AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene060699

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene060699.t1 MTR_2g078770 94.175 103 6 0 9 111 1 103 4.50e-53 164
MS.gene060699.t1 MTR_8g463140 86.000 50 7 0 62 111 61 110 2.16e-25 94.4
MS.gene060699.t1 MTR_2g014200 54.054 74 32 1 40 111 36 109 8.87e-21 81.3
MS.gene060699.t1 MTR_4g088555 61.290 62 24 0 50 111 47 108 1.01e-20 81.3
MS.gene060699.t1 MTR_3g085180 59.016 61 25 0 51 111 150 210 1.44e-20 85.1
MS.gene060699.t1 MTR_8g005960 57.534 73 31 0 39 111 160 232 1.94e-20 84.0
MS.gene060699.t1 MTR_7g110320 55.263 76 30 1 36 111 119 190 1.71e-19 82.4
MS.gene060699.t1 MTR_7g110320 68.519 54 17 0 58 111 137 190 2.71e-19 82.0
MS.gene060699.t1 MTR_1g086250 60.656 61 24 0 51 111 132 192 5.61e-19 81.3
MS.gene060699.t1 MTR_2g046550 71.739 46 13 0 66 111 139 184 8.05e-18 77.8
MS.gene060699.t1 MTR_7g092930 60.345 58 20 1 57 111 56 113 9.91e-18 77.0
MS.gene060699.t1 MTR_1g053715 62.264 53 20 0 59 111 67 119 3.04e-17 75.5
MS.gene060699.t1 MTR_4g109770 65.957 47 16 0 65 111 122 168 7.80e-17 74.7
MS.gene060699.t1 MTR_2g461920 68.085 47 15 0 65 111 170 216 7.92e-17 74.7
MS.gene060699.t1 MTR_1g035010 64.000 50 18 0 62 111 100 149 3.07e-16 73.2
MS.gene060699.t1 MTR_5g046670 62.500 48 18 0 64 111 242 289 3.33e-16 73.2
MS.gene060699.t1 MTR_8g080670 53.125 64 29 1 49 111 144 207 4.21e-16 72.8
MS.gene060699.t1 MTR_7g444860 62.963 54 20 0 58 111 141 194 4.99e-16 72.0
MS.gene060699.t1 MTR_8g080680 57.143 49 21 0 63 111 129 177 1.95e-15 70.9
MS.gene060699.t1 MTR_8g080690 61.702 47 18 0 64 110 149 195 4.04e-15 69.7
MS.gene060699.t1 MTR_8g096780 60.870 46 18 0 66 111 99 144 5.62e-15 69.3
MS.gene060699.t1 MTR_3g099080 58.696 46 19 0 66 111 98 143 6.36e-15 69.3
MS.gene060699.t1 MTR_7g028740 58.696 46 19 0 66 111 77 122 2.84e-14 67.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene060699.t1 AT1G02065 63.492 63 20 1 52 111 171 233 9.30e-21 84.0
MS.gene060699.t1 AT1G02065 63.492 63 20 1 52 111 171 233 2.96e-20 83.6
MS.gene060699.t1 AT1G69170 47.368 76 40 0 36 111 94 169 6.72e-19 80.5
MS.gene060699.t1 AT3G60030 71.739 46 13 0 66 111 127 172 1.25e-18 80.1
MS.gene060699.t1 AT1G53160 61.667 60 21 1 52 111 42 99 1.87e-18 76.3
MS.gene060699.t1 AT3G15270 46.296 108 53 2 9 111 1 108 2.51e-18 76.3
MS.gene060699.t1 AT1G53160 61.667 60 21 1 52 111 42 99 2.74e-18 75.9
MS.gene060699.t1 AT1G53160 61.667 60 21 1 52 111 42 99 2.74e-18 75.9
MS.gene060699.t1 AT1G20980 62.500 56 19 1 56 111 112 165 8.94e-18 77.8
MS.gene060699.t1 AT2G47070 68.000 50 16 0 62 111 102 151 1.11e-17 77.4
MS.gene060699.t1 AT2G33810 62.000 50 19 0 62 111 50 99 3.30e-17 72.0
MS.gene060699.t1 AT2G42200 70.833 48 14 0 64 111 72 119 4.71e-17 75.1
MS.gene060699.t1 AT1G76580 66.667 48 16 0 64 111 112 159 5.04e-17 75.5
MS.gene060699.t1 AT1G76580 66.667 48 16 0 64 111 112 159 1.20e-16 74.3
MS.gene060699.t1 AT1G76580 66.667 48 16 0 64 111 112 159 1.25e-16 74.3
MS.gene060699.t1 AT5G43270 59.615 52 21 0 60 111 163 214 4.97e-16 72.4
MS.gene060699.t1 AT5G43270 59.615 52 21 0 60 111 163 214 4.97e-16 72.4
MS.gene060699.t1 AT5G43270 59.615 52 21 0 60 111 163 214 4.97e-16 72.4
MS.gene060699.t1 AT1G27370 50.794 63 31 0 49 111 159 221 3.63e-15 69.7
MS.gene060699.t1 AT1G27370 50.794 63 31 0 49 111 159 221 6.70e-15 69.3
MS.gene060699.t1 AT1G27370 50.794 63 31 0 49 111 159 221 6.70e-15 69.3
MS.gene060699.t1 AT1G27370 50.794 63 31 0 49 111 159 221 6.70e-15 69.3
MS.gene060699.t1 AT1G27370 50.794 63 31 0 49 111 159 221 6.70e-15 69.3
MS.gene060699.t1 AT1G27370 50.794 63 31 0 49 111 159 221 6.70e-15 69.3
MS.gene060699.t1 AT1G27370 50.794 63 31 0 49 111 159 221 6.70e-15 69.3
MS.gene060699.t1 AT3G57920 63.043 46 17 0 66 111 59 104 1.09e-14 68.6
MS.gene060699.t1 AT5G50670 56.250 48 21 0 64 111 99 146 2.10e-14 67.8
MS.gene060699.t1 AT5G50670 56.250 48 21 0 64 111 99 146 2.10e-14 67.8
MS.gene060699.t1 AT5G50570 56.250 48 21 0 64 111 99 146 2.10e-14 67.8
MS.gene060699.t1 AT5G50570 56.250 48 21 0 64 111 99 146 2.10e-14 67.8
MS.gene060699.t1 AT1G27360 60.417 48 19 0 64 111 173 220 4.89e-14 67.0
MS.gene060699.t1 AT1G27360 60.417 48 19 0 64 111 173 220 4.89e-14 67.0
MS.gene060699.t1 AT1G27360 60.417 48 19 0 64 111 173 220 4.89e-14 67.0
MS.gene060699.t1 AT1G27360 60.417 48 19 0 64 111 173 220 4.89e-14 67.0

Find 29 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACTTTCTACTTGACAAAA+AGG 0.293853 2.1:-21706751 None:intergenic
GCATCTGTTGTGGTGGTTGC+AGG 0.368915 2.1:+21706841 MS.gene060699:CDS
AATGAACCTCACAAACCTTA+TGG 0.389353 2.1:-21706813 None:intergenic
AAACATCAGTTGAGAAGGTT+TGG 0.391376 2.1:+21706599 MS.gene060699:CDS
GATCACACCTGCTACATTGT+TGG 0.396569 2.1:-21706882 None:intergenic
AAGAAAGGTGTTTGTGTGAG+TGG 0.453403 2.1:+21706691 MS.gene060699:CDS
AACCACCACAACAGATGCTT+TGG 0.458273 2.1:-21706836 None:intergenic
TTGTGGTGGTTGCAGGGATA+AGG 0.463071 2.1:+21706848 MS.gene060699:CDS
AGAAATAGAAGTTGAAGAAG+AGG 0.475722 2.1:+21706639 MS.gene060699:CDS
GAAAATCTTCCACCTCTACT+TGG 0.489950 2.1:-21706724 None:intergenic
GAGATATCATCGTCGCCATA+AGG 0.496552 2.1:+21706798 MS.gene060699:CDS
GGAAGCAAGGAATACAATAG+AGG 0.502654 2.1:+21706570 MS.gene060699:CDS
GAAGCAAGGAATACAATAGA+GGG 0.522960 2.1:+21706571 MS.gene060699:CDS
GTTGAAGAAGAGGAGGAAGG+TGG 0.527678 2.1:+21706649 MS.gene060699:CDS
GAAGTTGAAGAAGAGGAGGA+AGG 0.550030 2.1:+21706646 MS.gene060699:CDS
AATAGAAGTTGAAGAAGAGG+AGG 0.552525 2.1:+21706642 MS.gene060699:CDS
AGAAAGGTGTTTGTGTGAGT+GGG 0.554222 2.1:+21706692 MS.gene060699:CDS
TTCCAAAGCATCTGTTGTGG+TGG 0.554775 2.1:+21706834 MS.gene060699:CDS
GAAGATGATGAGAAGAAGAA+AGG 0.566806 2.1:+21706676 MS.gene060699:CDS
GAAGCAAACATCAGTTGAGA+AGG 0.569996 2.1:+21706594 MS.gene060699:CDS
AGAAAAGAGCCAAGTAGAGG+TGG 0.571945 2.1:+21706715 MS.gene060699:CDS
TGGTTGCAGGGATAAGGCAG+AGG 0.586383 2.1:+21706854 MS.gene060699:CDS
CATCTGTTGTGGTGGTTGCA+GGG 0.612833 2.1:+21706842 MS.gene060699:CDS
CATAGTACACAATGGAAGCA+AGG 0.613876 2.1:+21706557 None:intergenic
TCATTCCAAAGCATCTGTTG+TGG 0.621345 2.1:+21706831 MS.gene060699:CDS
GGGAGAAAAGAGCCAAGTAG+AGG 0.628005 2.1:+21706712 MS.gene060699:CDS
TCGTCGCCATAAGGTTTGTG+AGG 0.640730 2.1:+21706807 MS.gene060699:CDS
CATAGCCTCATAGTACACAA+TGG 0.668435 2.1:+21706549 None:intergenic
AAGCAAGGAATACAATAGAG+GGG 0.716459 2.1:+21706572 MS.gene060699:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGAAATAGAAGTTGAAGAAG+AGG + chr2.1:21706639-21706658 MS.gene060699:CDS 30.0%
CAACTTTCTACTTGACAAAA+AGG - chr2.1:21706754-21706773 None:intergenic 30.0%
! TTTTGTCAAGTAGAAAGTTG+TGG + chr2.1:21706754-21706773 MS.gene060699:CDS 30.0%
AAACATCAGTTGAGAAGGTT+TGG + chr2.1:21706599-21706618 MS.gene060699:CDS 35.0%
AAGCAAGGAATACAATAGAG+GGG + chr2.1:21706572-21706591 MS.gene060699:CDS 35.0%
AATAGAAGTTGAAGAAGAGG+AGG + chr2.1:21706642-21706661 MS.gene060699:CDS 35.0%
AATGAACCTCACAAACCTTA+TGG - chr2.1:21706816-21706835 None:intergenic 35.0%
CTTTCTACTTGACAAAAAGG+TGG - chr2.1:21706751-21706770 None:intergenic 35.0%
GAAGATGATGAGAAGAAGAA+AGG + chr2.1:21706676-21706695 MS.gene060699:CDS 35.0%
GAAGCAAGGAATACAATAGA+GGG + chr2.1:21706571-21706590 MS.gene060699:CDS 35.0%
GAAAATCTTCCACCTCTACT+TGG - chr2.1:21706727-21706746 None:intergenic 40.0%
GAAGCAAACATCAGTTGAGA+AGG + chr2.1:21706594-21706613 MS.gene060699:CDS 40.0%
GGAAGCAAGGAATACAATAG+AGG + chr2.1:21706570-21706589 MS.gene060699:CDS 40.0%
! TCATTCCAAAGCATCTGTTG+TGG + chr2.1:21706831-21706850 MS.gene060699:CDS 40.0%
!! AAGAAAGGTGTTTGTGTGAG+TGG + chr2.1:21706691-21706710 MS.gene060699:CDS 40.0%
!! AGAAAGGTGTTTGTGTGAGT+GGG + chr2.1:21706692-21706711 MS.gene060699:CDS 40.0%
AACCACCACAACAGATGCTT+TGG - chr2.1:21706839-21706858 None:intergenic 45.0%
AGAAAAGAGCCAAGTAGAGG+TGG + chr2.1:21706715-21706734 MS.gene060699:CDS 45.0%
GAAGTTGAAGAAGAGGAGGA+AGG + chr2.1:21706646-21706665 MS.gene060699:CDS 45.0%
GAGATATCATCGTCGCCATA+AGG + chr2.1:21706798-21706817 MS.gene060699:CDS 45.0%
! TTCCAAAGCATCTGTTGTGG+TGG + chr2.1:21706834-21706853 MS.gene060699:CDS 45.0%
CATCTGTTGTGGTGGTTGCA+GGG + chr2.1:21706842-21706861 MS.gene060699:CDS 50.0%
GGGAGAAAAGAGCCAAGTAG+AGG + chr2.1:21706712-21706731 MS.gene060699:CDS 50.0%
GTTGAAGAAGAGGAGGAAGG+TGG + chr2.1:21706649-21706668 MS.gene060699:CDS 50.0%
TCGTCGCCATAAGGTTTGTG+AGG + chr2.1:21706807-21706826 MS.gene060699:CDS 50.0%
TTGTGGTGGTTGCAGGGATA+AGG + chr2.1:21706848-21706867 MS.gene060699:CDS 50.0%
GCATCTGTTGTGGTGGTTGC+AGG + chr2.1:21706841-21706860 MS.gene060699:CDS 55.0%
TGGTTGCAGGGATAAGGCAG+AGG + chr2.1:21706854-21706873 MS.gene060699:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 21706562 21706896 21706562 ID=MS.gene060699
chr2.1 mRNA 21706562 21706896 21706562 ID=MS.gene060699.t1;Parent=MS.gene060699
chr2.1 exon 21706562 21706896 21706562 ID=MS.gene060699.t1.exon1;Parent=MS.gene060699.t1
chr2.1 CDS 21706562 21706896 21706562 ID=cds.MS.gene060699.t1;Parent=MS.gene060699.t1
Gene Sequence

>MS.gene060699

TACACAATGGAAGCAAGGAATACAATAGAGGGGAAGCAAACATCAGTTGAGAAGGTTTGGAAAGACATCTTATTTGAAGAAATAGAAGTTGAAGAAGAGGAGGAAGGTGGTGTTGAAGATGATGAGAAGAAGAAAGGTGTTTGTGTGAGTGGGAGAAAAGAGCCAAGTAGAGGTGGAAGATTTTCTCCACCTTTTTGTCAAGTAGAAAGTTGTGGAGCTGATTTAACTTTTGCAAAGAGATATCATCGTCGCCATAAGGTTTGTGAGGTTCATTCCAAAGCATCTGTTGTGGTGGTTGCAGGGATAAGGCAGAGGTTTTGCCAACAATGTAGCAG
Protein sequence

>MS.gene060699.t1

YTMEARNTIEGKQTSVEKVWKDILFEEIEVEEEEEGGVEDDEKKKGVCVSGRKEPSRGGRFSPPFCQVESCGADLTFAKRYHRRHKVCEVHSKASVVVVAGIRQRFCQQCS