AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024229

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024229 MtrunA17_Chr8g0387141 90.772 596 27 1 1 568 1 596 0.0 1107
MsaG024229 MtrunA17_Chr8g0387181 72.038 633 107 6 1 568 1 628 0.0 890
MsaG024229 MtrunA17_Chr1g0186261 65.747 616 123 7 1 562 1 582 0.0 773
MsaG024229 MtrunA17_Chr1g0186281 66.071 616 118 10 1 562 1 579 0.0 764
MsaG024229 MtrunA17_Chr1g0186191 69.340 561 107 6 26 562 70 589 0.0 756
MsaG024229 MtrunA17_Chr8g0387161 69.412 340 61 2 229 568 1 297 7.63e-163 465
MsaG024229 MtrunA17_Chr6g0479271 55.429 350 117 8 154 495 7 325 1.58e-104 318
MsaG024229 MtrunA17_Chr6g0479271 48.611 72 36 1 498 568 257 328 8.78e-14 72.8
MsaG024229 MtrunA17_Chr7g0248041 40.113 354 183 9 214 556 243 578 4.44e-70 236
MsaG024229 MtrunA17_Chr7g0248041 52.174 69 33 0 39 107 1 69 7.33e-14 74.3
MsaG024229 MtrunA17_Chr8g0348691 41.353 266 140 7 293 547 1 261 1.02e-54 186
MsaG024229 MtrunA17_Chr6g0453251 65.079 126 16 1 1 98 1 126 2.91e-44 153
MsaG024229 MtrunA17_Chr5g0420461 41.232 211 78 7 292 495 23 194 1.44e-32 124
MsaG024229 MtrunA17_Chr5g0420461 52.941 68 31 1 502 568 130 197 3.72e-15 74.3
MsaG024229 MtrunA17_Chr7g0241681 36.842 171 100 2 364 528 193 361 2.55e-26 110
MsaG024229 MtrunA17_Chr3g0086341 37.363 182 101 5 363 533 147 326 9.38e-24 105
MsaG024229 MtrunA17_Chr7g0241661 29.240 171 113 2 364 528 185 353 5.04e-17 82.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024229 AT4G11400.2 35.130 575 294 15 30 567 41 573 9.55e-93 296
MsaG024229 AT4G11400.1 35.130 575 294 15 30 567 41 573 9.55e-93 296
MsaG024229 AT2G46040.3 30.712 534 284 14 26 534 59 531 3.79e-65 223
MsaG024229 AT2G46040.1 30.712 534 284 14 26 534 59 531 3.79e-65 223
MsaG024229 AT2G46040.2 30.712 534 284 14 26 534 73 545 6.11e-65 222
MsaG024229 AT5G04110.1 36.420 162 91 4 364 514 360 520 7.71e-25 108
MsaG024229 AT5G04110.3 36.420 162 91 4 364 514 360 520 7.71e-25 108
MsaG024229 AT5G04110.2 36.420 162 91 4 364 514 361 521 7.75e-25 108
MsaG024229 AT1G13880.2 32.323 198 105 6 363 543 136 321 3.66e-19 90.9
MsaG024229 AT1G13880.1 32.323 198 105 6 363 543 126 311 3.87e-19 90.5
MsaG024229 AT1G13880.3 32.323 198 105 6 363 543 127 312 4.08e-19 90.5
MsaG024229 AT2G03470.1 33.854 192 106 6 363 540 121 305 7.01e-19 90.1
MsaG024229 AT1G26580.3 30.256 195 117 4 357 533 61 254 7.39e-19 89.7
MsaG024229 AT2G03470.2 33.854 192 106 6 363 540 120 304 7.56e-19 89.7
MsaG024229 AT1G26580.2 30.256 195 117 4 357 533 127 320 8.09e-19 90.1
MsaG024229 AT1G26580.1 30.256 195 117 4 357 533 127 320 8.09e-19 90.1
MsaG024229 AT5G04110.4 34.247 146 84 4 364 498 360 504 2.26e-17 85.5

Find 112 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCTTTGCATTTGTTATTT+TGG 0.080958 4:+97102546 None:intergenic
TCCTTCCACTTTGATATTTC+TGG 0.106336 4:+97102320 None:intergenic
CCTCTCAAAACAAGTCTTAT+TGG 0.170728 4:-97100312 MsaT024229.1:CDS
TCATTGGGGATTTGATAAAA+TGG 0.206237 4:-97100407 MsaT024229.1:CDS
CCTTTAGATTTGAGCATAAA+AGG 0.207974 4:+97102669 None:intergenic
GGGTTTGGACCTTCGTATTT+TGG 0.208670 4:-97102834 MsaT024229.1:CDS
TTCTCCCTTGTGAAGGAAAA+AGG 0.238936 4:-97102911 MsaT024229.1:CDS
TGATGAAGAAAAGAGATTTA+AGG 0.278264 4:-97100356 MsaT024229.1:CDS
CACTTTGATATTTCTGGTAA+TGG 0.311082 4:+97102326 None:intergenic
GATGATGACGAAGTGGAATT+TGG 0.312152 4:-97100166 MsaT024229.1:CDS
TCTATTCTCGCAAGCGTAAA+CGG 0.315046 4:-97102418 MsaT024229.1:CDS
AATGTGCTTTATGATGTTAT+TGG 0.332921 4:+97102616 None:intergenic
TGCCTTCCTTCGAAAGCATC+TGG 0.341525 4:+97100279 None:intergenic
AAATTTGAATCATCTTTAAC+AGG 0.348113 4:+97100568 None:intergenic
TTTCTGAGAGTGACTCTAAA+TGG 0.355739 4:-97100609 MsaT024229.1:CDS
TCATCCTGTTATCAGCAATA+TGG 0.363774 4:+97100461 None:intergenic
CGTAAACGGGAATCGTTATC+AGG 0.371287 4:-97102404 MsaT024229.1:CDS
AGCTATCAGGCATCCATCTA+TGG 0.376521 4:-97100116 MsaT024229.1:CDS
CGTGATAGATGAACTGGGTT+TGG 0.383597 4:-97102849 MsaT024229.1:CDS
GCATCCATCTATGGAATTCA+TGG 0.384589 4:-97100107 MsaT024229.1:CDS
CTACCGAAACAGATCTTGTT+GGG 0.389193 4:-97100543 MsaT024229.1:CDS
TCACGAAAATCATCCATAGA+TGG 0.391160 4:+97100691 None:intergenic
CTATTCTCGCAAGCGTAAAC+GGG 0.395033 4:-97102417 MsaT024229.1:CDS
CGTTATCAGGAATGGTAAAC+TGG 0.398665 4:-97102391 MsaT024229.1:CDS
GATTCCATATTGCTGATAAC+AGG 0.400946 4:-97100465 MsaT024229.1:CDS
CACTCCATGAATTCCATAGA+TGG 0.401034 4:+97100103 None:intergenic
CATTGGGGATTTGATAAAAT+GGG 0.401799 4:-97100406 MsaT024229.1:CDS
CAAGAGTGATGGTTATTTGT+TGG 0.407519 4:-97102579 MsaT024229.1:CDS
TTGGATGATGATCCACTGTT+TGG 0.409189 4:+97102221 None:intergenic
TTTCAGCTTTGAGGCAATCA+AGG 0.409525 4:+97103130 None:intergenic
GTTTCGGAAGGAAAGCTATC+AGG 0.412531 4:-97100129 MsaT024229.1:CDS
AGTCAAAAGTCCATGGCAAA+TGG 0.416618 4:-97103159 None:intergenic
TCAAAGTGGAAGGACTATAA+AGG 0.417244 4:-97102311 MsaT024229.1:CDS
TATGAGGATCCTGTTTCTCT+TGG 0.420235 4:-97100862 MsaT024229.1:CDS
TCTCCCAACAAGATCTGTTT+CGG 0.428135 4:+97100540 None:intergenic
CCTTGGTGACCAAGAGAAAC+AGG 0.429551 4:+97100853 None:intergenic
GGATTCCGTGATAGATGAAC+TGG 0.436747 4:-97102855 MsaT024229.1:CDS
GAAACTACACCAGTCCATTC+CGG 0.442162 4:+97100628 None:intergenic
TGATGTTATTGGATTCTAAC+GGG 0.445667 4:+97102627 None:intergenic
CGTGAAAAGGTTGTTTCTGT+AGG 0.454662 4:-97100673 MsaT024229.1:CDS
AAGAGATTTAAGGATGCAAT+GGG 0.459473 4:-97100346 MsaT024229.1:CDS
CCTATCTGTGTTAAATTGCA+TGG 0.464058 4:-97100799 MsaT024229.1:CDS
CGATATCGAGAAAAGGGTTG+TGG 0.469742 4:-97102877 MsaT024229.1:CDS
TCATCACTGTCAACAGCATT+CGG 0.478391 4:+97100184 None:intergenic
TGTCCTCTGGAGAAAACAAC+TGG 0.480314 4:-97100751 MsaT024229.1:CDS
ACTACCGAAACAGATCTTGT+TGG 0.480970 4:-97100544 MsaT024229.1:CDS
AAGTGTAACTGCAACGTTCA+AGG 0.486984 4:-97100505 MsaT024229.1:CDS
AAAGAGATTTAAGGATGCAA+TGG 0.490346 4:-97100347 MsaT024229.1:CDS
CTCTAAATGGTTAGGCACAC+AGG 0.491986 4:-97100596 MsaT024229.1:CDS
GAAATCAGAAAAGTGTCCTC+TGG 0.492152 4:-97100764 MsaT024229.1:CDS
GAGAGTGACTCTAAATGGTT+AGG 0.492462 4:-97100604 MsaT024229.1:CDS
ATCTGAGTGATTTCGAAGGT+TGG 0.494279 4:-97102784 MsaT024229.1:CDS
GTCAAAAGTCCATGGCAAAT+GGG 0.494855 4:-97103158 None:intergenic
TGACCATCACCAAGCATCAC+TGG 0.495504 4:+97102956 None:intergenic
TTCTCTTGGTCACCAAGGTA+CGG 0.509403 4:-97100848 MsaT024229.1:CDS
CCATGCAATTTAACACAGAT+AGG 0.515558 4:+97100799 None:intergenic
TATGATGCGATATCGAGAAA+AGG 0.516896 4:-97102884 MsaT024229.1:CDS
TCTGGTAATGGTTGAGCTAG+AGG 0.518129 4:+97102338 None:intergenic
GCGAGGAAGTTTCACTTCGA+TGG 0.518888 4:-97100384 MsaT024229.1:CDS
ATCCAGATGCTTTCGAAGGA+AGG 0.523376 4:-97100281 MsaT024229.1:CDS
CCTAAAGGAGAATTGTCGTA+AGG 0.524552 4:-97102996 MsaT024229.1:intron
GTGCCAGTGATGCTTGGTGA+TGG 0.525000 4:-97102959 MsaT024229.1:CDS
AGGCCTGTGCCAGTGATGCT+TGG 0.528369 4:-97102965 MsaT024229.1:CDS
ATGATGTTATTGGATTCTAA+CGG 0.530711 4:+97102626 None:intergenic
TTCCTTCGAAAGCATCTGGA+TGG 0.534860 4:+97100283 None:intergenic
GCGGAAGTTCCGGAATGGAC+TGG 0.543878 4:-97100637 MsaT024229.1:CDS
ACGGGAATCGTTATCAGGAA+TGG 0.552781 4:-97102399 MsaT024229.1:CDS
ATGATGCGATATCGAGAAAA+GGG 0.552818 4:-97102883 MsaT024229.1:CDS
GATCTAACCACCTCTTGTGC+GGG 0.554529 4:-97102458 MsaT024229.1:CDS
CAGGAATGGTAAACTGGACA+AGG 0.555866 4:-97102385 MsaT024229.1:CDS
GATATCGAGAAAAGGGTTGT+GGG 0.559208 4:-97102876 MsaT024229.1:CDS
CTCAGAAGTTCCCGCACAAG+AGG 0.559462 4:+97102448 None:intergenic
TACCATCACTGTTAACATTG+TGG 0.561470 4:+97102522 None:intergenic
GGGATTTGATAAAATGGGCG+AGG 0.561801 4:-97100401 MsaT024229.1:CDS
TCAATTATTCTCCCTTGTGA+AGG 0.566173 4:-97102918 MsaT024229.1:CDS
TTCAAGCGGAAGTTCCGGAA+TGG 0.568980 4:-97100642 MsaT024229.1:CDS
GATGCATCCTGCCATGTATG+AGG 0.570606 4:-97100878 MsaT024229.1:CDS
GTCTCAAATTCACCGTACCT+TGG 0.574995 4:+97100836 None:intergenic
TTTGTTAACCACAAGAGTGA+TGG 0.575780 4:-97102590 MsaT024229.1:CDS
ACAAATAACCATCACTCTTG+TGG 0.577854 4:+97102582 None:intergenic
AGAAGTTCCCGCACAAGAGG+TGG 0.578592 4:+97102451 None:intergenic
ACAGGATCCTCATACATGGC+AGG 0.578817 4:+97100871 None:intergenic
GTCCACAATGTTAACAGTGA+TGG 0.580577 4:-97102524 MsaT024229.1:CDS
GAAGGACTATAAAGGAAGCC+AGG 0.582738 4:-97102303 MsaT024229.1:CDS
AAGGAAGGCAAGAAAAGACT+TGG 0.584242 4:-97100266 MsaT024229.1:CDS
ACCAGAAATATCAAAGTGGA+AGG 0.584455 4:-97102321 MsaT024229.1:CDS
TTGTGCGGGAACTTCTGAGA+AGG 0.585357 4:-97102444 MsaT024229.1:CDS
CTAAAGGAGAATTGTCGTAA+GGG 0.586704 4:-97102995 MsaT024229.1:intron
TGAATTTGAGACGTAGTGAA+AGG 0.588336 4:-97100825 MsaT024229.1:CDS
TCACCAAGCATCACTGGCAC+AGG 0.590761 4:+97102962 None:intergenic
ATCCATCCAGATGCTTTCGA+AGG 0.594160 4:-97100285 MsaT024229.1:CDS
CCTGTTTCTCTTGGTCACCA+AGG 0.594833 4:-97100853 MsaT024229.1:CDS
CAAACCCAGTTCATCTATCA+CGG 0.597134 4:+97102850 None:intergenic
TGATCTAACCACCTCTTGTG+CGG 0.597404 4:-97102459 MsaT024229.1:CDS
AAGGAAAGACCCATTTGCCA+TGG 0.599382 4:+97103149 None:intergenic
TCTGAGTTTCATGGAAACAG+TGG 0.601503 4:-97103102 MsaT024229.1:CDS
AGAAACAGGATCCTCATACA+TGG 0.615960 4:+97100867 None:intergenic
AATGGTTAGGCACACAGGTG+TGG 0.617036 4:-97100591 MsaT024229.1:CDS
GAAACAGATCTTGTTGGGAG+AGG 0.634208 4:-97100538 MsaT024229.1:CDS
GAGGGCAAGAGACGTTCTGT+CGG 0.634898 4:-97102261 MsaT024229.1:CDS
CTTGTTGGGAGAGGAAGACG+AGG 0.636192 4:-97100529 MsaT024229.1:CDS
AAACAGTGGATCATCATCCA+AGG 0.637361 4:-97102219 MsaT024229.1:intron
AGGCAAGAAAAGACTTGGTG+AGG 0.649236 4:-97100261 MsaT024229.1:CDS
CATTACCAGAAATATCAAAG+TGG 0.652706 4:-97102325 MsaT024229.1:CDS
AAATATCTGAGTGATTTCGA+AGG 0.658560 4:-97102788 MsaT024229.1:CDS
TGACAGTGATGATGACGAAG+TGG 0.678639 4:-97100173 MsaT024229.1:CDS
GATTCCGTGATAGATGAACT+GGG 0.689292 4:-97102854 MsaT024229.1:CDS
TGTTAACAGTGATGGTAATG+CGG 0.698001 4:-97102516 MsaT024229.1:CDS
AAGCATGCAGAACCAAACAG+TGG 0.699934 4:-97102233 MsaT024229.1:CDS
TCACCGAAGCCAAAATACGA+AGG 0.707111 4:+97102825 None:intergenic
ATTGTCGTAAGGGCAATGTG+AGG 0.713978 4:-97102985 MsaT024229.1:CDS
TGATAACAGGATGAAGCTGA+AGG 0.716490 4:-97100452 MsaT024229.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 97100069 97103169 97100069 ID=MsaG024229
Chr4 mRNA 97100069 97103169 97100069 ID=MsaT024229.1;Parent=MsaG024229
Chr4 exon 97100069 97100908 97100069 ID=MsaT024229.1.exon3;Parent=MsaT024229.1
Chr4 CDS 97100069 97100908 97100069 ID=cds.MsaT024229.1;Parent=MsaT024229.1
Chr4 exon 97102220 97103011 97102220 ID=MsaT024229.1.exon2;Parent=MsaT024229.1
Chr4 CDS 97102220 97103011 97102220 ID=cds.MsaT024229.1;Parent=MsaT024229.1
Chr4 exon 97103095 97103169 97103095 ID=MsaT024229.1.exon1;Parent=MsaT024229.1
Chr4 CDS 97103095 97103169 97103095 ID=cds.MsaT024229.1;Parent=MsaT024229.1
Gene Sequence

>MsaT024229.1

ATGGCAAATGGGTCTTTCCTTGATTGCCTCAAAGCTGAAACTTTTTCTGAGTTTCATGGAAACAGTGGTTGTCTTGAGAATTGTCGTAAGGGCAATGTGAGGCCTGTGCCAGTGATGCTTGGTGATGGTCAATTGCTTGATTTATATCAATTATTCTCCCTTGTGAAGGAAAAAGGTGGGTATGATGCGATATCGAGAAAAGGGTTGTGGGATTCCGTGATAGATGAACTGGGTTTGGACCTTCGTATTTTGGCTTCGGTGAAATTAGTATATGAAAAATATCTGAGTGATTTCGAAGGTTGGCTTAGAAAAACATTTGAAGAGAAGAGTTGCAAAAATGGGAGTCATGGGTATTTGAATTCATTTCTGATAGATCTAGAAGAAGAGTTTCAAAGCCTTTTATGCTCAAATCTAAAGGACAAAGATGATGATTTTGTCCCGTTAGAATCCAATAACATCATAAAGCACATTGATTTTGTTAACCACAAGAGTGATGGTTATTTGTTGGACCCTAATTACCAAAATAACAAATGCAAAGCTGTCCACAATGTTAACAGTGATGGTAATGCGGATGATGATGAAAAATTCGGTACTGGTGTTAAGAATGATCTAACCACCTCTTGTGCGGGAACTTCTGAGAAGGAATTCTATTCTCGCAAGCGTAAACGGGAATCGTTATCAGGAATGGTAAACTGGACAAGGAATATCGCAAAACATCTGTTTGATCCTCTAGCTCAACCATTACCAGAAATATCAAAGTGGAAGGACTATAAAGGAAGCCAGGACTTCTTTTTTCAGATGCTGAGGGCAAGAGACGTTCTGTCGGTCAGAAAGCATGCAGAACCAAACAGTGGATCATCATCCAAGAAGGTGAAGATGCATCCTGCCATGTATGAGGATCCTGTTTCTCTTGGTCACCAAGGTACGGTGAATTTGAGACGTAGTGAAAGGCTTCCTATCTGTGTTAAATTGCATGGTCCAGTCAAGATGAAATCAGAAAAGTGTCCTCTGGAGAAAACAACTGGCAAACCAGATGTCGTGATCAAAAAGAAAAAATCTGAGCCATCTATGGATGATTTTCGTGAAAAGGTTGTTTCTGTAGGCAACTTTTTTCAAGCGGAAGTTCCGGAATGGACTGGTGTAGTTTCTGAGAGTGACTCTAAATGGTTAGGCACACAGGTGTGGCCTGTTAAAGATGATTCAAATTTTACTACCGAAACAGATCTTGTTGGGAGAGGAAGACGAGGAAAGTGTAACTGCAACGTTCAAGGTTCTGTTGACTGTGTCAGATTCCATATTGCTGATAACAGGATGAAGCTGAAGGTTGAATTGCGTTCTGTGTTTTATCATTGGGGATTTGATAAAATGGGCGAGGAAGTTTCACTTCGATGGACAGCTGATGAAGAAAAGAGATTTAAGGATGCAATGGGTTTAAAAATCCCCTCTCAAAACAAGTCTTATTGGAACAATCCATCCAGATGCTTTCGAAGGAAGGCAAGAAAAGACTTGGTGAGGTATTACTTCAATGTATATCTTATTCAACTAAGAAGCTATCAGAGTCGAGTGACTCCGAATGCTGTTGACAGTGATGATGACGAAGTGGAATTTGGATCTTTTGATGATGGTTTCGGAAGGAAAGCTATCAGGCATCCATCTATGGAATTCATGGAGTGTACAGAGAACAAGCAATGCTTTGATTTTGAGTAG
Protein sequence

>MsaT024229.1

MANGSFLDCLKAETFSEFHGNSGCLENCRKGNVRPVPVMLGDGQLLDLYQLFSLVKEKGGYDAISRKGLWDSVIDELGLDLRILASVKLVYEKYLSDFEGWLRKTFEEKSCKNGSHGYLNSFLIDLEEEFQSLLCSNLKDKDDDFVPLESNNIIKHIDFVNHKSDGYLLDPNYQNNKCKAVHNVNSDGNADDDEKFGTGVKNDLTTSCAGTSEKEFYSRKRKRESLSGMVNWTRNIAKHLFDPLAQPLPEISKWKDYKGSQDFFFQMLRARDVLSVRKHAEPNSGSSSKKVKMHPAMYEDPVSLGHQGTVNLRRSERLPICVKLHGPVKMKSEKCPLEKTTGKPDVVIKKKKSEPSMDDFREKVVSVGNFFQAEVPEWTGVVSESDSKWLGTQVWPVKDDSNFTTETDLVGRGRRGKCNCNVQGSVDCVRFHIADNRMKLKVELRSVFYHWGFDKMGEEVSLRWTADEEKRFKDAMGLKIPSQNKSYWNNPSRCFRRKARKDLVRYYFNVYLIQLRSYQSRVTPNAVDSDDDEVEFGSFDDGFGRKAIRHPSMEFMECTENKQCFDFE*