AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040862

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040862 MtrunA17_Chr7g0275321 95.529 425 15 1 1 421 1 425 0.0 830
MsaG040862 MtrunA17_Chr8g0347741 69.159 428 117 7 1 420 1 421 0.0 573
MsaG040862 MtrunA17_Chr5g0410531 38.860 386 187 16 1 348 1 375 1.11e-61 204
MsaG040862 MtrunA17_Chr8g0369161 36.815 383 198 14 1 348 1 374 8.60e-58 194
MsaG040862 MtrunA17_Chr8g0373571 36.637 333 162 10 32 349 30 328 3.78e-44 157
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040862 AT2G46270.1 53.935 432 138 14 1 421 1 382 1.52e-133 389
MsaG040862 AT2G46270.3 53.935 432 138 14 1 421 1 382 1.52e-133 389
MsaG040862 AT2G46270.2 51.756 427 132 13 1 421 1 359 1.93e-122 360
MsaG040862 AT2G46270.4 51.756 427 132 13 1 421 1 359 1.93e-122 360
MsaG040862 AT4G01120.1 44.731 427 161 14 1 420 1 359 9.97e-87 268
MsaG040862 AT2G35530.1 38.736 364 177 13 33 367 42 388 2.29e-53 183
MsaG040862 AT1G32150.1 38.381 383 186 16 1 351 1 365 4.82e-50 174
MsaG040862 AT4G36730.1 36.080 352 160 12 1 349 1 290 1.34e-45 160
MsaG040862 AT4G36730.2 35.511 352 160 12 1 349 1 288 1.68e-44 157

Find 124 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAGTATTTCCAGATGATT+TGG 0.227999 7:-104666964 None:intergenic
TGCAACTTCGCACCAGAATT+TGG 0.240869 7:-104668821 None:intergenic
GGAGGTGTCTCTATGCTTAA+AGG 0.248730 7:-104666942 None:intergenic
CTATATCTTCAGGCATATTA+TGG 0.258289 7:+104666310 MsaT040862.1:intron
GATGGAAAATGTTGCATTAA+AGG 0.262914 7:+104668551 MsaT040862.1:CDS
ATCAGAAACTGAGATTTCTT+TGG 0.279786 7:-104667864 None:intergenic
ATCAAGAGTTAATAATAATT+CGG 0.281960 7:+104668760 MsaT040862.1:CDS
AAAATTTAAAATTGCTCAAC+TGG 0.296427 7:+104668664 MsaT040862.1:CDS
GGAAGTGACGGCAACACTTC+AGG 0.299939 7:+104667256 MsaT040862.1:CDS
TGTGACAACAAACCAAATTC+TGG 0.315200 7:+104668809 MsaT040862.1:CDS
TTGGTCAAAATTATCTCTTT+TGG 0.325531 7:-104668692 None:intergenic
TACTTACAGGTGCGGTCCTC+TGG 0.332601 7:-104668724 None:intergenic
CAGCATATGATGCCACCTTA+TGG 0.338444 7:+104666509 MsaT040862.1:intron
CAGTCTTGGTAGATTTCTCT+TGG 0.342025 7:-104665828 None:intergenic
GTAGAGCTCACCACTGTTAC+AGG 0.347150 7:-104665865 None:intergenic
AAGAAATTGAAAGGGTTTGA+TGG 0.347852 7:+104666999 MsaT040862.1:CDS
TACAACTCACCTGTGGCTTC+TGG 0.358055 7:+104666358 MsaT040862.1:CDS
TCAAGAGTTAATAATAATTC+GGG 0.358553 7:+104668761 MsaT040862.1:CDS
TCAGGCTGAGGCCGAAGAAC+TGG 0.370336 7:+104668443 MsaT040862.1:intron
ACCTGCATGGCTGCCCAATC+AGG 0.376559 7:-104666003 None:intergenic
GGCAATGCAGCAGAAGGTTG+TGG 0.378841 7:-104668019 None:intergenic
GATGGACTTGCAATGTCAAT+AGG 0.380086 7:+104667017 MsaT040862.1:CDS
GTTGCCCCTGCTGGTGTCAC+AGG 0.389453 7:+104667899 MsaT040862.1:CDS
GATTGCCTGCTTTCAGCTCC+AGG 0.391527 7:-104667065 None:intergenic
GGAACTGTGGAGGATGAAAA+TGG 0.395483 7:+104668782 MsaT040862.1:CDS
TCATACCTGCTTCCTTAGTC+TGG 0.402601 7:-104668268 None:intergenic
AGAGCTGATGCTGTGGCTGC+TGG 0.414627 7:+104668866 MsaT040862.1:CDS
TCCTGATTGGGCAGCCATGC+AGG 0.414803 7:+104666002 MsaT040862.1:CDS
CATGCTGAGAGTGCTGAGCC+TGG 0.423095 7:+104667047 MsaT040862.1:CDS
TGATGCACTCTCAGCATTCA+AGG 0.423689 7:-104668481 None:intergenic
TGCGAAGTTGCACCAACTAT+TGG 0.423928 7:+104668832 MsaT040862.1:CDS
ATCATCTGGAAATACTGATC+AGG 0.424963 7:+104666968 MsaT040862.1:CDS
TCAGTATTTCCAGATGATTT+GGG 0.427807 7:-104666963 None:intergenic
CTGCATTGCCTCCCGAGGCT+TGG 0.430381 7:+104668032 MsaT040862.1:CDS
ATGTTCATGTCTATCCTGAT+TGG 0.430637 7:+104665989 MsaT040862.1:CDS
GCCTCCCGAGGCTTGGATAC+AGG 0.438943 7:+104668039 MsaT040862.1:CDS
GAGACACCTCCCAAATCATC+TGG 0.441148 7:+104666954 MsaT040862.1:CDS
AATTGACCTGTGACACCAGC+AGG 0.458083 7:-104667905 None:intergenic
GAAGGTTGTGGGGCACTTGT+GGG 0.461347 7:-104668007 None:intergenic
CTGAGCCTGGAGCTGAAAGC+AGG 0.472797 7:+104667060 MsaT040862.1:CDS
AGAAGGTTGTGGGGCACTTG+TGG 0.474517 7:-104668008 None:intergenic
GAAGTGACGGCAACACTTCA+GGG 0.493985 7:+104667257 MsaT040862.1:CDS
GCAATGCAGCAGAAGGTTGT+GGG 0.494500 7:-104668018 None:intergenic
TGTTCATGTCTATCCTGATT+GGG 0.502463 7:+104665990 MsaT040862.1:CDS
GAAATCTGAAAGACTGAGGA+TGG 0.502476 7:+104668533 MsaT040862.1:CDS
GTCTGATGAAGAAATTGAAA+GGG 0.504608 7:+104666991 MsaT040862.1:CDS
TTCTGCTGCATTGCCTCCCG+AGG 0.504802 7:+104668027 MsaT040862.1:CDS
CACTCCTCACCCATATATGT+GGG 0.507261 7:+104666384 MsaT040862.1:CDS
CTCAGTTTCTGATAAGATGA+TGG 0.512164 7:+104667874 MsaT040862.1:CDS
TTCAGCGATGACCACCGCGC+TGG 0.513035 7:+104667946 MsaT040862.1:CDS
GCCACAGGTGAGTTGTAGTA+AGG 0.513412 7:-104666352 None:intergenic
CTGCTAGGAGGTCCAGACTA+AGG 0.514918 7:+104668256 MsaT040862.1:CDS
AGGCTTACAATAGGAACTGC+AGG 0.515593 7:-104666578 None:intergenic
GGTCCTCTGGCTGTCAATGT+TGG 0.516004 7:-104668711 None:intergenic
GCAGCCACAGCATCAGCTCT+AGG 0.517070 7:-104668863 None:intergenic
TAAGGTGGCATGGCAACTCT+TGG 0.518466 7:-104666334 None:intergenic
TGTGGATACATTGCTGCATA+AGG 0.519877 7:-104666536 None:intergenic
ACTGTTTAAGCAGATGGAGA+AGG 0.523724 7:+104667812 MsaT040862.1:intron
ACACTCCTCACCCATATATG+TGG 0.527863 7:+104666383 MsaT040862.1:CDS
GGTCTGATGAAGAAATTGAA+AGG 0.533436 7:+104666990 MsaT040862.1:CDS
TAGGACTTGCATCCAATAGT+TGG 0.533692 7:-104668844 None:intergenic
GGTGTCACAGGTCAATTAGT+TGG 0.533761 7:+104667911 MsaT040862.1:CDS
GACATGAACATTCGTCTGGT+TGG 0.536497 7:-104665977 None:intergenic
ATGATGGCAGTTGCCCCTGC+TGG 0.540223 7:+104667890 MsaT040862.1:CDS
GATAGACATGAACATTCGTC+TGG 0.541034 7:-104665981 None:intergenic
CCGTACCTGTATCCAAGCCT+CGG 0.543429 7:-104668044 None:intergenic
GCTGCATAAGGATGTCCATA+AGG 0.543750 7:-104666524 None:intergenic
CAGCAATGTATCCACATGGA+GGG 0.550797 7:+104666543 MsaT040862.1:CDS
TCATCTGGAAATACTGATCA+GGG 0.551108 7:+104666969 MsaT040862.1:CDS
TATGTTATTATTACCTGTGG+TGG 0.555801 7:-104666409 None:intergenic
GAGGTCCAGACTAAGGAAGC+AGG 0.557260 7:+104668263 MsaT040862.1:CDS
AGAAGGAAAAGAAGCCGTGA+GGG 0.558999 7:+104667427 MsaT040862.1:CDS
CAGTGGTCGGTGTTCCCTCA+CGG 0.564990 7:-104667441 None:intergenic
ACCACTGTTACAGGTGAAGA+AGG 0.565721 7:-104665856 None:intergenic
CAGGCTCAGCACTCTCAGCA+TGG 0.566951 7:-104667046 None:intergenic
TCGGGAGGCAATGCAGCAGA+AGG 0.568716 7:-104668025 None:intergenic
GATGAAATTCCTTGACTATG+TGG 0.568887 7:-104666813 None:intergenic
GCCTTCTTCACCTGTAACAG+TGG 0.573364 7:+104665855 MsaT040862.1:CDS
AATACTGAGGGTTCGAGTGA+TGG 0.573693 7:+104667235 MsaT040862.1:CDS
CTGTTTAAGCAGATGGAGAA+GGG 0.581574 7:+104667813 MsaT040862.1:intron
AGCGTGAACTGAAGCGTGAG+AGG 0.582159 7:+104668211 MsaT040862.1:CDS
CGTACCTGTATCCAAGCCTC+GGG 0.583108 7:-104668043 None:intergenic
ATCAGGCTAATCAAACAAGA+AGG 0.583524 7:+104667410 MsaT040862.1:intron
CGTGAGGGAACACCGACCAC+TGG 0.590853 7:+104667442 MsaT040862.1:CDS
AATCAAATCGAGAATCTGCT+AGG 0.590860 7:+104668241 MsaT040862.1:CDS
ATTCCTTGACTATGTGGATG+TGG 0.594309 7:-104666807 None:intergenic
AAATTTAAAATTGCTCAACT+GGG 0.603679 7:+104668665 MsaT040862.1:CDS
TGACCAACATTGACAGCCAG+AGG 0.603992 7:+104668708 MsaT040862.1:CDS
TAATAATTCGGGAACTGTGG+AGG 0.607798 7:+104668772 MsaT040862.1:CDS
GGTTCGAGTGATGGAAGTGA+CGG 0.608791 7:+104667244 MsaT040862.1:CDS
TAATAATAATTCGGGAACTG+TGG 0.615906 7:+104668769 MsaT040862.1:CDS
CTTGCAATGTCAATAGGCAA+TGG 0.616162 7:+104667023 MsaT040862.1:CDS
TGAGTTGTAGTAAGGTGGCA+TGG 0.618268 7:-104666344 None:intergenic
GTGAACTGAAGCGTGAGAGG+AGG 0.619223 7:+104668214 MsaT040862.1:CDS
GTCATCGCTGAAGAAACTGC+AGG 0.623544 7:-104667935 None:intergenic
ACCTGTATCCAAGCCTCGGG+AGG 0.627725 7:-104668040 None:intergenic
ACAGGTGAGTTGTAGTAAGG+TGG 0.636010 7:-104666349 None:intergenic
CAATGCAGCAGAAGGTTGTG+GGG 0.639810 7:-104668017 None:intergenic
GTATTTCCAGATGATTTGGG+AGG 0.642501 7:-104666960 None:intergenic
AGCAATGTATCCACATGGAG+GGG 0.644007 7:+104666544 MsaT040862.1:CDS
AACAGAGTCATACCAGTGGT+CGG 0.649459 7:-104667454 None:intergenic
CAAATCGAGAATCTGCTAGG+AGG 0.653155 7:+104668244 MsaT040862.1:CDS
CTGAGAAATCTGAAAGACTG+AGG 0.654049 7:+104668529 MsaT040862.1:CDS
GGCTTACAATAGGAACTGCA+GGG 0.654085 7:-104666577 None:intergenic
GGTCCACATCCACATAGTCA+AGG 0.654527 7:+104666804 MsaT040862.1:CDS
ACTCCTCACCCATATATGTG+GGG 0.654672 7:+104666385 MsaT040862.1:CDS
GGAGTGTGACCAGAAGCCAC+AGG 0.657093 7:-104666367 None:intergenic
ATTGACCTGTGACACCAGCA+GGG 0.658341 7:-104667904 None:intergenic
GCATAAGGATGTCCATAAGG+TGG 0.658959 7:-104666521 None:intergenic
CTCCTCACCCATATATGTGG+GGG 0.659411 7:+104666386 MsaT040862.1:CDS
AAGTCCTAGAGCTGATGCTG+TGG 0.662680 7:+104668859 MsaT040862.1:CDS
ATTTCTCAGCTCCAGCGCGG+TGG 0.663610 7:-104667957 None:intergenic
GCAGCAATGTATCCACATGG+AGG 0.664985 7:+104666542 MsaT040862.1:CDS
ATGAACAGTGTGAATACTGA+GGG 0.671969 7:+104667223 MsaT040862.1:intron
AAGAAGGAAAAGAAGCCGTG+AGG 0.679307 7:+104667426 MsaT040862.1:CDS
GAAGGGAAAACTCATACACA+AGG 0.687878 7:+104667830 MsaT040862.1:CDS
TATGCAGCAATGTATCCACA+TGG 0.688073 7:+104666539 MsaT040862.1:CDS
TGAGTATAAACCCCTCCATG+TGG 0.689024 7:-104666554 None:intergenic
TTGACCTGTGACACCAGCAG+GGG 0.690300 7:-104667903 None:intergenic
ACCTTACTACAACTCACCTG+TGG 0.691801 7:+104666351 MsaT040862.1:CDS
AAGTGACGGCAACACTTCAG+GGG 0.693337 7:+104667258 MsaT040862.1:CDS
CTGAAAGCAGGCAATCACAG+AGG 0.731086 7:+104667072 MsaT040862.1:CDS
AGAATTTCTCAGCTCCAGCG+CGG 0.750273 7:-104667960 None:intergenic
TATGAACAGTGTGAATACTG+AGG 0.751869 7:+104667222 MsaT040862.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 104665814 104668892 104665814 ID=MsaG040862
Chr7 mRNA 104665814 104668892 104665814 ID=MsaT040862.1;Parent=MsaG040862
Chr7 exon 104665814 104665876 104665814 ID=MsaT040862.1.exon1;Parent=MsaT040862.1
Chr7 CDS 104665814 104665876 104665814 ID=cds.MsaT040862.1;Parent=MsaT040862.1
Chr7 exon 104665970 104666023 104665970 ID=MsaT040862.1.exon2;Parent=MsaT040862.1
Chr7 CDS 104665970 104666023 104665970 ID=cds.MsaT040862.1;Parent=MsaT040862.1
Chr7 exon 104666322 104666417 104666322 ID=MsaT040862.1.exon3;Parent=MsaT040862.1
Chr7 CDS 104666322 104666417 104666322 ID=cds.MsaT040862.1;Parent=MsaT040862.1
Chr7 exon 104666512 104666592 104666512 ID=MsaT040862.1.exon4;Parent=MsaT040862.1
Chr7 CDS 104666512 104666592 104666512 ID=cds.MsaT040862.1;Parent=MsaT040862.1
Chr7 exon 104666804 104666845 104666804 ID=MsaT040862.1.exon5;Parent=MsaT040862.1
Chr7 CDS 104666804 104666845 104666804 ID=cds.MsaT040862.1;Parent=MsaT040862.1
Chr7 exon 104666933 104667093 104666933 ID=MsaT040862.1.exon6;Parent=MsaT040862.1
Chr7 CDS 104666933 104667093 104666933 ID=cds.MsaT040862.1;Parent=MsaT040862.1
Chr7 exon 104667231 104667279 104667231 ID=MsaT040862.1.exon7;Parent=MsaT040862.1
Chr7 CDS 104667231 104667279 104667231 ID=cds.MsaT040862.1;Parent=MsaT040862.1
Chr7 exon 104667415 104667463 104667415 ID=MsaT040862.1.exon8;Parent=MsaT040862.1
Chr7 CDS 104667415 104667463 104667415 ID=cds.MsaT040862.1;Parent=MsaT040862.1
Chr7 exon 104667825 104668060 104667825 ID=MsaT040862.1.exon9;Parent=MsaT040862.1
Chr7 CDS 104667825 104668060 104667825 ID=cds.MsaT040862.1;Parent=MsaT040862.1
Chr7 exon 104668207 104668284 104668207 ID=MsaT040862.1.exon10;Parent=MsaT040862.1
Chr7 CDS 104668207 104668284 104668207 ID=cds.MsaT040862.1;Parent=MsaT040862.1
Chr7 exon 104668447 104668572 104668447 ID=MsaT040862.1.exon11;Parent=MsaT040862.1
Chr7 CDS 104668447 104668572 104668447 ID=cds.MsaT040862.1;Parent=MsaT040862.1
Chr7 exon 104668662 104668892 104668662 ID=MsaT040862.1.exon12;Parent=MsaT040862.1
Chr7 CDS 104668662 104668892 104668662 ID=cds.MsaT040862.1;Parent=MsaT040862.1
Gene Sequence

>MsaT040862.1

ATGGGAAATAGTGACCAAGAGAAATCTACCAAGACTGAAAAGCCTTCTTCACCTGTAACAGTGGATCAGACCAACCAGACGAATGTTCATGTCTATCCTGATTGGGCAGCCATGCAGGCATATTATGGACCAAGAGTTGCCATGCCACCTTACTACAACTCACCTGTGGCTTCTGGTCACACTCCTCACCCATATATGTGGGGGCCACCACAGCATATGATGCCACCTTATGGACATCCTTATGCAGCAATGTATCCACATGGAGGGGTTTATACTCACCCTGCAGTTCCTATTGGTCCACATCCACATAGTCAAGGAATTTCATCTTCACCTGCTACTGGAACTCCTTTAAGCATAGAGACACCTCCCAAATCATCTGGAAATACTGATCAGGGTCTGATGAAGAAATTGAAAGGGTTTGATGGACTTGCAATGTCAATAGGCAATGGCCATGCTGAGAGTGCTGAGCCTGGAGCTGAAAGCAGGCAATCACAGAGTGTGAATACTGAGGGTTCGAGTGATGGAAGTGACGGCAACACTTCAGGGGCTAATCAAACAAGAAGGAAAAGAAGCCGTGAGGGAACACCGACCACTGATGGAGAAGGGAAAACTCATACACAAGGTAGTCAAGTTTCCAAAGAAATCTCAGTTTCTGATAAGATGATGGCAGTTGCCCCTGCTGGTGTCACAGGTCAATTAGTTGGACCTGCAGTTTCTTCAGCGATGACCACCGCGCTGGAGCTGAGAAATTCTTCCAGTGTTCATTCTAAAATAAATCCCACAAGTGCCCCACAACCTTCTGCTGCATTGCCTCCCGAGGCTTGGATACAGAATGAGCGTGAACTGAAGCGTGAGAGGAGGAAACAATCAAATCGAGAATCTGCTAGGAGGTCCAGACTAAGGAAGCAGGCTGAGGCCGAAGAACTGGCACGAAAAGTTGAATCCTTGAATGCTGAGAGTGCATCACTTAGATCAGAAATAAATCGACTTGCTGAGAAATCTGAAAGACTGAGGATGGAAAATGTTGCATTAAAGGAAAAATTTAAAATTGCTCAACTGGGACAACCAAAAGAGATAATTTTGACCAACATTGACAGCCAGAGGACCGCACCTGTAAGTACAGAAAACTTATTATCAAGAGTTAATAATAATTCGGGAACTGTGGAGGATGAAAATGGTTATTGTGACAACAAACCAAATTCTGGTGCGAAGTTGCACCAACTATTGGATGCAAGTCCTAGAGCTGATGCTGTGGCTGCTGGTTGA
Protein sequence

>MsaT040862.1

MGNSDQEKSTKTEKPSSPVTVDQTNQTNVHVYPDWAAMQAYYGPRVAMPPYYNSPVASGHTPHPYMWGPPQHMMPPYGHPYAAMYPHGGVYTHPAVPIGPHPHSQGISSSPATGTPLSIETPPKSSGNTDQGLMKKLKGFDGLAMSIGNGHAESAEPGAESRQSQSVNTEGSSDGSDGNTSGANQTRRKRSREGTPTTDGEGKTHTQGSQVSKEISVSDKMMAVAPAGVTGQLVGPAVSSAMTTALELRNSSSVHSKINPTSAPQPSAALPPEAWIQNERELKRERRKQSNRESARRSRLRKQAEAEELARKVESLNAESASLRSEINRLAEKSERLRMENVALKEKFKIAQLGQPKEIILTNIDSQRTAPVSTENLLSRVNNNSGTVEDENGYCDNKPNSGAKLHQLLDASPRADAVAAG*