AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene01907

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01907.t1 MTR_2g023340 68.387 155 20 2 1 131 95 244 1.98e-65 199
MS.gene01907.t1 MTR_7g113680 44.928 138 52 3 1 114 162 299 4.24e-31 112
MS.gene01907.t1 MTR_3g099180 50.459 109 41 2 1 96 65 173 5.84e-31 110
MS.gene01907.t1 MTR_1g082660 68.571 70 22 0 1 70 111 180 6.21e-31 111
MS.gene01907.t1 MTR_3g099180 50.459 109 41 2 1 96 65 173 6.59e-31 110
MS.gene01907.t1 MTR_2g081600 53.846 65 30 0 3 67 35 99 1.96e-18 75.5
MS.gene01907.t1 MTR_2g081630 53.846 65 30 0 3 67 35 99 2.27e-18 75.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01907.t1 AT3G48590 48.276 116 40 2 1 96 75 190 9.36e-32 112
MS.gene01907.t1 AT1G56170 55.914 93 39 1 1 93 86 176 1.46e-31 111
MS.gene01907.t1 AT1G56170 55.914 93 39 1 1 93 86 176 1.46e-31 111
MS.gene01907.t1 AT1G54830 47.101 138 48 4 1 117 80 213 2.27e-31 111
MS.gene01907.t1 AT1G54830 47.101 138 48 4 1 117 80 213 2.27e-31 111
MS.gene01907.t1 AT1G54830 47.101 138 48 4 1 117 80 213 2.27e-31 111
MS.gene01907.t1 AT5G63470 65.789 76 26 0 1 76 88 163 7.78e-31 110
MS.gene01907.t1 AT5G63470 65.789 76 26 0 1 76 88 163 7.78e-31 110
MS.gene01907.t1 AT1G08970 65.000 80 26 1 1 80 90 167 8.17e-31 110
MS.gene01907.t1 AT1G08970 65.000 80 26 1 1 80 90 167 8.17e-31 110
MS.gene01907.t1 AT1G08970 65.000 80 26 1 1 80 90 167 8.17e-31 110
MS.gene01907.t1 AT1G08970 65.000 80 26 1 1 80 90 167 8.17e-31 110
MS.gene01907.t1 AT5G50480 48.148 108 44 2 1 96 64 171 1.49e-27 101
MS.gene01907.t1 AT5G27910 46.535 101 46 3 1 93 46 146 9.08e-21 83.2
MS.gene01907.t1 AT5G50490 50.704 71 35 0 1 71 46 116 5.73e-19 78.6
MS.gene01907.t1 AT5G50470 42.683 82 41 1 1 76 73 154 1.08e-16 73.2
MS.gene01907.t1 AT5G38140 42.647 68 39 0 1 68 77 144 1.88e-15 69.7

Find 29 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTGCTTAATCTTCTGAATT+TGG 0.096494 2.1:-65203306 None:intergenic
AATGGAGCGTGACATATTTA+TGG 0.230451 2.1:+65203052 MS.gene01907:CDS
GGCATGTGAAATGTTTATTA+TGG 0.268895 2.1:+65202896 MS.gene01907:CDS
TAGTCCTCCAAGAATGCTTA+TGG 0.282983 2.1:+65203176 MS.gene01907:CDS
GGTGTTCCCATAAGCATTCT+TGG 0.338684 2.1:-65203183 None:intergenic
ATGGAGCGTGACATATTTAT+GGG 0.438860 2.1:+65203053 MS.gene01907:CDS
TCAATCAGCCTCATAACAAC+AGG 0.483454 2.1:+65203211 MS.gene01907:CDS
AATTTGGAAAATCAACATAA+TGG 0.484356 2.1:-65203290 None:intergenic
CATGCCTTAGCAAACAGAAT+AGG 0.486382 2.1:-65202879 None:intergenic
CCTAGTTGATATTGTCCCTA+GGG 0.487741 2.1:+65203022 MS.gene01907:CDS
GGAAACATTTGATTTGCAAG+AGG 0.498129 2.1:-65203246 None:intergenic
TGGAGCTAGCAACAAGGTCA+TGG 0.501489 2.1:+65202916 MS.gene01907:CDS
AAGATCATGAAAACAGAAGA+AGG 0.505724 2.1:+65202831 None:intergenic
AGTCCTCCAAGAATGCTTAT+GGG 0.511667 2.1:+65203177 MS.gene01907:CDS
CCCTAGGGACAATATCAACT+AGG 0.511793 2.1:-65203022 None:intergenic
GAAACATTTGATTTGCAAGA+GGG 0.521354 2.1:-65203245 None:intergenic
GGCACCTATTCTGTTTGCTA+AGG 0.530640 2.1:+65202875 MS.gene01907:CDS
GAGGGCTGCCTGTTGTTATG+AGG 0.531966 2.1:-65203219 None:intergenic
AATGTTTCCAATCCAAAAGC+AGG 0.532891 2.1:+65203260 MS.gene01907:CDS
TTGATTTGCAAGAGGGTGTG+AGG 0.552359 2.1:-65203238 None:intergenic
TCCTAGTTGATATTGTCCCT+AGG 0.558927 2.1:+65203021 MS.gene01907:CDS
GGAGCTAGCAACAAGGTCAT+GGG 0.582315 2.1:+65202917 MS.gene01907:CDS
ATTCTTGGAGGACTATATGA+TGG 0.593998 2.1:-65203168 None:intergenic
GTTCCCATAAGCATTCTTGG+AGG 0.601037 2.1:-65203180 None:intergenic
TGATTTGCAAGAGGGTGTGA+GGG 0.602521 2.1:-65203237 None:intergenic
AAGGTCATGGGCTAATACAG+AGG 0.637560 2.1:+65202929 MS.gene01907:CDS
TTATGAGGCTGATTGAGAGA+AGG 0.649482 2.1:-65203204 None:intergenic
AGTGAGTATGATATCAGCTG+AGG 0.690629 2.1:+65202854 MS.gene01907:CDS
TTATTATGGAGCTAGCAACA+AGG 0.697305 2.1:+65202910 MS.gene01907:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTTGGAAAATCAACATAA+TGG - chr2.1:65203293-65203312 None:intergenic 20.0%
AAGGAACATATATTCCCTAT+TGG - chr2.1:65203101-65203120 None:intergenic 30.0%
AGGAACATATATTCCCTATT+GGG - chr2.1:65203100-65203119 None:intergenic 30.0%
GGCATGTGAAATGTTTATTA+TGG + chr2.1:65202896-65202915 MS.gene01907:CDS 30.0%
!! GAAACATTTGATTTGCAAGA+GGG - chr2.1:65203248-65203267 None:intergenic 30.0%
AATGGAGCGTGACATATTTA+TGG + chr2.1:65203052-65203071 MS.gene01907:CDS 35.0%
AATGTTTCCAATCCAAAAGC+AGG + chr2.1:65203260-65203279 MS.gene01907:CDS 35.0%
ATGGAGCGTGACATATTTAT+GGG + chr2.1:65203053-65203072 MS.gene01907:CDS 35.0%
ATTCTTGGAGGACTATATGA+TGG - chr2.1:65203171-65203190 None:intergenic 35.0%
TTATTATGGAGCTAGCAACA+AGG + chr2.1:65202910-65202929 MS.gene01907:CDS 35.0%
!! AATGGTCATTTTCCTGCTTT+TGG - chr2.1:65203275-65203294 None:intergenic 35.0%
!! GGAAACATTTGATTTGCAAG+AGG - chr2.1:65203249-65203268 None:intergenic 35.0%
!! TCATTTTCCTGCTTTTGGAT+TGG - chr2.1:65203270-65203289 None:intergenic 35.0%
AGTCCTCCAAGAATGCTTAT+GGG + chr2.1:65203177-65203196 MS.gene01907:CDS 40.0%
AGTGAGTATGATATCAGCTG+AGG + chr2.1:65202854-65202873 MS.gene01907:CDS 40.0%
ATGGGTATACCAAGAAGAGA+AGG + chr2.1:65203071-65203090 MS.gene01907:intron 40.0%
CATGCCTTAGCAAACAGAAT+AGG - chr2.1:65202882-65202901 None:intergenic 40.0%
TAGTCCTCCAAGAATGCTTA+TGG + chr2.1:65203176-65203195 MS.gene01907:CDS 40.0%
TCAATCAGCCTCATAACAAC+AGG + chr2.1:65203211-65203230 MS.gene01907:CDS 40.0%
TCCTTATTATGTGCCTATGC+CGG + chr2.1:65203116-65203135 MS.gene01907:intron 40.0%
TGTCCCTAGGGAAAAAACAA+TGG + chr2.1:65203034-65203053 MS.gene01907:CDS 40.0%
TTATGAGGCTGATTGAGAGA+AGG - chr2.1:65203207-65203226 None:intergenic 40.0%
! CCTAGTTGATATTGTCCCTA+GGG + chr2.1:65203022-65203041 MS.gene01907:CDS 40.0%
! TCCTAGTTGATATTGTCCCT+AGG + chr2.1:65203021-65203040 MS.gene01907:CDS 40.0%
!!! GCTCCATTGTTTTTTCCCTA+GGG - chr2.1:65203040-65203059 None:intergenic 40.0%
ATTGGGACACCTTCTCTTCT+TGG - chr2.1:65203083-65203102 None:intergenic 45.0%
CCCTAGGGACAATATCAACT+AGG - chr2.1:65203025-65203044 None:intergenic 45.0%
GGTGTTCCCATAAGCATTCT+TGG - chr2.1:65203186-65203205 None:intergenic 45.0%
GTTCCCATAAGCATTCTTGG+AGG - chr2.1:65203183-65203202 None:intergenic 45.0%
! AAGGTCATGGGCTAATACAG+AGG + chr2.1:65202929-65202948 MS.gene01907:CDS 45.0%
! GGCACCTATTCTGTTTGCTA+AGG + chr2.1:65202875-65202894 MS.gene01907:CDS 45.0%
! TGATTTGCAAGAGGGTGTGA+GGG - chr2.1:65203240-65203259 None:intergenic 45.0%
!! AGAAGAGAAGGTGTCCCAAT+AGG + chr2.1:65203083-65203102 MS.gene01907:intron 45.0%
!! GAAGAGAAGGTGTCCCAATA+GGG + chr2.1:65203084-65203103 MS.gene01907:intron 45.0%
!! TTGATTTGCAAGAGGGTGTG+AGG - chr2.1:65203241-65203260 None:intergenic 45.0%
!!! CGCTCCATTGTTTTTTCCCT+AGG - chr2.1:65203041-65203060 None:intergenic 45.0%
ATGCCACCTCAGTATGATGC+AGG + chr2.1:65203144-65203163 MS.gene01907:intron 50.0%
GATGGACCTGCATCATACTG+AGG - chr2.1:65203153-65203172 None:intergenic 50.0%
GCCGGCATAGGCACATAATA+AGG - chr2.1:65203120-65203139 None:intergenic 50.0%
GGAGCTAGCAACAAGGTCAT+GGG + chr2.1:65202917-65202936 MS.gene01907:CDS 50.0%
TACTGAGGTGGCATATGAGC+CGG - chr2.1:65203138-65203157 None:intergenic 50.0%
TGGAGCTAGCAACAAGGTCA+TGG + chr2.1:65202916-65202935 MS.gene01907:CDS 50.0%
GAGGGCTGCCTGTTGTTATG+AGG - chr2.1:65203222-65203241 None:intergenic 55.0%
GGACCTGCATCATACTGAGG+TGG - chr2.1:65203150-65203169 None:intergenic 55.0%
GGTGGCATATGAGCCGGCAT+AGG - chr2.1:65203132-65203151 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 65202837 65203323 65202837 ID=MS.gene01907
chr2.1 mRNA 65202837 65203323 65202837 ID=MS.gene01907.t1;Parent=MS.gene01907
chr2.1 exon 65202837 65203074 65202837 ID=MS.gene01907.t1.exon1;Parent=MS.gene01907.t1
chr2.1 CDS 65202837 65203074 65202837 ID=cds.MS.gene01907.t1;Parent=MS.gene01907.t1
chr2.1 exon 65203166 65203323 65203166 ID=MS.gene01907.t1.exon2;Parent=MS.gene01907.t1
chr2.1 CDS 65203166 65203323 65203166 ID=cds.MS.gene01907.t1;Parent=MS.gene01907.t1
Gene Sequence

>MS.gene01907

ATGAAAACAGAAGAAGGAGTGAGTATGATATCAGCTGAGGCACCTATTCTGTTTGCTAAGGCATGTGAAATGTTTATTATGGAGCTAGCAACAAGGTCATGGGCTAATACAGAGGTGAACAAAAGAAAGACACTTCAAAAGAGTGACATTGCATCTGCTGTCTCAAGTAATGAAGTGTTTGATTTCCTAGTTGATATTGTCCCTAGGGAAAAAACAATGGAGCGTGACATATTTATGGGTATACCAAGAAGAGAAGGTGTCCCAATAGGGAATATATGTTCCTTATTATGTGCCTATGCCGGCTCATATGCCACCTCAGTATGATGCAGGTCCATCATATAGTCCTCCAAGAATGCTTATGGGAACACCTTCTCTCAATCAGCCTCATAACAACAGGCAGCCCTCACACCCTCTTGCAAATCAAATGTTTCCAATCCAAAAGCAGGAAAATGACCATTATGTTGATTTTCCAAATTCAGAAGATTAA
Protein sequence

>MS.gene01907.t1

MKTEEGVSMISAEAPILFAKACEMFIMELATRSWANTEVNKRKTLQKSDIASAVSSNEVFDFLVDIVPREKTMERDIFMGPSYSPPRMLMGTPSLNQPHNNRQPSHPLANQMFPIQKQENDHYVDFPNSED