AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene32347

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32347.t1 MTR_1g028480 83.696 92 15 0 81 172 19 110 1.37e-53 166
MS.gene32347.t1 MTR_1g029070 53.165 158 73 1 1 157 1 158 2.72e-48 154
MS.gene32347.t1 MTR_1g039040 63.333 90 33 0 50 139 5 94 1.50e-39 133
MS.gene32347.t1 MTR_4g133952 48.333 120 58 2 21 139 30 146 2.68e-35 123
MS.gene32347.t1 MTR_7g061270 41.667 132 64 2 44 173 17 137 1.03e-34 120
MS.gene32347.t1 MTR_7g100650 41.667 132 64 2 44 173 17 137 1.61e-34 119
MS.gene32347.t1 MTR_8g091720 53.846 91 42 0 49 139 26 116 5.62e-34 119
MS.gene32347.t1 MTR_3g058980 44.286 140 69 4 29 164 2 136 1.22e-33 118
MS.gene32347.t1 MTR_2g026710 44.444 117 58 1 32 148 5 114 1.75e-33 117
MS.gene32347.t1 MTR_1g072790 52.747 91 43 0 49 139 27 117 4.66e-33 116
MS.gene32347.t1 MTR_5g095740 46.789 109 54 1 50 158 22 126 1.03e-32 115
MS.gene32347.t1 MTR_4g133938 42.308 130 70 1 32 161 5 129 5.13e-32 112
MS.gene32347.t1 MTR_8g093920 45.000 100 55 0 50 149 39 138 1.01e-29 108
MS.gene32347.t1 MTR_4g119500 48.889 90 46 0 50 139 21 110 3.07e-29 104
MS.gene32347.t1 MTR_0392s0020 48.889 90 46 0 50 139 17 106 3.15e-29 105
MS.gene32347.t1 MTR_1g088860 46.316 95 51 0 50 144 35 129 2.05e-27 102
MS.gene32347.t1 MTR_1g029100 48.750 80 41 0 52 131 3 82 3.46e-24 90.9
MS.gene32347.t1 MTR_1g083070 40.230 87 52 0 53 139 6 92 4.10e-21 84.0
MS.gene32347.t1 MTR_5g095900 41.176 85 50 0 56 140 21 105 3.46e-19 80.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32347.t1 AT5G47670 54.945 91 41 0 49 139 27 117 4.59e-35 122
MS.gene32347.t1 AT1G21970 53.846 91 42 0 49 139 57 147 6.89e-35 122
MS.gene32347.t1 AT5G47670 54.945 91 41 0 49 139 56 146 7.90e-35 122
MS.gene32347.t1 AT5G47670 54.945 91 41 0 49 139 56 146 7.90e-35 122
MS.gene32347.t1 AT4G14540 53.846 91 42 0 49 139 19 109 1.25e-34 119
MS.gene32347.t1 AT2G38880 44.628 121 56 1 49 169 19 128 1.38e-33 116
MS.gene32347.t1 AT2G38880 44.628 121 56 1 49 169 19 128 1.79e-33 116
MS.gene32347.t1 AT2G38880 44.628 121 56 1 49 169 19 128 1.79e-33 116
MS.gene32347.t1 AT2G38880 44.628 121 56 1 49 169 19 128 1.79e-33 116
MS.gene32347.t1 AT2G38880 51.648 91 44 0 49 139 19 109 2.66e-33 115
MS.gene32347.t1 AT2G38880 51.648 91 44 0 49 139 19 109 1.38e-32 112
MS.gene32347.t1 AT5G47640 51.648 91 44 0 50 140 26 116 2.01e-32 115
MS.gene32347.t1 AT2G38880 51.648 91 44 0 49 139 19 109 2.57e-32 114
MS.gene32347.t1 AT2G38880 51.648 91 44 0 49 139 19 109 2.57e-32 114
MS.gene32347.t1 AT2G37060 44.444 117 61 2 26 139 3 118 4.45e-32 113
MS.gene32347.t1 AT2G37060 44.444 117 61 2 26 139 3 118 4.45e-32 113
MS.gene32347.t1 AT2G37060 44.444 117 61 2 26 139 3 118 4.45e-32 113
MS.gene32347.t1 AT3G53340 50.549 91 45 0 49 139 27 117 5.33e-32 113
MS.gene32347.t1 AT3G53340 50.549 91 45 0 49 139 27 117 5.33e-32 113
MS.gene32347.t1 AT3G53340 50.549 91 45 0 49 139 27 117 1.15e-31 110
MS.gene32347.t1 AT2G38880 49.474 95 48 0 49 143 19 113 1.39e-31 111
MS.gene32347.t1 AT2G38880 49.474 95 48 0 49 143 19 113 1.39e-31 111
MS.gene32347.t1 AT2G38880 49.474 95 48 0 49 143 19 113 1.39e-31 111
MS.gene32347.t1 AT3G53340 50.549 91 45 0 49 139 27 117 1.62e-30 108
MS.gene32347.t1 AT3G53340 50.549 91 45 0 49 139 27 117 1.62e-30 108
MS.gene32347.t1 AT2G13570 49.451 91 46 0 50 140 35 125 6.87e-30 108
MS.gene32347.t1 AT2G47810 47.253 91 48 0 49 139 49 139 2.67e-27 100
MS.gene32347.t1 AT1G09030 41.573 89 52 0 51 139 3 91 2.55e-23 90.1

Find 33 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTACAGCGAACGATTTAATA+TGG 0.243997 1.4:+83225028 MS.gene32347:CDS
TTGTCGAATCCAATTGTAAT+TGG 0.273848 1.4:-83225144 None:intergenic
AGGTAAATGCTGCTTAGTTC+CGG 0.363825 1.4:-83224818 None:intergenic
AATGACATGCCAATTACAAT+TGG 0.392076 1.4:+83225135 MS.gene32347:CDS
GTGTTGAACGACTAAGGTTA+AGG 0.408775 1.4:-83224097 None:intergenic
CCACATAGTTACGATACCTT+TGG 0.434158 1.4:-83225104 None:intergenic
TTGATTGTGTTGAACGACTA+AGG 0.437171 1.4:-83224103 None:intergenic
ATATGGGCAATGGATAGGTT+AGG 0.445811 1.4:+83225045 MS.gene32347:CDS
TGTTGAACGACTAAGGTTAA+GGG 0.465410 1.4:-83224096 None:intergenic
CATAGTTACGATACCTTTGG+AGG 0.481766 1.4:-83225101 None:intergenic
CTTAAAAGTAGTATGGAGAA+TGG 0.482031 1.4:+83224065 None:intergenic
TACAGCGAACGATTTAATAT+GGG 0.483846 1.4:+83225029 MS.gene32347:CDS
ATTCTTGTCAATTGCACGAT+GGG 0.485603 1.4:-83224868 None:intergenic
ATTTAATATGGGCAATGGAT+AGG 0.498662 1.4:+83225040 MS.gene32347:CDS
CGTTCAACACAATCAAGCTC+TGG 0.512773 1.4:+83224110 MS.gene32347:CDS
TGGATTCGACAAGGATGGAT+CGG 0.517609 1.4:+83225155 MS.gene32347:CDS
AACGACTAAGGTTAAGGGAC+GGG 0.520234 1.4:-83224091 None:intergenic
ACAATTGGATTCGACAAGGA+TGG 0.533736 1.4:+83225150 MS.gene32347:CDS
GGATTCGACAAGGATGGATC+GGG 0.534384 1.4:+83225156 MS.gene32347:CDS
GGTGCTAGTGGCTCGAACAA+TGG 0.541308 1.4:+83225177 MS.gene32347:CDS
GAACGATTTAATATGGGCAA+TGG 0.552208 1.4:+83225035 MS.gene32347:CDS
TTTACCTAAAACAAAGAATG+AGG 0.564286 1.4:+83224834 MS.gene32347:CDS
AAGGATGGATCGGGTGCTAG+TGG 0.571277 1.4:+83225165 MS.gene32347:CDS
AACAACAATAACTTTCACAC+CGG 0.626294 1.4:+83224799 MS.gene32347:CDS
TTTGGAGGTAAAAGACTAGA+GGG 0.630419 1.4:-83225086 None:intergenic
CATGAGCATCATCACGAGTG+AGG 0.643678 1.4:+83224969 MS.gene32347:CDS
CCAAAGGTATCGTAACTATG+TGG 0.644573 1.4:+83225104 MS.gene32347:CDS
GAACGACTAAGGTTAAGGGA+CGG 0.644933 1.4:-83224092 None:intergenic
GATTCTTGTCAATTGCACGA+TGG 0.645811 1.4:-83224869 None:intergenic
CTTTGGAGGTAAAAGACTAG+AGG 0.649236 1.4:-83225087 None:intergenic
AATTACAATTGGATTCGACA+AGG 0.668467 1.4:+83225146 MS.gene32347:CDS
TCACGAGTGAGGCAAGCGAG+CGG 0.677839 1.4:+83224980 MS.gene32347:CDS
TGCAATTGACAAGAATCATG+CGG 0.689401 1.4:+83224875 MS.gene32347:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CAAGAATTATTATTTTTAAA+AGG + chr1.4:83224215-83224234 MS.gene32347:intron 10.0%
!! AAACAAAGATCTAAAAAATA+AGG + chr1.4:83224588-83224607 MS.gene32347:intron 15.0%
!!! TGCTTATATTTTTTTTTTGA+GGG + chr1.4:83224425-83224444 MS.gene32347:intron 15.0%
!!! TTGCTTATATTTTTTTTTTG+AGG + chr1.4:83224424-83224443 MS.gene32347:intron 15.0%
!!! GATTATTTTTGAGAAATAAG+AGG - chr1.4:83224196-83224215 None:intergenic 20.0%
! AATCGTATCTTCGTTATTAT+GGG + chr1.4:83224163-83224182 MS.gene32347:intron 25.0%
! ATGAATTACCTACTTCAAAA+TGG - chr1.4:83224744-83224763 None:intergenic 25.0%
! TTTACCTAAAACAAAGAATG+AGG + chr1.4:83224834-83224853 MS.gene32347:CDS 25.0%
!! TCAAACAAAATTGAGGTATT+TGG + chr1.4:83224357-83224376 MS.gene32347:intron 25.0%
!!! TGTACAATTTTGGTTGTTTA+GGG - chr1.4:83224142-83224161 None:intergenic 25.0%
!!! TTTTACTTTGAAGAAGATTG+AGG + chr1.4:83224274-83224293 MS.gene32347:intron 25.0%
AACAACAATAACTTTCACAC+CGG + chr1.4:83224799-83224818 MS.gene32347:CDS 30.0%
AAGTGAGTCAAACAAAATTG+AGG + chr1.4:83224350-83224369 MS.gene32347:intron 30.0%
AATGACATGCCAATTACAAT+TGG + chr1.4:83225135-83225154 MS.gene32347:CDS 30.0%
AATTACAATTGGATTCGACA+AGG + chr1.4:83225146-83225165 MS.gene32347:CDS 30.0%
AGCAAAAAGTAAGTCAAAGA+AGG - chr1.4:83224409-83224428 None:intergenic 30.0%
ATTTAATATGGGCAATGGAT+AGG + chr1.4:83225040-83225059 MS.gene32347:CDS 30.0%
CAATCGTATCTTCGTTATTA+TGG + chr1.4:83224162-83224181 MS.gene32347:intron 30.0%
CTTGTTAAACATCTTGTACA+GGG + chr1.4:83224626-83224645 MS.gene32347:intron 30.0%
TAATGCCTTAAGAATCCAAT+GGG - chr1.4:83224548-83224567 None:intergenic 30.0%
TACAGCGAACGATTTAATAT+GGG + chr1.4:83225029-83225048 MS.gene32347:CDS 30.0%
TTACAGCGAACGATTTAATA+TGG + chr1.4:83225028-83225047 MS.gene32347:CDS 30.0%
TTGTCGAATCCAATTGTAAT+TGG - chr1.4:83225147-83225166 None:intergenic 30.0%
! ACAGACAGAGTATTCAATTA+TGG - chr1.4:83224314-83224333 None:intergenic 30.0%
! ACTTGTTAAACATCTTGTAC+AGG + chr1.4:83224625-83224644 MS.gene32347:intron 30.0%
! GATACGATTGTGTACAATTT+TGG - chr1.4:83224152-83224171 None:intergenic 30.0%
!! TCAAAGAAGGTTGATGTATT+TGG - chr1.4:83224396-83224415 None:intergenic 30.0%
!!! GTGTACAATTTTGGTTGTTT+AGG - chr1.4:83224143-83224162 None:intergenic 30.0%
!!! TTAGGTTTTGAAGACTATGT+TGG + chr1.4:83225063-83225082 MS.gene32347:CDS 30.0%
ATTCTTGTCAATTGCACGAT+GGG - chr1.4:83224871-83224890 None:intergenic 35.0%
GAACGATTTAATATGGGCAA+TGG + chr1.4:83225035-83225054 MS.gene32347:CDS 35.0%
GTAATGCCTTAAGAATCCAA+TGG - chr1.4:83224549-83224568 None:intergenic 35.0%
TACTTCCCATTGGATTCTTA+AGG + chr1.4:83224540-83224559 MS.gene32347:intron 35.0%
TCGCATGTAAAAATCTCTGA+TGG + chr1.4:83224910-83224929 MS.gene32347:CDS 35.0%
TGCAATTGACAAGAATCATG+CGG + chr1.4:83224875-83224894 MS.gene32347:CDS 35.0%
TGTTGAACGACTAAGGTTAA+GGG - chr1.4:83224099-83224118 None:intergenic 35.0%
TTGATTGTGTTGAACGACTA+AGG - chr1.4:83224106-83224125 None:intergenic 35.0%
TTTGGAGGTAAAAGACTAGA+GGG - chr1.4:83225089-83225108 None:intergenic 35.0%
TTTGTTTCACATGTCCAAAG+AGG - chr1.4:83224575-83224594 None:intergenic 35.0%
! ATCAGAGATTTTTACATGCG+AGG - chr1.4:83224911-83224930 None:intergenic 35.0%
! TAAGGCATTACTTTCCTCTT+TGG + chr1.4:83224558-83224577 MS.gene32347:intron 35.0%
! TCAGAGATTTTTACATGCGA+GGG - chr1.4:83224910-83224929 None:intergenic 35.0%
!! AATCCAATGGGAAGTATTCA+AGG - chr1.4:83224536-83224555 None:intergenic 35.0%
!! ATCCAATGGGAAGTATTCAA+GGG - chr1.4:83224535-83224554 None:intergenic 35.0%
!! TTACTTAGCTCTGATCTGTT+TGG + chr1.4:83224712-83224731 MS.gene32347:intron 35.0%
!!! GGATTAGTCCATTTTGAAGT+AGG + chr1.4:83224733-83224752 MS.gene32347:intron 35.0%
!!! TGCTCCTCATTCTTTGTTTT+AGG - chr1.4:83224841-83224860 None:intergenic 35.0%
ACAATTGGATTCGACAAGGA+TGG + chr1.4:83225150-83225169 MS.gene32347:CDS 40.0%
ATATGGGCAATGGATAGGTT+AGG + chr1.4:83225045-83225064 MS.gene32347:CDS 40.0%
CATAGTTACGATACCTTTGG+AGG - chr1.4:83225104-83225123 None:intergenic 40.0%
CCACATAGTTACGATACCTT+TGG - chr1.4:83225107-83225126 None:intergenic 40.0%
GATTCTTGTCAATTGCACGA+TGG - chr1.4:83224872-83224891 None:intergenic 40.0%
GTGTTGAACGACTAAGGTTA+AGG - chr1.4:83224100-83224119 None:intergenic 40.0%
TTCCCTTGAATACTTCCCAT+TGG + chr1.4:83224530-83224549 MS.gene32347:intron 40.0%
! AGGTAAATGCTGCTTAGTTC+CGG - chr1.4:83224821-83224840 None:intergenic 40.0%
! CTTTGGAGGTAAAAGACTAG+AGG - chr1.4:83225090-83225109 None:intergenic 40.0%
!! CCAAAGGTATCGTAACTATG+TGG + chr1.4:83225104-83225123 MS.gene32347:CDS 40.0%
!! CTCTAGTCTTTTACCTCCAA+AGG + chr1.4:83225088-83225107 MS.gene32347:CDS 40.0%
AACGACTAAGGTTAAGGGAC+GGG - chr1.4:83224094-83224113 None:intergenic 45.0%
CGTTCAACACAATCAAGCTC+TGG + chr1.4:83224110-83224129 MS.gene32347:CDS 45.0%
GAACGACTAAGGTTAAGGGA+CGG - chr1.4:83224095-83224114 None:intergenic 45.0%
TGGATTCGACAAGGATGGAT+CGG + chr1.4:83225155-83225174 MS.gene32347:CDS 45.0%
CATGAGCATCATCACGAGTG+AGG + chr1.4:83224969-83224988 MS.gene32347:CDS 50.0%
GGATTCGACAAGGATGGATC+GGG + chr1.4:83225156-83225175 MS.gene32347:CDS 50.0%
AAGGATGGATCGGGTGCTAG+TGG + chr1.4:83225165-83225184 MS.gene32347:CDS 55.0%
GGTGCTAGTGGCTCGAACAA+TGG + chr1.4:83225177-83225196 MS.gene32347:CDS 55.0%
TCACGAGTGAGGCAAGCGAG+CGG + chr1.4:83224980-83224999 MS.gene32347:CDS 60.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 83224077 83225221 83224077 ID=MS.gene32347
chr1.4 mRNA 83224077 83225221 83224077 ID=MS.gene32347.t1;Parent=MS.gene32347
chr1.4 exon 83224077 83224131 83224077 ID=MS.gene32347.t1.exon1;Parent=MS.gene32347.t1
chr1.4 CDS 83224077 83224131 83224077 ID=cds.MS.gene32347.t1;Parent=MS.gene32347.t1
chr1.4 exon 83224755 83225221 83224755 ID=MS.gene32347.t1.exon2;Parent=MS.gene32347.t1
chr1.4 CDS 83224755 83225221 83224755 ID=cds.MS.gene32347.t1;Parent=MS.gene32347.t1
Gene Sequence

>MS.gene32347

ATGGAGAATGGAATCCCGTCCCTTAACCTTAGTCGTTCAACACAATCAAGCTCTGGTAAGCACCCTAAACAACCAAAATTGTACACAATCGTATCTTCGTTATTATGGGTTTAGATCCTCTTATTTCTCAAAAATAATCAAGAATTATTATTTTTAAAAGGAGTGATGATACATATTTTAAATATTCTTTTTTTTTTTTTTACTTTGAAGAAGATTGAGGAATAAAGATGATCTCCATAATTGAATACTCTGTCTGTTACAAAAAATAAACAAAAGTGAGTCAAACAAAATTGAGGTATTTGGTTTAAAATTTAGTCCAAATACATCAACCTTCTTTGACTTACTTTTTGCTTATATTTTTTTTTTGAGGGATGCTTATATTTTGTTATAGAGTGAATAATATACAATATTATTTCAATTTTTTTACTAGTATTTTTCTTTGTTTATTTGTTATTCCCTTGAATACTTCCCATTGGATTCTTAAGGCATTACTTTCCTCTTTGGACATGTGAAACAAAGATCTAAAAAATAAGGTTTGATTTTGCATCACTTGTTAAACATCTTGTACAGGGATAAATATTTGATTTTTGAATGAAATTTTCAATCATAAATTACAAAACTATTTTTTGTCTAAATTACTTAGCTCTGATCTGTTTGGATTAGTCCATTTTGAAGTAGGTAATTCATCAACAAACATTGAATCTCAAAGCAACGTCGACAACAACAACAATAACTTTCACACCGGAACTAAGCAGCATTTACCTAAAACAAAGAATGAGGAGCAGCACATTCCCATCGTGCAATTGACAAGAATCATGCGGCGTGCTCTTCCCTCGCATGTAAAAATCTCTGATGGTGCTAAAGAGTCAATTCAATTGTGTTTATCTGAATTCATGAGCATCATCACGAGTGAGGCAAGCGAGCGGTGCAAGATAGAGCATCGAAAGATCGTTACAGCGAACGATTTAATATGGGCAATGGATAGGTTAGGTTTTGAAGACTATGTTGGCCCTCTAGTCTTTTACCTCCAAAGGTATCGTAACTATGTGGCTCAGCTAAATGACATGCCAATTACAATTGGATTCGACAAGGATGGATCGGGTGCTAGTGGCTCGAACAATGGCAGTGACAATGTTCACCATTGA
Protein sequence

>MS.gene32347.t1

MENGIPSLNLSRSTQSSSGNSSTNIESQSNVDNNNNNFHTGTKQHLPKTKNEEQHIPIVQLTRIMRRALPSHVKISDGAKESIQLCLSEFMSIITSEASERCKIEHRKIVTANDLIWAMDRLGFEDYVGPLVFYLQRYRNYVAQLNDMPITIGFDKDGSGASGSNNGSDNVHH