AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene057610


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057610.t1 MTR_5g037890 95.238 126 6 0 1 126 1 126 1.30e-80 233
MS.gene057610.t1 MTR_5g037950 63.492 126 45 1 1 125 1 126 5.08e-50 155
MS.gene057610.t1 MTR_5g037930 63.281 128 45 1 1 126 1 128 7.69e-50 155
MS.gene057610.t1 MTR_7g009070 54.717 106 48 0 20 125 28 133 6.35e-42 135
MS.gene057610.t1 MTR_3g112410 43.243 111 63 0 14 124 2 112 2.41e-33 113
MS.gene057610.t1 MTR_5g021180 41.441 111 65 0 14 124 4 114 4.64e-32 110
MS.gene057610.t1 MTR_1g023140 38.938 113 69 0 14 126 2 114 2.26e-31 108
MS.gene057610.t1 MTR_8g107460 38.462 104 64 0 18 121 254 357 5.69e-22 89.4
MS.gene057610.t1 MTR_7g073680 35.238 105 68 0 17 121 23 127 5.93e-22 84.7
MS.gene057610.t1 MTR_8g005320 33.333 105 70 0 17 121 25 129 6.82e-22 84.7
MS.gene057610.t1 MTR_8g006685 33.333 105 70 0 17 121 94 198 1.01e-20 83.6
MS.gene057610.t1 MTR_8g006560 33.333 105 70 0 17 121 94 198 1.01e-20 83.6
MS.gene057610.t1 MTR_2g010750 36.190 105 67 0 18 122 9 113 1.84e-20 80.5
MS.gene057610.t1 MTR_4g081380 36.449 107 64 2 18 122 10 114 1.02e-19 78.6
MS.gene057610.t1 MTR_2g082590 31.429 105 72 0 18 122 10 114 1.86e-18 75.5
MS.gene057610.t1 MTR_2g082590 32.743 113 67 2 10 122 24 127 3.04e-18 75.1
MS.gene057610.t1 MTR_8g059015 34.091 88 56 2 38 123 87 174 3.47e-14 65.9
MS.gene057610.t1 MTR_3g089065 31.313 99 63 3 27 123 76 171 8.72e-14 64.7
MS.gene057610.t1 MTR_2g079420 34.091 88 56 2 38 123 84 171 2.11e-13 63.5
MS.gene057610.t1 MTR_1g098660 29.070 86 58 2 39 123 77 160 6.41e-13 62.4
MS.gene057610.t1 MTR_7g080250 34.091 88 57 1 40 126 94 181 1.14e-12 61.6
MS.gene057610.t1 MTR_4g094690 30.488 82 55 1 44 123 85 166 1.88e-12 60.8
MS.gene057610.t1 MTR_1g114290 32.911 79 49 2 38 115 84 159 6.88e-12 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057610.t1 AT5G39950 46.847 111 59 0 15 125 22 132 5.89e-40 130
MS.gene057610.t1 AT1G69880 47.664 107 56 0 17 123 36 142 5.44e-35 118
MS.gene057610.t1 AT1G59730 40.541 111 66 0 15 125 18 128 1.98e-32 111
MS.gene057610.t1 AT3G51030 39.091 110 67 0 14 123 2 111 1.92e-30 105
MS.gene057610.t1 AT1G19730 42.982 114 64 1 14 126 2 115 3.79e-30 105
MS.gene057610.t1 AT1G45145 42.056 107 62 0 18 124 5 111 4.48e-30 105
MS.gene057610.t1 AT5G42980 41.284 109 64 0 18 126 5 113 1.33e-28 101
MS.gene057610.t1 AT3G56420 38.043 92 57 0 28 119 50 141 4.14e-21 83.2
MS.gene057610.t1 AT3G56420 38.043 92 57 0 28 119 50 141 4.14e-21 83.2
MS.gene057610.t1 AT3G56420 38.043 92 57 0 28 119 50 141 4.14e-21 83.2
MS.gene057610.t1 AT3G17880 36.893 103 65 0 19 121 271 373 1.08e-19 83.2
MS.gene057610.t1 AT3G17880 36.893 103 65 0 19 121 264 366 1.10e-19 83.2
MS.gene057610.t1 AT3G08710 32.432 111 73 1 11 121 18 126 3.66e-19 77.8
MS.gene057610.t1 AT3G08710 32.432 111 73 1 11 121 18 126 3.66e-19 77.8
MS.gene057610.t1 AT3G08710 32.432 111 73 1 11 121 18 126 3.66e-19 77.8
MS.gene057610.t1 AT1G11530 32.381 105 71 0 18 122 2 106 1.39e-17 73.2
MS.gene057610.t1 AT2G40790 34.783 92 60 0 28 119 50 141 7.75e-17 72.0
MS.gene057610.t1 AT2G40790 34.783 92 60 0 28 119 50 141 7.75e-17 72.0
MS.gene057610.t1 AT4G03520 39.759 83 48 2 43 123 101 183 3.29e-15 68.6
MS.gene057610.t1 AT1G03680 39.506 81 47 2 45 123 97 177 8.01e-15 67.4
MS.gene057610.t1 AT3G15360 32.967 91 53 3 38 123 102 189 1.30e-14 67.0
MS.gene057610.t1 AT5G16400 35.227 88 56 1 40 126 97 184 7.35e-14 65.1
MS.gene057610.t1 AT1G43560 26.496 117 81 3 1 112 33 149 1.22e-13 63.9
MS.gene057610.t1 AT3G02730 36.782 87 54 1 41 126 88 174 1.25e-13 64.3
MS.gene057610.t1 AT1G31020 30.000 120 78 2 6 123 41 156 1.82e-13 63.5
MS.gene057610.t1 AT1G76760 27.368 95 62 3 33 120 70 164 1.66e-12 61.2
MS.gene057610.t1 AT2G35010 34.940 83 50 2 44 123 110 191 2.07e-12 61.2
MS.gene057610.t1 AT2G35010 34.940 83 50 2 44 123 110 191 2.07e-12 61.2
MS.gene057610.t1 AT1G52990 30.769 91 61 2 34 123 222 311 4.25e-11 58.9

Find 22 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTCCATTCCACTGCTAAA+TGG 0.238150 5.4:-27185370 MS.gene057610:CDS
GCAGCAAAATCTTTCATAAC+TGG 0.263663 5.4:+27185168 None:intergenic
GCTTGATGTTGATGAGTTAT+TGG 0.264813 5.4:-27185118 MS.gene057610:intron
TTATTGATTTCTCAGCTAAA+TGG 0.284865 5.4:-27185215 MS.gene057610:CDS
TAAAGTGGTGGGAGTGAGAA+AGG 0.434933 5.4:-27184829 MS.gene057610:CDS
TTCTTAATGAGTAAAATAGT+TGG 0.439170 5.4:+27184867 None:intergenic
GGGCGTTTCTCAAACATTCC+AGG 0.471133 5.4:-27184901 MS.gene057610:CDS
GTGTGGACCTTGCAAAGTTA+TGG 0.487071 5.4:-27185193 MS.gene057610:CDS
TAGCAGTGGAATGGAATGTA+AGG 0.498154 5.4:+27185375 None:intergenic
ATACACAAAATTATACAAGT+TGG 0.527315 5.4:+27185427 None:intergenic
CATTCCATTTAGCAGTGGAA+TGG 0.530623 5.4:+27185366 None:intergenic
AGGAAATGTTGTTGATAAAG+TGG 0.538365 5.4:-27184844 MS.gene057610:CDS
TGGAATGGAATGTAAGGACA+TGG 0.568326 5.4:+27185381 None:intergenic
GATTTCTCAGCTAAATGGTG+TGG 0.569817 5.4:-27185210 MS.gene057610:CDS
TAGTTGGCAATGAATGCACC+TGG 0.594643 5.4:+27184883 None:intergenic
ACTGGATCCATAACTTTGCA+AGG 0.602265 5.4:+27185186 None:intergenic
ATGAGCATTCCATTTAGCAG+TGG 0.609708 5.4:+27185361 None:intergenic
AATGTTGTTGATAAAGTGGT+GGG 0.647263 5.4:-27184840 MS.gene057610:CDS
AGTGGTGGGAGTGAGAAAGG+AGG 0.648137 5.4:-27184826 MS.gene057610:CDS
AAATGTTGTTGATAAAGTGG+TGG 0.651478 5.4:-27184841 MS.gene057610:CDS
TGAGAAAGGAGGAACTACAA+AGG 0.675876 5.4:-27184815 MS.gene057610:CDS
GGAATGGAATGTAAGGACAT+GGG 0.736550 5.4:+27185382 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATAATAGCATTTATAAT+AGG + chr5.4:27185242-27185261 None:intergenic 10.0%
!! AATTAAACCTTATATAAAGT+TGG + chr5.4:27185183-27185202 None:intergenic 15.0%
!!! TTTTAAAGAAACTAATAAAC+TGG - chr5.4:27184895-27184914 MS.gene057610:CDS 15.0%
!! ATACACAAAATTATACAAGT+TGG + chr5.4:27184801-27184820 None:intergenic 20.0%
!! TGTAAAACCAACTTTATATA+AGG - chr5.4:27185173-27185192 MS.gene057610:CDS 20.0%
!! TTCTTAATGAGTAAAATAGT+TGG + chr5.4:27185361-27185380 None:intergenic 20.0%
!!! ACTATTTTACTCATTAAGAA+AGG - chr5.4:27185361-27185380 MS.gene057610:CDS 20.0%
!!! TCTTATGCATTATTTTTCTT+TGG - chr5.4:27184978-27184997 MS.gene057610:intron 20.0%
!!! TGTTTTTTCCACAATATAAA+TGG - chr5.4:27185296-27185315 MS.gene057610:intron 20.0%
!!! TTATTTTTCTTTGGTATAGA+TGG - chr5.4:27184987-27185006 MS.gene057610:intron 20.0%
! TAACAAACTAGTTAAAGTGA+AGG + chr5.4:27185148-27185167 None:intergenic 25.0%
! TATAAGGTTTAATTACTCGT+TGG - chr5.4:27185189-27185208 MS.gene057610:CDS 25.0%
!!! TTATTGATTTCTCAGCTAAA+TGG - chr5.4:27185010-27185029 MS.gene057610:intron 25.0%
! AAATGTTGTTGATAAAGTGG+TGG - chr5.4:27185384-27185403 MS.gene057610:CDS 30.0%
! AATGTTGTTGATAAAGTGGT+GGG - chr5.4:27185385-27185404 MS.gene057610:CDS 30.0%
! AGGAAATGTTGTTGATAAAG+TGG - chr5.4:27185381-27185400 MS.gene057610:CDS 30.0%
CCACAATATAAATGGCAACA+GGG - chr5.4:27185304-27185323 MS.gene057610:intron 35.0%
GCAGCAAAATCTTTCATAAC+TGG + chr5.4:27185060-27185079 None:intergenic 35.0%
TCCACAATATAAATGGCAAC+AGG - chr5.4:27185303-27185322 MS.gene057610:intron 35.0%
! GCTTGATGTTGATGAGTTAT+TGG - chr5.4:27185107-27185126 MS.gene057610:intron 35.0%
ACTGGATCCATAACTTTGCA+AGG + chr5.4:27185042-27185061 None:intergenic 40.0%
ATGAGCATTCCATTTAGCAG+TGG + chr5.4:27184867-27184886 None:intergenic 40.0%
CATTCCATTCCACTGCTAAA+TGG - chr5.4:27184855-27184874 MS.gene057610:CDS 40.0%
CATTCCATTTAGCAGTGGAA+TGG + chr5.4:27184862-27184881 None:intergenic 40.0%
GATTTCTCAGCTAAATGGTG+TGG - chr5.4:27185015-27185034 MS.gene057610:intron 40.0%
GGAATGGAATGTAAGGACAT+GGG + chr5.4:27184846-27184865 None:intergenic 40.0%
TAGCAGTGGAATGGAATGTA+AGG + chr5.4:27184853-27184872 None:intergenic 40.0%
TGAGAAAGGAGGAACTACAA+AGG - chr5.4:27185410-27185429 MS.gene057610:CDS 40.0%
TGGAATGGAATGTAAGGACA+TGG + chr5.4:27184847-27184866 None:intergenic 40.0%
! CCCTGTTGCCATTTATATTG+TGG + chr5.4:27185307-27185326 None:intergenic 40.0%
GTGTGGACCTTGCAAAGTTA+TGG - chr5.4:27185032-27185051 MS.gene057610:intron 45.0%
TAGTTGGCAATGAATGCACC+TGG + chr5.4:27185345-27185364 None:intergenic 45.0%
! TAAAGTGGTGGGAGTGAGAA+AGG - chr5.4:27185396-27185415 MS.gene057610:CDS 45.0%
GGGCGTTTCTCAAACATTCC+AGG - chr5.4:27185324-27185343 MS.gene057610:intron 50.0%
! AGTGGTGGGAGTGAGAAAGG+AGG - chr5.4:27185399-27185418 MS.gene057610:CDS 55.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 27184791 27185456 27184791 ID=MS.gene057610
chr5.4 mRNA 27184791 27185456 27184791 ID=MS.gene057610.t1;Parent=MS.gene057610
chr5.4 exon 27185331 27185456 27185331 ID=MS.gene057610.t1.exon1;Parent=MS.gene057610.t1
chr5.4 CDS 27185331 27185456 27185331 ID=cds.MS.gene057610.t1;Parent=MS.gene057610.t1
chr5.4 exon 27185119 27185241 27185119 ID=MS.gene057610.t1.exon2;Parent=MS.gene057610.t1
chr5.4 CDS 27185119 27185241 27185119 ID=cds.MS.gene057610.t1;Parent=MS.gene057610.t1
chr5.4 exon 27184791 27184922 27184791 ID=MS.gene057610.t1.exon3;Parent=MS.gene057610.t1
chr5.4 CDS 27184791 27184922 27184791 ID=cds.MS.gene057610.t1;Parent=MS.gene057610.t1
Gene Sequence

>MS.gene057610

ATGAGTTCCAACTTGTATAATTTTGTGTATGTTGATAGATCAACAGAATCATCCCATGTCCTTACATTCCATTCCACTGCTAAATGGAATGCTCATTTTGAAGCTTTTAAAGAAACTAATAAACTGGTATGTTTGTGAAGCTAAATTCTTAACTAGCTATAGAGTCTTAGAAGATAAAAATTAGTTTTCTTATGCATTATTTTTCTTTGGTATAGATGGTTATTGATTTCTCAGCTAAATGGTGTGGACCTTGCAAAGTTATGGATCCAGTTATGAAAGATTTTGCTGCAAAATACACTGATGTTGAGTTCATTAAGCTTGATGTTGATGAGTTATTGGTATGTTACAAATTATCCTTCACTTTAACTAGTTTGTTATTTAATGTAAAACCAACTTTATATAAGGTTTAATTACTCGTTGGTTTCTAAACTATTTGAATTTTTTTGAACCTATTATAAATGCTATTATTTTTTAATAACATGTTTTCAACACTTGAGAACTGAATTGTTTTTTCCACAATATAAATGGCAACAGGGCGTTTCTCAAACATTCCAGGTGCATTCATTGCCAACTATTTTACTCATTAAGAAAGGAAATGTTGTTGATAAAGTGGTGGGAGTGAGAAAGGAGGAACTACAAAGGATGATTGAAAAACAAAGAAACTAA

Protein sequence

>MS.gene057610.t1

MSSNLYNFVYVDRSTESSHVLTFHSTAKWNAHFEAFKETNKLMVIDFSAKWCGPCKVMDPVMKDFAAKYTDVEFIKLDVDELLGVSQTFQVHSLPTILLIKKGNVVDKVVGVRKEELQRMIEKQRN