AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051446

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051446.t1 MTR_1g063170 92.347 196 9 1 1 190 1 196 3.14e-123 377
MS.gene051446.t1 MTR_7g102070 67.857 224 37 3 1 190 1 223 9.96e-95 300
MS.gene051446.t1 MTR_6g011680 50.595 168 73 1 23 190 3 160 5.10e-53 182
MS.gene051446.t1 MTR_5g029750 51.678 149 71 1 42 190 6 153 1.32e-44 157
MS.gene051446.t1 MTR_8g066690 49.640 139 70 0 52 190 11 149 4.06e-41 145
MS.gene051446.t1 MTR_1g086080 38.150 173 104 1 21 190 14 186 3.83e-36 133
MS.gene051446.t1 MTR_3g107800 41.892 148 83 2 45 190 47 193 8.24e-35 129
MS.gene051446.t1 MTR_4g124040 35.000 180 111 2 16 190 47 225 1.81e-34 129
MS.gene051446.t1 MTR_4g124040 40.714 140 82 1 51 190 32 170 1.98e-34 129
MS.gene051446.t1 MTR_2g018350 39.869 153 90 1 38 190 6 156 4.01e-34 127
MS.gene051446.t1 MTR_4g123990 39.216 153 91 1 38 190 25 175 1.29e-33 126
MS.gene051446.t1 MTR_1g086150 38.571 140 86 0 51 190 42 181 2.19e-33 125
MS.gene051446.t1 MTR_4g077930 42.143 140 79 1 51 190 36 173 4.31e-33 125
MS.gene051446.t1 MTR_4g124000 35.088 171 109 1 20 190 7 175 4.94e-33 124
MS.gene051446.t1 MTR_4g077930 42.143 140 79 1 51 190 36 173 5.99e-33 124
MS.gene051446.t1 MTR_4g124000 35.088 171 109 1 20 190 7 175 6.08e-33 124
MS.gene051446.t1 MTR_1g025560 39.264 163 98 1 28 190 9 170 7.10e-33 124
MS.gene051446.t1 MTR_4g124050 37.975 158 89 2 33 190 45 193 7.71e-33 124
MS.gene051446.t1 MTR_4g124050 37.975 158 89 2 33 190 45 193 1.01e-32 124
MS.gene051446.t1 MTR_2g018320 41.007 139 80 1 52 190 20 156 2.24e-32 122
MS.gene051446.t1 MTR_2g018530 37.500 168 101 3 25 190 1 166 3.37e-32 122
MS.gene051446.t1 MTR_6g078080 41.007 139 80 1 52 190 26 162 3.57e-32 122
MS.gene051446.t1 MTR_3g093430 38.255 149 91 1 43 190 14 162 9.71e-32 120
MS.gene051446.t1 MTR_3g080220 37.430 179 101 5 18 190 19 192 1.23e-31 120
MS.gene051446.t1 MTR_7g023340 37.762 143 87 1 50 190 63 205 1.96e-30 117
MS.gene051446.t1 MTR_7g023340 37.762 143 87 1 50 190 63 205 2.61e-30 117
MS.gene051446.t1 MTR_8g022270 36.879 141 88 1 51 190 255 395 5.98e-29 113
MS.gene051446.t1 MTR_1g115430 36.879 141 84 1 50 190 63 198 5.73e-28 110
MS.gene051446.t1 MTR_6g088670 39.865 148 85 3 45 190 11 156 4.45e-26 104
MS.gene051446.t1 MTR_4g081190 37.762 143 83 2 52 190 1 141 1.85e-25 103
MS.gene051446.t1 MTR_6g009030 38.129 139 84 2 54 190 21 159 1.83e-23 97.4
MS.gene051446.t1 MTR_6g009150 35.252 139 88 2 54 190 22 160 3.66e-23 96.3
MS.gene051446.t1 MTR_7g051100 35.294 136 86 2 57 190 20 155 4.06e-23 96.3
MS.gene051446.t1 MTR_6g008820 34.694 147 94 2 46 190 13 159 2.18e-22 94.4
MS.gene051446.t1 MTR_6g009090 33.714 175 94 4 38 190 5 179 1.25e-21 91.7
MS.gene051446.t1 MTR_6g009110 34.270 178 99 4 15 190 5 166 2.02e-21 91.3
MS.gene051446.t1 MTR_3g086430 33.088 136 88 1 58 190 8 143 1.46e-20 89.0
MS.gene051446.t1 MTR_6g009200 34.839 155 99 2 38 190 5 159 4.29e-20 87.4
MS.gene051446.t1 MTR_6g008820 33.333 150 80 3 46 190 13 147 8.89e-20 86.7
MS.gene051446.t1 MTR_6g008800 35.484 155 95 3 38 190 8 159 4.37e-19 84.7
MS.gene051446.t1 MTR_6g009070 33.333 99 64 2 94 190 1 99 1.08e-12 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051446.t1 AT2G36910 76.506 166 38 1 25 190 1 165 2.61e-82 265
MS.gene051446.t1 AT3G28860 54.167 144 66 0 47 190 19 162 2.74e-52 180
MS.gene051446.t1 AT1G27940 47.143 140 74 0 51 190 29 168 7.00e-42 150
MS.gene051446.t1 AT1G10680 49.660 147 74 0 44 190 16 162 1.89e-41 149
MS.gene051446.t1 AT4G25960 47.771 157 82 0 34 190 42 198 2.28e-41 148
MS.gene051446.t1 AT1G10680 49.660 147 74 0 44 190 16 162 2.57e-41 148
MS.gene051446.t1 AT1G28010 45.000 140 77 0 51 190 30 169 4.76e-39 142
MS.gene051446.t1 AT1G02520 45.000 140 76 1 51 190 40 178 2.05e-35 131
MS.gene051446.t1 AT1G02520 45.000 140 76 1 51 190 40 178 2.05e-35 131
MS.gene051446.t1 AT1G02520 45.000 140 76 1 51 190 40 178 2.05e-35 131
MS.gene051446.t1 AT1G02530 45.033 151 79 2 40 190 19 165 4.56e-35 130
MS.gene051446.t1 AT1G02530 45.033 151 79 2 40 190 19 165 5.45e-35 130
MS.gene051446.t1 AT2G47000 42.143 140 78 1 51 190 45 181 4.10e-33 125
MS.gene051446.t1 AT2G47000 42.143 140 78 1 51 190 45 181 4.10e-33 125
MS.gene051446.t1 AT2G47000 42.143 140 78 1 51 190 45 181 4.10e-33 125
MS.gene051446.t1 AT2G47000 42.143 140 78 1 51 190 45 181 4.47e-33 124
MS.gene051446.t1 AT2G47000 42.143 140 78 1 51 190 45 181 4.47e-33 124
MS.gene051446.t1 AT2G47000 42.143 140 78 1 51 190 45 181 4.52e-33 125
MS.gene051446.t1 AT2G47000 42.143 140 78 1 51 190 45 181 5.44e-33 124
MS.gene051446.t1 AT3G62150 39.865 148 85 2 43 190 57 200 9.15e-33 124
MS.gene051446.t1 AT3G62150 39.865 148 85 2 43 190 57 200 9.15e-33 124
MS.gene051446.t1 AT3G62150 39.865 148 85 2 43 190 57 200 9.15e-33 124
MS.gene051446.t1 AT5G46540 43.165 139 77 1 52 190 18 154 1.11e-32 124
MS.gene051446.t1 AT4G18050 39.157 166 87 3 25 190 1 152 1.67e-32 123
MS.gene051446.t1 AT4G01820 40.816 147 83 2 44 190 3 145 2.51e-32 122
MS.gene051446.t1 AT4G01820 40.816 147 83 2 44 190 3 145 3.47e-32 122
MS.gene051446.t1 AT4G01830 39.161 143 86 1 48 190 9 150 5.32e-32 122
MS.gene051446.t1 AT4G18050 40.000 150 82 2 41 190 21 162 1.65e-31 120
MS.gene051446.t1 AT2G39480 38.621 145 85 2 50 190 67 211 4.61e-30 116
MS.gene051446.t1 AT3G55320 37.241 145 87 1 50 190 69 213 1.74e-29 114
MS.gene051446.t1 AT3G28380 37.748 151 91 2 41 190 9 157 5.70e-28 110
MS.gene051446.t1 AT3G28345 40.000 135 80 1 57 190 23 157 7.76e-28 109
MS.gene051446.t1 AT3G28360 41.481 135 78 1 57 190 10 144 4.03e-27 107
MS.gene051446.t1 AT3G28390 40.000 135 80 1 57 190 11 145 8.22e-26 103
MS.gene051446.t1 AT3G28415 37.037 135 84 1 57 190 10 144 2.06e-22 94.4
MS.gene051446.t1 AT3G28415 34.815 135 79 3 57 190 10 136 1.04e-17 80.9

Find 33 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTAGTATGCTCTTTACTTTC+TGG 0.167530 1.1:+47805700 MS.gene051446:intron
TGGTTCTAATGCTAATAATT+TGG 0.206321 1.1:+47805560 MS.gene051446:CDS
GCTGATCTTGTTAATTCTTT+TGG 0.224026 1.1:+47805540 MS.gene051446:CDS
TGGTTGTTGGTGCTGCTATT+TGG 0.254945 1.1:+47805720 MS.gene051446:CDS
CTGCTATTTGGGCATCTTCA+TGG 0.260733 1.1:+47805732 MS.gene051446:CDS
TTCTTACCTTAGCAACTTCT+TGG 0.272948 1.1:-47805593 None:intergenic
GGTTGTTGGTGCTGCTATTT+GGG 0.277195 1.1:+47805721 MS.gene051446:CDS
AAAAGTTGTGATGTTTCTAA+TGG 0.303452 1.1:+47805372 MS.gene051446:CDS
CTTGTCCACCTTCTCACTTA+TGG 0.304918 1.1:-47806020 None:intergenic
GCTCTTTACTTTCTGGTTGT+TGG 0.305072 1.1:+47805707 MS.gene051446:CDS
CTTATGACAATTGGAAGTTT+AGG 0.305700 1.1:+47805471 MS.gene051446:CDS
TAAGTATCTTGAAGCTGCTT+TGG 0.326812 1.1:+47805910 MS.gene051446:CDS
GTTCTTTGCCACTGTTTCTT+CGG 0.389486 1.1:+47805511 MS.gene051446:CDS
AGTTTAGGAGCTATTGTTCA+TGG 0.393458 1.1:+47805486 MS.gene051446:CDS
CAGAGATTTCTTGTTGGATG+TGG 0.396523 1.1:+47805855 MS.gene051446:intron
TGCTATTTGGGCATCTTCAT+GGG 0.399570 1.1:+47805733 MS.gene051446:CDS
GATTATGTTCTTATGACAAT+TGG 0.406914 1.1:+47805462 MS.gene051446:CDS
GTTAAGAATGTTGCTTCTGT+TGG 0.425567 1.1:+47805405 MS.gene051446:CDS
TTTCAGATTTGCTGATAGGT+TGG 0.454350 1.1:+47805440 MS.gene051446:CDS
AAACCTCTGAGCAATGGAAA+TGG 0.466102 1.1:+47805298 MS.gene051446:CDS
TCTTACCTTAGCAACTTCTT+GGG 0.468897 1.1:-47805592 None:intergenic
ATTTGGGCATCTTCATGGGC+AGG 0.471535 1.1:+47805737 MS.gene051446:CDS
TTAAGAATGTTGCTTCTGTT+GGG 0.474138 1.1:+47805406 MS.gene051446:CDS
TGAAATGCATGGTGAACAAA+TGG 0.476075 1.1:+47805323 MS.gene051446:CDS
TTGTTGCAGAGATTTCTTGT+TGG 0.549368 1.1:+47805849 MS.gene051446:intron
ATTTCTTGTTGGATGTGGAC+TGG 0.559600 1.1:+47805860 MS.gene051446:CDS
GATGACCCAAGAAGTTGCTA+AGG 0.563749 1.1:+47805587 MS.gene051446:CDS
TGTTTCTAATGGAAATGAGA+AGG 0.609343 1.1:+47805383 MS.gene051446:CDS
ACAAGATGCCATAAGTGAGA+AGG 0.617051 1.1:+47806012 MS.gene051446:CDS
TATTAACAGTGATGCTGTCA+TGG 0.619416 1.1:+47805988 MS.gene051446:CDS
AACATCGGAAGTTCGAACTT+CGG 0.636114 1.1:-47805957 None:intergenic
AGACCATTTCCATTGCTCAG+AGG 0.659770 1.1:-47805301 None:intergenic
TGGAAATGGTCTGAAATGCA+TGG 0.668785 1.1:+47805312 MS.gene051446:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GTGTTTTAAGATTTTGAATT+TGG + chr1.1:47805777-47805796 MS.gene051446:intron 20.0%
! GATTATGTTCTTATGACAAT+TGG + chr1.1:47805462-47805481 MS.gene051446:CDS 25.0%
! GTTAATAGCAAAAACAACAT+CGG - chr1.1:47805975-47805994 None:intergenic 25.0%
!! AAAAGTTGTGATGTTTCTAA+TGG + chr1.1:47805372-47805391 MS.gene051446:CDS 25.0%
!!! TGGTTCTAATGCTAATAATT+TGG + chr1.1:47805560-47805579 MS.gene051446:CDS 25.0%
CTTATGACAATTGGAAGTTT+AGG + chr1.1:47805471-47805490 MS.gene051446:CDS 30.0%
! GCTGATCTTGTTAATTCTTT+TGG + chr1.1:47805540-47805559 MS.gene051446:CDS 30.0%
! TGTTTCTAATGGAAATGAGA+AGG + chr1.1:47805383-47805402 MS.gene051446:CDS 30.0%
! TTAAGAATGTTGCTTCTGTT+GGG + chr1.1:47805406-47805425 MS.gene051446:CDS 30.0%
!!! ACATCACAACTTTTGTTGTT+TGG - chr1.1:47805366-47805385 None:intergenic 30.0%
AGTTTAGGAGCTATTGTTCA+TGG + chr1.1:47805486-47805505 MS.gene051446:CDS 35.0%
CTATAAAAACCTCTGAGCAA+TGG + chr1.1:47805292-47805311 MS.gene051446:CDS 35.0%
GTAGTATGCTCTTTACTTTC+TGG + chr1.1:47805700-47805719 MS.gene051446:intron 35.0%
TAAGTATCTTGAAGCTGCTT+TGG + chr1.1:47805910-47805929 MS.gene051446:CDS 35.0%
TATTAACAGTGATGCTGTCA+TGG + chr1.1:47805988-47806007 MS.gene051446:CDS 35.0%
TCTTACCTTAGCAACTTCTT+GGG - chr1.1:47805595-47805614 None:intergenic 35.0%
TGAAATGCATGGTGAACAAA+TGG + chr1.1:47805323-47805342 MS.gene051446:CDS 35.0%
TGAATGTGATAAGAGTGGTT+TGG + chr1.1:47805824-47805843 MS.gene051446:intron 35.0%
TTCTTACCTTAGCAACTTCT+TGG - chr1.1:47805596-47805615 None:intergenic 35.0%
TTGTTGCAGAGATTTCTTGT+TGG + chr1.1:47805849-47805868 MS.gene051446:intron 35.0%
! GTTAAGAATGTTGCTTCTGT+TGG + chr1.1:47805405-47805424 MS.gene051446:CDS 35.0%
!! TTTCAGATTTGCTGATAGGT+TGG + chr1.1:47805440-47805459 MS.gene051446:CDS 35.0%
!!! AGCTTTTCAGATTTGCTGAT+AGG + chr1.1:47805436-47805455 MS.gene051446:CDS 35.0%
!!! GGCTTTGTTTGTGATTTTTG+AGG + chr1.1:47805798-47805817 MS.gene051446:intron 35.0%
AAACCTCTGAGCAATGGAAA+TGG + chr1.1:47805298-47805317 MS.gene051446:CDS 40.0%
AACATCGGAAGTTCGAACTT+CGG - chr1.1:47805960-47805979 None:intergenic 40.0%
ATTTCTTGTTGGATGTGGAC+TGG + chr1.1:47805860-47805879 MS.gene051446:CDS 40.0%
CAGAGATTTCTTGTTGGATG+TGG + chr1.1:47805855-47805874 MS.gene051446:intron 40.0%
GGTTGTGAATGTGATAAGAG+TGG + chr1.1:47805819-47805838 MS.gene051446:intron 40.0%
! GTTCTTTGCCACTGTTTCTT+CGG + chr1.1:47805511-47805530 MS.gene051446:CDS 40.0%
! TGCTATTTGGGCATCTTCAT+GGG + chr1.1:47805733-47805752 MS.gene051446:CDS 40.0%
! TGGAAATGGTCTGAAATGCA+TGG + chr1.1:47805312-47805331 MS.gene051446:CDS 40.0%
!! GCTCTTTACTTTCTGGTTGT+TGG + chr1.1:47805707-47805726 MS.gene051446:CDS 40.0%
AGACCATTTCCATTGCTCAG+AGG - chr1.1:47805304-47805323 None:intergenic 45.0%
GATGACCCAAGAAGTTGCTA+AGG + chr1.1:47805587-47805606 MS.gene051446:CDS 45.0%
GCGAAAAACCGAAGAAACAG+TGG - chr1.1:47805522-47805541 None:intergenic 45.0%
! CTGCTATTTGGGCATCTTCA+TGG + chr1.1:47805732-47805751 MS.gene051446:CDS 45.0%
!! GGTTGTTGGTGCTGCTATTT+GGG + chr1.1:47805721-47805740 MS.gene051446:CDS 45.0%
!! TGGTTGTTGGTGCTGCTATT+TGG + chr1.1:47805720-47805739 MS.gene051446:CDS 45.0%
ATTTGGGCATCTTCATGGGC+AGG + chr1.1:47805737-47805756 MS.gene051446:CDS 50.0%
GCATCTTCATGGGCAGGTGA+AGG + chr1.1:47805743-47805762 MS.gene051446:intron 55.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 47805270 47806033 47805270 ID=MS.gene051446
chr1.1 mRNA 47805270 47806033 47805270 ID=MS.gene051446.t1;Parent=MS.gene051446
chr1.1 exon 47805270 47805608 47805270 ID=MS.gene051446.t1.exon1;Parent=MS.gene051446.t1
chr1.1 CDS 47805270 47805608 47805270 ID=cds.MS.gene051446.t1;Parent=MS.gene051446.t1
chr1.1 exon 47805704 47805758 47805704 ID=MS.gene051446.t1.exon2;Parent=MS.gene051446.t1
chr1.1 CDS 47805704 47805758 47805704 ID=cds.MS.gene051446.t1;Parent=MS.gene051446.t1
chr1.1 exon 47805858 47806033 47805858 ID=MS.gene051446.t1.exon3;Parent=MS.gene051446.t1
chr1.1 CDS 47805858 47806033 47805858 ID=cds.MS.gene051446.t1;Parent=MS.gene051446.t1
Gene Sequence

>MS.gene051446

ATGTCACAAGATTCTGATGAAACTATAAAAACCTCTGAGCAATGGAAATGGTCTGAAATGCATGGTGAACAAATGGAAGAAGAAGCTTCATTACCAAACAACAAAAGTTGTGATGTTTCTAATGGAAATGAGAAGGTTAAGAATGTTGCTTCTGTTGGGTTTTGTGAGCTTTTCAGATTTGCTGATAGGTTGGATTATGTTCTTATGACAATTGGAAGTTTAGGAGCTATTGTTCATGGTTGTTCTTTGCCACTGTTTCTTCGGTTTTTCGCTGATCTTGTTAATTCTTTTGGTTCTAATGCTAATAATTTGGATAAGATGACCCAAGAAGTTGCTAAGGTAAGAAACTTATAATTGAGTTTAAAGTTTGATTTTTTATAGTGATTGTGTTATGAATGTGAAAATTTTAAAGTTTTTTGTTGTTCTTGTTGTAGTATGCTCTTTACTTTCTGGTTGTTGGTGCTGCTATTTGGGCATCTTCATGGGCAGGTGAAGGAAAAAAAACTTGTGTTTTAAGATTTTGAATTTGGCTTTGTTTGTGATTTTTGAGGTTGTGAATGTGATAAGAGTGGTTTGGTTTTGTTGCAGAGATTTCTTGTTGGATGTGGACTGGTGAGAGACAATCAACAAAGATGAGAATTAAGTATCTTGAAGCTGCTTTGGATCAAGATATTCAATTTTTTGATACCGAAGTTCGAACTTCCGATGTTGTTTTTGCTATTAACAGTGATGCTGTCATGGTACAAGATGCCATAAGTGAGAAG
Protein sequence

>MS.gene051446.t1

MSQDSDETIKTSEQWKWSEMHGEQMEEEASLPNNKSCDVSNGNEKVKNVASVGFCELFRFADRLDYVLMTIGSLGAIVHGCSLPLFLRFFADLVNSFGSNANNLDKMTQEVAKYALYFLVVGAAIWASSWAEISCWMWTGERQSTKMRIKYLEAALDQDIQFFDTEVRTSDVVFAINSDAVMVQDAISEK