571046 2.3:+74294037 MS.gene047093:CDS
AGTTACCTTCTTGTGAAAGA+CGG 0.572609 2.3:-74294110 None:intergenic
CAAGAAGCATACACTTCACA+AGG 0.596444 2.3:+74293994 MS.gene047093:CDS
GAAAACCTACTGCAAGAGCA+AGG 0.601503 2.3:+74293967 MS.gene047093:CDS
CCACTAAGAAAATTGTTCTG+AGG 0.602363 2.3:+74294662 MS.gene047093:CDS
TAAGCCCGTCTTTCACAAGA+AGG 0.606865 2.3:+74294105 MS.gene047093:CDS
AAGGTTACCCAATACAAGAA+GGG 0.630634 2.3:+74294013 MS.gene047093:CDS
GGTGGTGATAAGAAGGGCAA+GGG 0.630826 2.3:+74294869 MS.gene047093:CDS
GTAACGACGCTTACCTTGAG+CGG 0.638526 2.3:-74294050 None:intergenic
GTTCTGAGGTTGCAATGCCA+GGG 0.641034 2.3:+74294676 MS.gene047093:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTAGCTTAATATAATTA+TGG + chr2.3:74294241-74294260 MS.gene047093:intron 10.0%
!!! ATTTAATTTTTGTTTGTGTT+TGG + chr2.3:74294619-74294638 MS.gene047093:intron 15.0%
!!! TGATTTTTTTTTTAGTTGAA+TGG + chr2.3:74294589-74294608 MS.gene047093:intron 15.0%
!! AAATGTATAAAAGTAATGAG+GGG - chr2.3:74294147-74294166 None:intergenic 20.0%
!! CTTACAATCAACTAAAAAAA+TGG - chr2.3:74294191-74294210 None:intergenic 20.0%
!! GAAATGTATAAAAGTAATGA+GGG - chr2.3:74294148-74294167 None:intergenic 20.0%
!! GAATGCAAAAAATTCAAATT+TGG + chr2.3:74294513-74294532 MS.gene047093:intron 20.0%
!! TGAAATGTATAAAAGTAATG+AGG - chr2.3:74294149-74294168 None:intergenic 20.0%
!!! CAGAAATTTTATTTTGTAGA+TGG + chr2.3:74294771-74294790 MS.gene047093:intron 20.0%
!!! TTTTATTTTGTAGATGGATA+TGG + chr2.3:74294777-74294796 MS.gene047093:intron 20.0%
! AATGTATAAAAGTAATGAGG+GGG - chr2.3:74294146-74294165 None:intergenic 25.0%
! ATATGGTTGTTTGTATCTAA+TGG + chr2.3:74294794-74294813 MS.gene047093:intron 25.0%
! GAAAATCCAACATCAAAAAA+GGG - chr2.3:74293925-74293944 None:intergenic 25.0%
! TGAAAATCCAACATCAAAAA+AGG - chr2.3:74293926-74293945 None:intergenic 25.0%
! TGATATAATTACGATTACGT+AGG - chr2.3:74293894-74293913 None:intergenic 25.0%
! TGGATTCAAATATGGTTAAT+AGG + chr2.3:74294314-74294333 MS.gene047093:intron 25.0%
!!! TAGCTTTATGCAAATGATTA+GGG + chr2.3:74294271-74294290 MS.gene047093:intron 25.0%
!!! TGTGTTTGGTTTTATTGTAT+AGG + chr2.3:74294633-74294652 MS.gene047093:intron 25.0%
!!! TTAGCTTTATGCAAATGATT+AGG + chr2.3:74294270-74294289 MS.gene047093:intron 25.0%
!!! TTTTTTGATGTTGGATTTTC+AGG + chr2.3:74293925-74293944 MS.gene047093:intron 25.0%
ATCTTTACCCTTCTTGTATT+GGG - chr2.3:74294023-74294042 None:intergenic 30.0%
GGTTAATAGGAAGAACATTA+TGG + chr2.3:74294327-74294346 MS.gene047093:intron 30.0%
TATCTTTACCCTTCTTGTAT+TGG - chr2.3:74294024-74294043 None:intergenic 30.0%
! TTTTGAGCTGAATGTGAAAT+TGG + chr2.3:74294426-74294445 MS.gene047093:intron 30.0%
AAGGTTACCCAATACAAGAA+GGG + chr2.3:74294013-74294032 MS.gene047093:CDS 35.0%
AGGGAAGATTTAGAGATTGA+TGG + chr2.3:74294290-74294309 MS.gene047093:intron 35.0%
AGTTACCTTCTTGTGAAAGA+CGG - chr2.3:74294113-74294132 None:intergenic 35.0%
CAAACCCACTTAGTGATATA+AGG + chr2.3:74294370-74294389 MS.gene047093:intron 35.0%
CCACTAAGAAAATTGTTCTG+AGG + chr2.3:74294662-74294681 MS.gene047093:CDS 35.0%
TGTTTCTCAACATGCAATCA+AGG + chr2.3:74294708-74294727 MS.gene047093:CDS 35.0%
! AAGATTTAGAGATTGATGGC+TGG + chr2.3:74294294-74294313 MS.gene047093:intron 35.0%
! CAAGCCTTATATCACTAAGT+GGG - chr2.3:74294377-74294396 None:intergenic 35.0%
! CAGTAGGTTTTCTTTGTCTT+TGG - chr2.3:74293959-74293978 None:intergenic 35.0%
! CCTCAGAACAATTTTCTTAG+TGG - chr2.3:74294665-74294684 None:intergenic 35.0%
! CTTATATCACTAAGTGGGTT+TGG - chr2.3:74294372-74294391 None:intergenic 35.0%
! TTGATGGCTGGATTCAAATA+TGG + chr2.3:74294306-74294325 MS.gene047093:intron 35.0%
!!! GCTAAACCCTTTTTTGATGT+TGG + chr2.3:74293916-74293935 MS.gene047093:intron 35.0%
CAAGGTTACCCAATACAAGA+AGG + chr2.3:74294012-74294031 MS.gene047093:CDS 40.0%
CCACTTAGTGATATAAGGCT+TGG + chr2.3:74294375-74294394 MS.gene047093:intron 40.0%
GTTACCTTCTTGTGAAAGAC+GGG - chr2.3:74294112-74294131 None:intergenic 40.0%
! CAAGAAGCATACACTTCACA+AGG + chr2.3:74293994-74294013 MS.gene047093:CDS 40.0%
! CCAAGCCTTATATCACTAAG+TGG - chr2.3:74294378-74294397 None:intergenic 40.0%
! GTTGTGTTTCTGTTATGCAG+AGG + chr2.3:74294828-74294847 MS.gene047093:intron 40.0%
!! GAGATTGGTGGTGATAAGAA+GGG + chr2.3:74294863-74294882 MS.gene047093:CDS 40.0%
!! TGAGATTGGTGGTGATAAGA+AGG + chr2.3:74294862-74294881 MS.gene047093:CDS 40.0%
!!! AGGTGCAAGCATTTTGAGAT+TGG + chr2.3:74294848-74294867 MS.gene047093:CDS 40.0%
!!! TGCAAGCATTTTGAGATTGG+TGG + chr2.3:74294851-74294870 MS.gene047093:CDS 40.0%
AAAGTAATGAGGGGGTGAAG+TGG - chr2.3:74294138-74294157 None:intergenic 45.0%
AAGTAATGAGGGGGTGAAGT+GGG - chr2.3:74294137-74294156 None:intergenic 45.0%
CGATTACGTAGGAACAGACA+CGG - chr2.3:74293883-74293902 None:intergenic 45.0%
GAAAACCTACTGCAAGAGCA+AGG + chr2.3:74293967-74293986 MS.gene047093:CDS 45.0%
GATCGCAAACAGTCTGGTTA+TGG + chr2.3:74294073-74294092 MS.gene047093:CDS 45.0%
TAAGCCCGTCTTTCACAAGA+AGG + chr2.3:74294105-74294124 MS.gene047093:CDS 45.0%
AAAGATAGCATCGCCGCTCA+AGG + chr2.3:74294037-74294056 MS.gene047093:CDS 50.0%
CGCAAACAGTCTGGTTATGG+TGG + chr2.3:74294076-74294095 MS.gene047093:CDS 50.0%
CGTTACGATCGCAAACAGTC+TGG + chr2.3:74294067-74294086 MS.gene047093:CDS 50.0%
GAGAAACATGCTTGCAACCC+TGG - chr2.3:74294696-74294715 None:intergenic 50.0%
GCATTCCTTGCTCTTGCAGT+AGG - chr2.3:74293975-74293994 None:intergenic 50.0%
GGTGGTGATAAGAAGGGCAA+GGG + chr2.3:74294869-74294888 MS.gene047093:CDS 50.0%
GTAACGACGCTTACCTTGAG+CGG - chr2.3:74294053-74294072 None:intergenic 50.0%
TTACGTAGGAACAGACACGG+TGG - chr2.3:74293880-74293899 None:intergenic 50.0%
! TGGTGGTGATAAGAAGGGCA+AGG + chr2.3:74294868-74294887 MS.gene047093:CDS 50.0%
!! GTTCTGAGGTTGCAATGCCA+GGG + chr2.3:74294676-74294695 MS.gene047093:CDS 50.0%
!! TGTTCTGAGGTTGCAATGCC+AGG + chr2.3:74294675-74294694 MS.gene047093:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 74293864 74294907 74293864 ID=MS.gene047093
chr2.3 mRNA 74293864 74294907 74293864 ID=MS.gene047093.t1;Parent=MS.gene047093
chr2.3 exon 74293864 74293866 74293864 ID=MS.gene047093.t1.exon1;Parent=MS.gene047093.t1
chr2.3 CDS 74293864 74293866 74293864 ID=cds.MS.gene047093.t1;Parent=MS.gene047093.t1
chr2.3 exon 74293947 74294126 74293947 ID=MS.gene047093.t1.exon2;Parent=MS.gene047093.t1
chr2.3 CDS 74293947 74294126 74293947 ID=cds.MS.gene047093.t1;Parent=MS.gene047093.t1
chr2.3 exon 74294655 74294729 74294655 ID=MS.gene047093.t1.exon3;Parent=MS.gene047093.t1
chr2.3 CDS 74294655 74294729 74294655 ID=cds.MS.gene047093.t1;Parent=MS.gene047093.t1
chr2.3 exon 74294848 74294907 74294848 ID=MS.gene047093.t1.exon4;Parent=MS.gene047093.t1
chr2.3 CDS 74294848 74294907 74294848 ID=cds.MS.gene047093.t1;Parent=MS.gene047093.t1
Gene Sequence

>MS.gene047093

ATGGTAATCATCTCCACCGTGTCTGTTCCTACGTAATCGTAATTATATCAGCGCTAAACCCTTTTTTGATGTTGGATTTTCAGGTGAACGTTCCAAAGACAAAGAAAACCTACTGCAAGAGCAAGGAATGCAAGAAGCATACACTTCACAAGGTTACCCAATACAAGAAGGGTAAAGATAGCATCGCCGCTCAAGGTAAGCGTCGTTACGATCGCAAACAGTCTGGTTATGGTGGTCAGACTAAGCCCGTCTTTCACAAGAAGGTAACTACCCACTTCACCCCCTCATTACTTTTATACATTTCATCATTTGATTTTGTAAATTCCATTTTTTTAGTTGATTGTAAGAAATAAGTAGTTGTATGTAAATTTGATTTTTTTTTAGCTTAATATAATTATGGTTTTTGTTAGCTTTATGCAAATGATTAGGGAAGATTTAGAGATTGATGGCTGGATTCAAATATGGTTAATAGGAAGAACATTATGGCGTAATTTGATTCATGTAGCCAAACCCACTTAGTGATATAAGGCTTGGTTGTTGTTGTTGTTGAATGCTAATGTGATTTTGAGCTGAATGTGAAATTGGTTTTTTTCAATAGAAAGTAAATTCGATTTTTTTTAGTTGAATGTGAATTTGAATTTTTTAAGCTGAATGCAAAAAATTCAAATTTGGTTTTTATTTCTTGATTTTGTATGTTTGATTTTTTGTTTAGTTTAATGTAAATTTGATTTTTTTTTTAGTTGAATGGAAATTTGATTTAATTTTTGTTTGTGTTTGGTTTTATTGTATAGGCAAAAACCACTAAGAAAATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTTTCTCAACATGCAATCAAGGTTAGTTTGTTTATTTAGTTGAAAGAAAGAAAGAACAGCTTCAGAAATTTTATTTTGTAGATGGATATGGTTGTTTGTATCTAATGGTAGTTATTTGTGTTGTGTTTCTGTTATGCAGAGGTGCAAGCATTTTGAGATTGGTGGTGATAAGAAGGGCAAGGGAACTTCTCTCTTCTAG
Protein sequence

>MS.gene047093.t1

MVNVPKTKKTYCKSKECKKHTLHKVTQYKKGKDSIAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCKHVSQHAIKRCKHFEIGGDKKGKGTSLF