AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0634450


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0634450 MtrunA17_Chr8g0353571 99.454 183 1 0 31 213 3 185 2.13e-136 379
Msa0634450 MtrunA17_Chr4g0038431 58.480 171 67 3 45 213 3 171 1.61e-66 202
Msa0634450 MtrunA17_Chr7g0274841 59.064 171 66 3 45 213 3 171 1.38e-65 200
Msa0634450 MtrunA17_Chr3g0145501 58.333 168 66 3 48 213 14 179 2.88e-64 197
Msa0634450 MtrunA17_Chr1g0193711 57.485 167 64 3 48 213 87 247 3.82e-61 191
Msa0634450 MtrunA17_Chr7g0270991 56.364 165 66 2 49 213 99 257 4.33e-61 191
Msa0634450 MtrunA17_Chr3g0104751 56.548 168 69 3 48 213 36 201 1.31e-59 186
Msa0634450 MtrunA17_Chr3g0113441 56.548 168 69 3 48 213 66 231 4.92e-59 185
Msa0634450 MtrunA17_Chr8g0374621 55.814 172 72 2 45 213 3 173 9.36e-59 188
Msa0634450 MtrunA17_Chr1g0213971 55.621 169 66 3 48 213 79 241 6.79e-58 182
Msa0634450 MtrunA17_Chr4g0045321 54.762 168 72 2 49 213 7 173 1.63e-57 185
Msa0634450 MtrunA17_Chr7g0260441 53.757 173 75 3 44 213 5 175 7.83e-55 184
Msa0634450 MtrunA17_Chr4g0037281 47.337 169 85 3 48 213 48 215 1.25e-46 153
Msa0634450 MtrunA17_Chr3g0138061 46.512 172 87 3 44 212 8 177 7.46e-40 144
Msa0634450 MtrunA17_Chr7g0266721 47.552 143 64 4 60 201 19 151 2.31e-37 127
Msa0634450 MtrunA17_Chr2g0321111 48.322 149 66 4 54 201 465 603 6.48e-35 130
Msa0634450 MtrunA17_Chr1g0149061 42.442 172 93 4 44 212 5 173 1.04e-33 127
Msa0634450 MtrunA17_Chr8g0351571 48.951 143 62 4 60 201 10 142 5.88e-33 116
Msa0634450 MtrunA17_Chr5g0401141 45.455 143 67 4 60 201 354 486 1.02e-27 109
Msa0634450 MtrunA17_Chr2g0288371 44.444 144 69 4 60 201 22 156 1.31e-27 108
Msa0634450 MtrunA17_Chr6g0484281 33.775 151 81 5 60 201 10 150 2.91e-16 76.6
Msa0634450 MtrunA17_Chr8g0357591 33.113 151 82 5 60 201 10 150 5.93e-15 72.8
Msa0634450 MtrunA17_Chr3g0122871 61.111 54 20 1 138 191 57 109 1.27e-14 67.8
Msa0634450 MtrunA17_Chr1g0199071 33.333 156 87 7 56 210 85 224 4.81e-13 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0634450 AT2G38730.1 87.368 190 24 0 24 213 10 199 1.38e-124 350
Msa0634450 AT3G62030.1 50.237 211 86 4 3 213 65 256 1.04e-67 209
Msa0634450 AT3G62030.3 50.237 211 85 4 3 213 65 255 1.57e-67 208
Msa0634450 AT2G21130.1 59.064 171 66 3 45 213 4 172 1.95e-67 205
Msa0634450 AT3G62030.2 50.000 212 87 4 2 213 117 309 2.10e-66 207
Msa0634450 AT3G56070.1 59.064 171 66 3 45 213 3 171 3.79e-66 202
Msa0634450 AT3G56070.2 59.064 171 66 3 45 213 3 171 3.79e-66 202
Msa0634450 AT2G16600.1 59.064 171 66 3 45 213 4 172 6.01e-65 198
Msa0634450 AT4G38740.1 57.059 170 69 3 46 213 4 171 1.26e-63 195
Msa0634450 AT4G34870.1 56.725 171 70 3 45 213 3 171 2.13e-61 189
Msa0634450 AT3G55920.1 57.396 169 66 4 48 213 61 226 9.19e-60 187
Msa0634450 AT2G29960.1 56.805 169 67 4 48 213 34 199 7.37e-59 184
Msa0634450 AT2G29960.3 56.805 169 67 4 48 213 34 199 7.37e-59 184
Msa0634450 AT5G13120.2 53.846 169 69 3 48 213 88 250 1.94e-58 185
Msa0634450 AT5G13120.1 53.846 169 69 3 48 213 92 254 2.03e-58 185
Msa0634450 AT2G15790.1 57.738 168 67 2 49 213 7 173 4.15e-58 187
Msa0634450 AT3G63400.2 55.233 172 72 3 44 212 5 174 1.84e-57 186
Msa0634450 AT3G63400.3 54.913 173 73 3 44 213 5 175 9.10e-56 186
Msa0634450 AT3G63400.4 54.913 173 73 3 44 213 5 175 9.10e-56 186
Msa0634450 AT3G63400.1 54.913 173 73 3 44 213 5 175 9.10e-56 186
Msa0634450 AT5G58710.1 53.571 168 74 3 48 213 37 202 3.93e-55 174
Msa0634450 AT2G16600.2 52.663 169 58 4 45 213 4 150 7.90e-52 164
Msa0634450 AT2G29960.2 52.071 169 65 5 48 213 34 189 1.21e-49 160
Msa0634450 AT4G34960.1 47.619 168 85 2 48 213 49 215 1.32e-48 159
Msa0634450 AT4G34960.2 51.220 123 58 1 48 168 49 171 3.39e-39 133
Msa0634450 AT3G44600.1 49.664 149 64 4 54 201 479 617 9.15e-36 133
Msa0634450 AT1G01940.1 50.350 143 60 4 60 201 10 142 4.33e-35 122
Msa0634450 AT3G22920.1 44.828 174 82 7 45 213 3 167 4.25e-34 122
Msa0634450 AT4G32420.1 42.442 172 94 3 44 212 5 174 1.26e-33 127
Msa0634450 AT4G32420.5 42.442 172 94 3 44 212 5 174 1.26e-33 127
Msa0634450 AT4G32420.3 42.442 172 94 3 44 212 5 174 1.26e-33 127
Msa0634450 AT4G32420.6 42.442 172 94 3 44 212 5 174 1.26e-33 127
Msa0634450 AT2G36130.1 45.455 143 67 4 60 201 19 151 2.60e-33 117
Msa0634450 AT4G32420.4 44.156 154 82 2 44 194 5 157 1.61e-31 121
Msa0634450 AT5G67530.1 42.442 172 82 6 42 211 339 495 1.60e-28 112
Msa0634450 AT4G33060.1 42.000 150 76 4 54 201 16 156 1.62e-28 112
Msa0634450 AT1G53720.2 35.762 151 78 5 60 201 10 150 5.77e-20 87.0
Msa0634450 AT1G53720.1 35.762 151 78 5 60 201 10 150 2.77e-19 85.9
Msa0634450 AT2G47320.1 33.566 143 82 4 60 202 87 216 1.09e-14 70.9

Find 60 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCATCACAAATGGATGATTT+TGG 0.153872 4_3:+21671482 None:intergenic
TCAATTTCATAGAGTGATTA+AGG 0.210280 4_3:-21676619 Msa0634450:CDS
GCAATGACACAAGCTAATTT+TGG 0.220781 4_3:+21671729 None:intergenic
ACCTGACAACCATTGGTATT+TGG 0.224731 4_3:+21674453 None:intergenic
CCAAAACCGCTGAAAATTTC+AGG 0.235590 4_3:-21678479 Msa0634450:intron
GCTTCAGTTCAATGTGATTC+TGG 0.289468 4_3:-21671417 Msa0634450:three_prime_UTR
TCTAATTGAATAATCGTGTT+TGG 0.294537 4_3:-21671530 Msa0634450:three_prime_UTR
TTGATTGAATCCCATAGATA+TGG 0.295047 4_3:-21671641 Msa0634450:three_prime_UTR
AGTGGATGTGCTTCCATCTA+TGG 0.315322 4_3:-21674943 Msa0634450:CDS
GTAGAGAAAGCCCATATCTA+TGG 0.317743 4_3:+21671630 None:intergenic
CTAATTGAATAATCGTGTTT+GGG 0.335828 4_3:-21671529 Msa0634450:three_prime_UTR
ACCCGCCGGTAGAATCAAAA+TGG 0.339305 4_3:-21678523 Msa0634450:CDS
ATCAAACTTTAGTCCATAGA+TGG 0.392430 4_3:+21674930 None:intergenic
TGATGATGAAATTTGTATTC+CGG 0.393407 4_3:-21671465 Msa0634450:three_prime_UTR
ACCAAATACCAATGGTTGTC+AGG 0.403219 4_3:-21674454 Msa0634450:intron
TGCTTTATGCAGAGAGTGCT+TGG 0.404187 4_3:-21671810 Msa0634450:intron
AAGACCAGGTCCAGTGTGTT+TGG 0.411418 4_3:+21674891 None:intergenic
GAGCGAGCGATGGCAGGTTC+AGG 0.416191 4_3:-21678630 Msa0634450:CDS
ACAAATTTCATCATCACAAA+TGG 0.420851 4_3:+21671472 None:intergenic
AGTGCTTGGAGATGGTCTTT+TGG 0.427613 4_3:-21671796 Msa0634450:CDS
TAAAATTACCTGACAACCAT+TGG 0.430990 4_3:+21674446 None:intergenic
AGGAAAGCAGGTCTTCCTAT+TGG 0.431006 4_3:-21676654 Msa0634450:CDS
TTGCAACTGGACCCAATAAC+CGG 0.433661 4_3:-21671752 Msa0634450:CDS
AAGATTGAGAATGTTGCAAC+TGG 0.452890 4_3:-21671765 Msa0634450:CDS
TGATTGAATCCCATAGATAT+GGG 0.459937 4_3:-21671640 Msa0634450:three_prime_UTR
TGACAACCCTTGTAACCAAT+AGG 0.472137 4_3:+21676639 None:intergenic
AGGTCTTCCTATTGGTTACA+AGG 0.483610 4_3:-21676646 Msa0634450:CDS
CCTTGGCAGGGTGATGGTAG+TGG 0.487766 4_3:-21674961 Msa0634450:intron
ATTCTTCCTTGGCAGGGTGA+TGG 0.505151 4_3:-21674967 Msa0634450:intron
GCAAGTGAGCGAGCGATGGC+AGG 0.507741 4_3:-21678636 Msa0634450:CDS
TAACTTGTGCAAAATGCGAC+TGG 0.510786 4_3:-21674341 Msa0634450:CDS
GTGACATCGAAGAAGACGAT+TGG 0.517924 4_3:+21678558 None:intergenic
ACTGCCAAACACACTGGACC+TGG 0.521628 4_3:-21674895 Msa0634450:CDS
ATGCAGAGAGTGCTTGGAGA+TGG 0.523668 4_3:-21671804 Msa0634450:intron
AGATATGGGCTTTCTCTACA+AGG 0.524038 4_3:-21671626 Msa0634450:three_prime_UTR
CATACCATTGATAGAAGACC+AGG 0.531240 4_3:+21674877 None:intergenic
TGACATCGAAGAAGACGATT+GGG 0.534415 4_3:+21678559 None:intergenic
TGGACCTGGTCTTCTATCAA+TGG 0.534457 4_3:-21674881 Msa0634450:intron
GTCTTCTTCGATGTCACCAT+CGG 0.535520 4_3:-21678552 Msa0634450:CDS
ACTTGGTCTACATATGCATC+CGG 0.544259 4_3:+21671446 None:intergenic
CGTTGCAAGTGAGCGAGCGA+TGG 0.547795 4_3:-21678640 Msa0634450:CDS
GCAGGTTCAGGTAACGGAGG+AGG 0.556694 4_3:-21678618 Msa0634450:CDS
TAGAGAAAGCCCATATCTAT+GGG 0.559860 4_3:+21671631 None:intergenic
AATGTGATTCTGGAGAAGTA+TGG 0.571579 4_3:-21671407 Msa0634450:three_prime_UTR
TGAACTGAAGCATCTCCACT+TGG 0.572218 4_3:+21671429 None:intergenic
TTCAGGTAACGGAGGAGGTG+TGG 0.574061 4_3:-21678613 Msa0634450:CDS
TCAGGCTGGTGATTATGTAA+AGG 0.581630 4_3:-21676586 Msa0634450:intron
GCGATGGCAGGTTCAGGTAA+CGG 0.581846 4_3:-21678624 Msa0634450:CDS
GGTCTTCCTATTGGTTACAA+GGG 0.599667 4_3:-21676645 Msa0634450:CDS
GCTTGTGTCATTGCTGAATG+TGG 0.608601 4_3:-21671720 Msa0634450:CDS
TCTAATCTGCAGGCAAATAG+CGG 0.617344 4_3:-21674477 Msa0634450:intron
TGGAGAAGTATGGAGTTACA+AGG 0.634326 4_3:-21671397 Msa0634450:three_prime_UTR
TTTGCAGGCAGTTCTGCACG+GGG 0.659897 4_3:-21677818 Msa0634450:intron
AATAGCGGACCAAATACCAA+TGG 0.664602 4_3:-21674462 Msa0634450:CDS
ACCATCGGTAATATACCCGC+CGG 0.666888 4_3:-21678537 Msa0634450:CDS
GTAACGGAGGAGGTGTGGAG+TGG 0.669417 4_3:-21678608 Msa0634450:CDS
ACCGGCGGGTATATTACCGA+TGG 0.671201 4_3:+21678536 None:intergenic
GGATGCATATGTAGACCAAG+TGG 0.682312 4_3:-21671444 Msa0634450:three_prime_UTR
ATGGCAGGTTCAGGTAACGG+AGG 0.714308 4_3:-21678621 Msa0634450:CDS
TTGCAGGCAGTTCTGCACGG+GGG 0.717888 4_3:-21677817 Msa0634450:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAATACTGATAATTTTGTCA+CGG - chr4_3:21678501-21678520 Msa0634450:CDS 20.0%
!!! TCAATCAATTTTGAGAACTA+TGG + chr4_3:21678418-21678437 None:intergenic 25.0%
!! TCTACAAGGATATTTCTTTT+TGG - chr4_3:21678459-21678478 Msa0634450:intron 25.0%
! TCTAATTGAATAATCGTGTT+TGG - chr4_3:21678541-21678560 Msa0634450:CDS 25.0%
! CTAATTGAATAATCGTGTTT+GGG - chr4_3:21678542-21678561 Msa0634450:CDS 25.0%
! ACAAATTTCATCATCACAAA+TGG + chr4_3:21678602-21678621 None:intergenic 25.0%
!! TGATGATGAAATTTGTATTC+CGG - chr4_3:21678606-21678625 Msa0634450:CDS 25.0%
TTGATTGAATCCCATAGATA+TGG - chr4_3:21678430-21678449 Msa0634450:intron 30.0%
TGATTGAATCCCATAGATAT+GGG - chr4_3:21678431-21678450 Msa0634450:intron 30.0%
! ATGGATGATTTTGGACAAAA+AGG + chr4_3:21678583-21678602 None:intergenic 30.0%
! TCATCACAAATGGATGATTT+TGG + chr4_3:21678592-21678611 None:intergenic 30.0%
! TACAAGGCTAGACATTTTAT+TGG - chr4_3:21678690-21678709 Msa0634450:CDS 30.0%
! ACAAGGCTAGACATTTTATT+GGG - chr4_3:21678691-21678710 Msa0634450:CDS 30.0%
! GCAATGACACAAGCTAATTT+TGG + chr4_3:21678345-21678364 None:intergenic 35.0%
TAGAGAAAGCCCATATCTAT+GGG + chr4_3:21678443-21678462 None:intergenic 35.0%
! AATGTGATTCTGGAGAAGTA+TGG - chr4_3:21678664-21678683 Msa0634450:CDS 35.0%
! CAAGGCTAGACATTTTATTG+GGG - chr4_3:21678692-21678711 Msa0634450:CDS 35.0%
!! GCTAATTTTGGCCGGTTATT+GGG + chr4_3:21678333-21678352 None:intergenic 40.0%
!! AGCTAATTTTGGCCGGTTAT+TGG + chr4_3:21678334-21678353 None:intergenic 40.0%
!! TGACACAAGCTAATTTTGGC+CGG + chr4_3:21678341-21678360 None:intergenic 40.0%
GTAGAGAAAGCCCATATCTA+TGG + chr4_3:21678444-21678463 None:intergenic 40.0%
AGATATGGGCTTTCTCTACA+AGG - chr4_3:21678445-21678464 Msa0634450:intron 40.0%
ACTTGGTCTACATATGCATC+CGG + chr4_3:21678628-21678647 None:intergenic 40.0%
GCTTCAGTTCAATGTGATTC+TGG - chr4_3:21678654-21678673 Msa0634450:CDS 40.0%
! TGGAGAAGTATGGAGTTACA+AGG - chr4_3:21678674-21678693 Msa0634450:CDS 40.0%
TTGCAACTGGACCCAATAAC+CGG - chr4_3:21678319-21678338 Msa0634450:intron 45.0%
! GCTTGTGTCATTGCTGAATG+TGG - chr4_3:21678351-21678370 Msa0634450:intron 45.0%
GGATGCATATGTAGACCAAG+TGG - chr4_3:21678627-21678646 Msa0634450:CDS 45.0%
! TGAACTGAAGCATCTCCACT+TGG + chr4_3:21678645-21678664 None:intergenic 45.0%
CGTTGCAAGTGAGCGAGCGA+TGG - chr4_3:21671431-21671450 Msa0634450:three_prime_UTR 60.0%
GCAAGTGAGCGAGCGATGGC+AGG - chr4_3:21671435-21671454 Msa0634450:three_prime_UTR 65.0%
Chromosome Type Strat End Strand Name
chr4_3 gene 21671378 21678715 21671378 ID=Msa0634450;Name=Msa0634450
chr4_3 mRNA 21671378 21678715 21671378 ID=Msa0634450-mRNA-1;Parent=Msa0634450;Name=Msa0634450-mRNA-1;_AED=0.09;_eAED=0.09;_QI=0|1|0.85|1|1|1|7|332|213
chr4_3 exon 21671378 21671820 21671378 ID=Msa0634450-mRNA-1:exon:5605;Parent=Msa0634450-mRNA-1
chr4_3 exon 21674314 21674370 21674314 ID=Msa0634450-mRNA-1:exon:5604;Parent=Msa0634450-mRNA-1
chr4_3 exon 21674455 21674487 21674455 ID=Msa0634450-mRNA-1:exon:5603;Parent=Msa0634450-mRNA-1
chr4_3 exon 21674882 21674974 21674882 ID=Msa0634450-mRNA-1:exon:5602;Parent=Msa0634450-mRNA-1
chr4_3 exon 21676587 21676674 21676587 ID=Msa0634450-mRNA-1:exon:5601;Parent=Msa0634450-mRNA-1
chr4_3 exon 21677810 21677833 21677810 ID=Msa0634450-mRNA-1:exon:5600;Parent=Msa0634450-mRNA-1
chr4_3 exon 21678480 21678715 21678480 ID=Msa0634450-mRNA-1:exon:5599;Parent=Msa0634450-mRNA-1
chr4_3 CDS 21678480 21678715 21678480 ID=Msa0634450-mRNA-1:cds;Parent=Msa0634450-mRNA-1
chr4_3 CDS 21677810 21677833 21677810 ID=Msa0634450-mRNA-1:cds;Parent=Msa0634450-mRNA-1
chr4_3 CDS 21676587 21676674 21676587 ID=Msa0634450-mRNA-1:cds;Parent=Msa0634450-mRNA-1
chr4_3 CDS 21674882 21674974 21674882 ID=Msa0634450-mRNA-1:cds;Parent=Msa0634450-mRNA-1
chr4_3 CDS 21674455 21674487 21674455 ID=Msa0634450-mRNA-1:cds;Parent=Msa0634450-mRNA-1
chr4_3 CDS 21674314 21674370 21674314 ID=Msa0634450-mRNA-1:cds;Parent=Msa0634450-mRNA-1
chr4_3 CDS 21671710 21671820 21671710 ID=Msa0634450-mRNA-1:cds;Parent=Msa0634450-mRNA-1
chr4_3 three_prime_UTR 21671378 21671709 21671378 ID=Msa0634450-mRNA-1:three_prime_utr;Parent=Msa0634450-mRNA-1
Gene Sequence

>Msa0634450

ATTTGTTTTAGTGAAGTTAGAAGAAGAAGAACATTGTGCTGCGTTTTGCGTTGCGTTGCAAGTGAGCGAGCGATGGCAGGTTCAGGTAACGGAGGAGGTGTGGAGTGGCACGTGCGTCCTCCAAACCCTAAAAACCCAATCGTCTTCTTCGATGTCACCATCGGTAATATACCCGCCGGTAGAATCAAAATGGAACTCTTCGCTGATATCGCTCCCAAAACCGCTGAAAATTTCAGGCAGTTCTGCACGGGGGAGTACAGGAAAGCAGGTCTTCCTATTGGTTACAAGGGTTGTCAATTTCATAGAGTGATTAAGGATTTTATGATTCAGGCTGGTGATTATGTAAAGGGTGATGGTAGTGGATGTGCTTCCATCTATGGACTAAAGTTTGATGATGAAAATTTTACTGCCAAACACACTGGACCTGGTCTTCTATCAATGGCAAATAGCGGACCAAATACCAATGGTTGTCAGTTCTTTATAACTTGTGCAAAATGCGACTGGCTTGACAACAAGCATGTTGTTTTCGGGAGAGTGCTTGGAGATGGTCTTTTGGTAGTGAGGAAGATTGAGAATGTTGCAACTGGACCCAATAACCGGCCAAAATTAGCTTGTGTCATTGCTGAATGTGGTGAAATGTAA

Protein sequence

>Msa0634450

ICFSEVRRRRTLCCVLRCVASERAMAGSGNGGGVEWHVRPPNPKNPIVFFDVTIGNIPAGRIKMELFADIAPKTAENFRQFCTGEYRKAGLPIGYKGCQFHRVIKDFMIQAGDYVKGDGSGCASIYGLKFDDENFTAKHTGPGLLSMANSGPNTNGCQFFITCAKCDWLDNKHVVFGRVLGDGLLVVRKIENVATGPNNRPKLACVIAECGEM*