AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene97230

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene97230.t1 MTR_7g013410 93.636 110 7 0 3 112 32 141 2.10e-73 214
MS.gene97230.t1 MTR_6g008970 47.863 117 52 2 3 112 97 211 7.43e-32 117
MS.gene97230.t1 MTR_8g062700 48.696 115 54 1 3 112 76 190 7.80e-32 117
MS.gene97230.t1 MTR_8g062700 48.696 115 54 1 3 112 76 190 7.95e-32 117
MS.gene97230.t1 MTR_6g008995 46.018 113 56 2 4 112 15 126 4.11e-28 105
MS.gene97230.t1 MTR_5g036670 43.478 115 60 1 3 112 77 191 6.57e-28 106
MS.gene97230.t1 MTR_6g008995 45.614 114 57 2 3 112 71 183 8.20e-28 105
MS.gene97230.t1 MTR_5g036790 51.471 68 33 0 45 112 15 82 2.18e-18 73.6
MS.gene97230.t1 MTR_4g133300 35.455 110 70 1 3 112 43 151 1.33e-15 70.1
MS.gene97230.t1 MTR_4g133470 34.545 110 71 1 3 112 43 151 6.94e-15 68.2
MS.gene97230.t1 MTR_3g006065 34.783 115 70 2 3 112 39 153 1.21e-14 66.6
MS.gene97230.t1 MTR_3g006150 34.783 115 70 2 3 112 39 153 1.55e-14 65.9
MS.gene97230.t1 MTR_1g105955 35.714 112 70 1 1 112 48 157 1.58e-14 66.2
MS.gene97230.t1 MTR_7g013380 29.565 115 76 3 3 112 135 249 6.38e-12 60.5
MS.gene97230.t1 MTR_1g104960 28.696 115 77 1 3 112 47 161 1.18e-11 58.5
MS.gene97230.t1 MTR_3g006125 31.667 120 72 2 3 112 124 243 1.93e-11 58.9
MS.gene97230.t1 MTR_3g006185 31.933 119 72 2 3 112 43 161 9.03e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene97230.t1 AT1G24190 53.448 116 47 2 3 112 48 162 4.36e-34 124
MS.gene97230.t1 AT1G24190 53.448 116 47 2 3 112 48 162 4.40e-34 124
MS.gene97230.t1 AT1G24190 53.448 116 47 2 3 112 48 162 4.85e-34 124
MS.gene97230.t1 AT1G70060 50.000 118 49 2 3 112 48 163 3.57e-32 119
MS.gene97230.t1 AT1G70060 50.000 118 49 2 3 112 48 163 3.57e-32 119
MS.gene97230.t1 AT5G15020 48.246 114 54 2 3 112 86 198 4.78e-31 115
MS.gene97230.t1 AT5G15020 48.246 114 54 2 3 112 86 198 4.96e-31 115
MS.gene97230.t1 AT1G59890 47.788 113 56 2 3 112 79 191 6.99e-31 115
MS.gene97230.t1 AT1G59890 47.788 113 56 2 3 112 79 191 7.19e-31 115
MS.gene97230.t1 AT1G59890 47.788 113 56 2 3 112 79 191 7.20e-31 115
MS.gene97230.t1 AT1G59890 47.788 113 56 2 3 112 79 191 7.48e-31 115
MS.gene97230.t1 AT3G01320 45.614 114 58 1 3 112 91 204 5.72e-29 109
MS.gene97230.t1 AT3G01320 45.614 114 58 1 3 112 91 204 5.78e-29 109
MS.gene97230.t1 AT1G70030 48.624 109 51 2 8 112 50 157 1.01e-27 99.8
MS.gene97230.t1 AT1G10450 43.860 114 61 2 2 112 117 230 4.99e-27 103
MS.gene97230.t1 AT1G10450 43.860 114 61 2 2 112 66 179 5.54e-27 103
MS.gene97230.t1 AT1G10450 43.860 114 61 2 2 112 66 179 5.54e-27 103
MS.gene97230.t1 AT1G24200 41.071 112 64 1 3 112 48 159 5.94e-25 93.6
MS.gene97230.t1 AT1G24230 38.532 109 65 2 3 109 120 228 5.89e-19 79.0
MS.gene97230.t1 AT5G35610 39.252 107 45 2 3 93 44 146 6.85e-12 58.9
MS.gene97230.t1 AT1G27280 34.694 98 58 2 2 93 114 211 1.26e-11 59.3

Find 19 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAAATCCATCTGGCAAAA+AGG 0.287960 7.3:-84121986 None:intergenic
TATTCTTTAGTGATCACTTT+TGG 0.343155 7.3:-84122030 None:intergenic
GGAGCTCCTTAACACTCTTA+TGG 0.402697 7.3:-84122598 None:intergenic
CTCGATTTCGACGTAATCCT+CGG 0.426124 7.3:+84122531 MS.gene97230:CDS
ATGTATTTGTAGAATTGATC+TGG 0.430976 7.3:+84121897 MS.gene97230:intron
AAACGACCATAAGAGTGTTA+AGG 0.472625 7.3:+84122592 MS.gene97230:CDS
TAGAATTGATCTGGAGGGTG+TGG 0.501765 7.3:+84121906 MS.gene97230:intron
AGTGAGATTTCAAATCCATC+TGG 0.524903 7.3:-84121994 None:intergenic
TAAACTCATCAACAAGATCC+TGG 0.547860 7.3:-84122762 None:intergenic
TCGATTTCGACGTAATCCTC+GGG 0.564354 7.3:+84122532 MS.gene97230:CDS
GGGTGTGGTGGCAAGAGTGA+AGG 0.566355 7.3:+84121921 MS.gene97230:CDS
GCAAAACACATACCGTTTGG+TGG 0.573555 7.3:-84122619 None:intergenic
GAAATATGTAAGCAAGGTGA+AGG 0.573710 7.3:+84122059 MS.gene97230:CDS
TGCTTTGAAATATGTAAGCA+AGG 0.578519 7.3:+84122053 MS.gene97230:CDS
TGTTAAGGAGCTCCACCAAA+CGG 0.586892 7.3:+84122607 MS.gene97230:CDS
AATTGATCTGGAGGGTGTGG+TGG 0.629593 7.3:+84121909 MS.gene97230:CDS
TATTTGTAGAATTGATCTGG+AGG 0.689246 7.3:+84121900 MS.gene97230:intron
ATTTGTAGAATTGATCTGGA+GGG 0.693473 7.3:+84121901 MS.gene97230:intron
ACTCATCAACAAGATCCTGG+TGG 0.741733 7.3:-84122759 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTATTAATTTATTTATAAT+AGG + chr7.3:84121822-84121841 MS.gene97230:intron 0.0%
!!! AAAGAAAAATCATTTTTTTA+GGG - chr7.3:84122165-84122184 None:intergenic 10.0%
!!! CAAAAATTTTCTTTTAATTT+TGG + chr7.3:84122676-84122695 MS.gene97230:intron 10.0%
!!! TAAAGAAAAATCATTTTTTT+AGG - chr7.3:84122166-84122185 None:intergenic 10.0%
!! TAAAGTTAAAAATGAGTATT+TGG + chr7.3:84122350-84122369 MS.gene97230:intron 15.0%
!!! CTAATACTCTAAATATTTTT+TGG + chr7.3:84121626-84121645 MS.gene97230:intron 15.0%
!! AAAATTTCTCTATAAAAGTG+TGG + chr7.3:84122409-84122428 MS.gene97230:intron 20.0%
!! GAAAATTTAAAGAGAGAATA+CGG + chr7.3:84122386-84122405 MS.gene97230:intron 20.0%
!!! AGTATTTGGAACAAAATAAA+AGG + chr7.3:84122364-84122383 MS.gene97230:intron 20.0%
!!! TTTTACATCGAAAATAAATC+TGG - chr7.3:84122123-84122142 None:intergenic 20.0%
!!! TTTTTTTTTTGTGTGTGATA+TGG + chr7.3:84122220-84122239 MS.gene97230:intron 20.0%
! ATGTATTTGTAGAATTGATC+TGG + chr7.3:84121897-84121916 MS.gene97230:intron 25.0%
! GATGTATCTCAATGAAATAA+AGG + chr7.3:84121711-84121730 MS.gene97230:intron 25.0%
! GTTTACTTTAATGTCTCTAA+TGG + chr7.3:84122492-84122511 MS.gene97230:intron 25.0%
! TAAAATGAAAAGCTAATCCA+AGG - chr7.3:84122332-84122351 None:intergenic 25.0%
! TATTTCATTGAGATACATCT+TGG - chr7.3:84121710-84121729 None:intergenic 25.0%
!! AATTATAATTGGACTTTTGC+AGG + chr7.3:84122717-84122736 MS.gene97230:intron 25.0%
!! TATTCTTTAGTGATCACTTT+TGG - chr7.3:84122033-84122052 None:intergenic 25.0%
!!! CAGGTTATTTCAATTTTTCA+AGG + chr7.3:84122736-84122755 MS.gene97230:intron 25.0%
ATGATAAGAATCCATCATAC+AGG - chr7.3:84122100-84122119 None:intergenic 30.0%
ATTTGTAGAATTGATCTGGA+GGG + chr7.3:84121901-84121920 MS.gene97230:intron 30.0%
TATTTGTAGAATTGATCTGG+AGG + chr7.3:84121900-84121919 MS.gene97230:intron 30.0%
!! TGAAAGATTTTGAGAAACGA+AGG + chr7.3:84121782-84121801 MS.gene97230:intron 30.0%
!! TGCTTTGAAATATGTAAGCA+AGG + chr7.3:84122053-84122072 MS.gene97230:CDS 30.0%
!!! AGAGTGAAGGAATTTTTTCA+AGG + chr7.3:84121934-84121953 MS.gene97230:CDS 30.0%
!!! GAGTGAAGGAATTTTTTCAA+GGG + chr7.3:84121935-84121954 MS.gene97230:CDS 30.0%
AAAAACGATTCATAAACCCG+AGG - chr7.3:84122551-84122570 None:intergenic 35.0%
AGTGAGATTTCAAATCCATC+TGG - chr7.3:84121997-84122016 None:intergenic 35.0%
GAAATATGTAAGCAAGGTGA+AGG + chr7.3:84122059-84122078 MS.gene97230:CDS 35.0%
TAAACTCATCAACAAGATCC+TGG - chr7.3:84122765-84122784 None:intergenic 35.0%
TAAGCAAAACACATACCGTT+TGG - chr7.3:84122625-84122644 None:intergenic 35.0%
TGTATTGTAGACCTGTATGA+TGG + chr7.3:84122086-84122105 MS.gene97230:intron 35.0%
TTCAAATCCATCTGGCAAAA+AGG - chr7.3:84121989-84122008 None:intergenic 35.0%
! TTTCAAACCTTTTTGCCAGA+TGG + chr7.3:84121979-84121998 MS.gene97230:CDS 35.0%
!! AAACGACCATAAGAGTGTTA+AGG + chr7.3:84122592-84122611 MS.gene97230:CDS 35.0%
!!! ATCACTTTTGGTTTCTTTGG+TGG - chr7.3:84122021-84122040 None:intergenic 35.0%
!!! GTGATCACTTTTGGTTTCTT+TGG - chr7.3:84122024-84122043 None:intergenic 35.0%
!!! TTCAATTTTTCAAGGCCACC+AGG + chr7.3:84122744-84122763 MS.gene97230:CDS 40.0%
ACTCATCAACAAGATCCTGG+TGG - chr7.3:84122762-84122781 None:intergenic 45.0%
CTCGATTTCGACGTAATCCT+CGG + chr7.3:84122531-84122550 MS.gene97230:CDS 45.0%
GAAATCGAGTCTGCATGCAA+AGG - chr7.3:84122520-84122539 None:intergenic 45.0%
GCAAAACACATACCGTTTGG+TGG - chr7.3:84122622-84122641 None:intergenic 45.0%
GGAGCTCCTTAACACTCTTA+TGG - chr7.3:84122601-84122620 None:intergenic 45.0%
TAGAATTGATCTGGAGGGTG+TGG + chr7.3:84121906-84121925 MS.gene97230:intron 45.0%
TCGATTTCGACGTAATCCTC+GGG + chr7.3:84122532-84122551 MS.gene97230:CDS 45.0%
TGATGATCCCCTTGTTCTCT+GGG - chr7.3:84121656-84121675 None:intergenic 45.0%
TGTTAAGGAGCTCCACCAAA+CGG + chr7.3:84122607-84122626 MS.gene97230:CDS 45.0%
TTGGCATTCCCAGAGAACAA+GGG + chr7.3:84121645-84121664 MS.gene97230:intron 45.0%
TTTGGCATTCCCAGAGAACA+AGG + chr7.3:84121644-84121663 MS.gene97230:intron 45.0%
! GCTTTTGCACTTAAGCTCCT+TGG + chr7.3:84122312-84122331 MS.gene97230:intron 45.0%
!!! ATTTTAACTTTAATTATAAT+TGG + chr7.3:84122706-84122725 MS.gene97230:intron 5.0%
!!! TTTAATTTGTAAATTTTAAT+TGG + chr7.3:84121855-84121874 MS.gene97230:intron 5.0%
CTGATGATCCCCTTGTTCTC+TGG - chr7.3:84121657-84121676 None:intergenic 50.0%
TGGCATTCCCAGAGAACAAG+GGG + chr7.3:84121646-84121665 MS.gene97230:intron 50.0%
! AATTGATCTGGAGGGTGTGG+TGG + chr7.3:84121909-84121928 MS.gene97230:CDS 50.0%
GGGTGTGGTGGCAAGAGTGA+AGG + chr7.3:84121921-84121940 MS.gene97230:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 84121549 84122801 84121549 ID=MS.gene97230
chr7.3 mRNA 84121549 84122801 84121549 ID=MS.gene97230.t1;Parent=MS.gene97230
chr7.3 exon 84121549 84121553 84121549 ID=MS.gene97230.t1.exon1;Parent=MS.gene97230.t1
chr7.3 CDS 84121549 84121553 84121549 ID=cds.MS.gene97230.t1;Parent=MS.gene97230.t1
chr7.3 exon 84121909 84122080 84121909 ID=MS.gene97230.t1.exon2;Parent=MS.gene97230.t1
chr7.3 CDS 84121909 84122080 84121909 ID=cds.MS.gene97230.t1;Parent=MS.gene97230.t1
chr7.3 exon 84122530 84122628 84122530 ID=MS.gene97230.t1.exon3;Parent=MS.gene97230.t1
chr7.3 CDS 84122530 84122628 84122530 ID=cds.MS.gene97230.t1;Parent=MS.gene97230.t1
chr7.3 exon 84122739 84122801 84122739 ID=MS.gene97230.t1.exon4;Parent=MS.gene97230.t1
chr7.3 CDS 84122739 84122801 84122739 ID=cds.MS.gene97230.t1;Parent=MS.gene97230.t1
Gene Sequence

>MS.gene97230

ATGGTGTATGTTGGTAATTAATGTGATAAAAGACATTCAAAAAAATAACGATGTGATAATTTTTTTTATCAGTTTCTCTAATACTCTAAATATTTTTTGGCATTCCCAGAGAACAAGGGGATCATCAGCTGCAAAGAAAAAAATAACTTATCATGAAGCCAAGATGTATCTCAATGAAATAAAGGATGCTTTTAAAGATGAGAAGCATAAGTATTATGAATTTTTAAGAGTCTTGAAAGATTTTGAGAAACGAAGGTTTGATTTATTTATTTATTTATTAATTTATTTATAATAGGAGAAAAGTTTTTTAATTTGTAAATTTTAATTGGTTTGTTTTTTTTCAATTTGATGTATTTGTAGAATTGATCTGGAGGGTGTGGTGGCAAGAGTGAAGGAATTTTTTCAAGGGCATGATGAATTGTTATTGAAATTTCAAACCTTTTTGCCAGATGGATTTGAAATCTCACTTCCACCAAAGAAACCAAAAGTGATCACTAAAGAATATGCTTTGAAATATGTAAGCAAGGTGAAGGTATGTGTATTGTAGACCTGTATGATGGATTCTTATCATCCAGATTTATTTTCGATGTAAAATAAGCGTCTGTTTGTTTTGCCCTAAAAAAATGATTTTTCTTTAAAAAAGAAAATCTAGAGATTTTTTTTTTGTTTTTTTTTTTTTTTGTGTGTGATATGGATAAAAGCTAAACTAGTGTACGTATGTTTAGTGTTTACTATCATAAAAAATCATTTTTAAAAAATTGAAGCTTTTGCACTTAAGCTCCTTGGATTAGCTTTTCATTTTAAAGTTAAAAATGAGTATTTGGAACAAAATAAAAGGAAAATTTAAAGAGAGAATACGGAAAATTTCTCTATAAAAGTGTGGAGAATGAAGAGATTTTTTTTATTTTTTTTGTCGCTAATTAAATTTATATTTTCAAGTCATGTTTACTTTAATGTCTCTAATGGATCCTTTGCATGCAGACTCGATTTCGACGTAATCCTCGGGTTTATGAATCGTTTTTAGACATAATGCAAATGTATAAAAACGACCATAAGAGTGTTAAGGAGCTCCACCAAACGGTATGTGTTTTGCTTATGAATCACTTTTCTTTTAATTTTTTTTTTTACAAAAATTTTCTTTTAATTTTGGTAATGTCATTTTAACTTTAATTATAATTGGACTTTTGCAGGTTATTTCAATTTTTCAAGGCCACCAGGATCTTGTTGATGAGTTTACTCATTTTCTCCCATAA
Protein sequence

>MS.gene97230.t1

MVIDLEGVVARVKEFFQGHDELLLKFQTFLPDGFEISLPPKKPKVITKEYALKYVSKVKTRFRRNPRVYESFLDIMQMYKNDHKSVKELHQTVISIFQGHQDLVDEFTHFLP