AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG033896

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033896 MtrunA17_Chr6g0479551 90.580 138 13 0 186 323 84 221 7.68e-88 264
MsaG033896 MtrunA17_Chr4g0048751 61.446 83 32 0 106 188 41 123 1.66e-24 97.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033896 AT1G18335.3 53.247 154 63 2 169 322 80 224 1.24e-46 159
MsaG033896 AT1G18335.2 53.247 154 63 2 169 322 80 224 1.24e-46 159
MsaG033896 AT1G18335.1 53.247 154 63 2 169 322 80 224 1.99e-46 158

Find 66 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTGAATATATTGTTTAAC+AGG 0.268540 6:-101856454 None:intergenic
TTCCTTATTGAACTCTGATA+TGG 0.278469 6:+101857196 MsaT033896.1:CDS
TGGCCTTGATGCCAAAGTTT+TGG 0.317734 6:+101857483 MsaT033896.1:CDS
CCTATTACTTCAGGAATAAC+AGG 0.350567 6:-101857311 None:intergenic
GTCTTAGAACCTGTGAATAC+TGG 0.362841 6:+101857416 MsaT033896.1:CDS
TCTTGCCACTCGGATCCATA+TGG 0.379170 6:-101858276 None:intergenic
CCTGTTATTCCTGAAGTAAT+AGG 0.385156 6:+101857311 MsaT033896.1:CDS
TGTACATTACCGCTTTGTTT+TGG 0.388601 6:+101858458 MsaT033896.1:CDS
ACATGTGACTACCTTGGCTT+TGG 0.390688 6:+101857286 MsaT033896.1:CDS
CTTAACATGGAAGGCCCATA+TGG 0.419156 6:+101858261 MsaT033896.1:CDS
TTCCATATCAGAGTTCAATA+AGG 0.421331 6:-101857198 None:intergenic
CGTGTCCAGGGGAAAGGATT+GGG 0.426522 6:+101858528 MsaT033896.1:CDS
ATATATTCAGAAACTTCTTA+AGG 0.430179 6:+101856465 MsaT033896.1:CDS
ACAGTTCGAGCCTCGTGTCC+AGG 0.440255 6:+101858515 MsaT033896.1:CDS
GAGAGTGAGATCCTTCTCTA+AGG 0.443572 6:-101857537 None:intergenic
ACAAATATATAGCGTGCTTC+AGG 0.453405 6:-101858333 None:intergenic
GAAGTGTGATAGATAGTGAT+AGG 0.454166 6:-101857362 None:intergenic
AACAGTTGAAAATTTGAACT+TGG 0.457708 6:+101857136 MsaT033896.1:CDS
TCTTCTTGACGACTAGTTGA+AGG 0.460099 6:-101858414 None:intergenic
AAAGGTGAAGCGTAGAGAAA+TGG 0.460189 6:+101858305 MsaT033896.1:CDS
AAAGAAGAGCCTATTACTTC+AGG 0.465119 6:-101857320 None:intergenic
GCTTTCCCAATCCTTTCCCC+TGG 0.468580 6:-101858533 None:intergenic
AGGATTGGGAAAGCTTCTAA+TGG 0.474839 6:+101858542 MsaT033896.1:CDS
TCCCCAAAACTTTGGCATCA+AGG 0.476629 6:-101857486 None:intergenic
CAGTTCGAGCCTCGTGTCCA+GGG 0.479268 6:+101858516 MsaT033896.1:CDS
GCAAGGTCTCCCCAAAACTT+TGG 0.486885 6:-101857494 None:intergenic
GAAGATAGTGGTCCCTTGGT+TGG 0.492453 6:+101858432 MsaT033896.1:CDS
CTTGCCACTCGGATCCATAT+GGG 0.493957 6:-101858275 None:intergenic
TATTGAGCTTATCGCCCAAA+AGG 0.500241 6:+101858569 MsaT033896.1:CDS
ACTTTCCTTGTAGAACTGCA+TGG 0.510555 6:+101858829 MsaT033896.1:intron
CTTTCCTTGTAGAACTGCAT+GGG 0.513452 6:+101858830 MsaT033896.1:intron
GTTTCCAATCCAGTATTCAC+AGG 0.522138 6:-101857425 None:intergenic
TCGTGTCCAGGGGAAAGGAT+TGG 0.525244 6:+101858527 MsaT033896.1:CDS
AGAACCTGTGAATACTGGAT+TGG 0.528701 6:+101857421 MsaT033896.1:CDS
TACTGATCCTGGTAGGGTGG+AGG 0.533700 6:+101857040 MsaT033896.1:intron
CGAGTGGCAAGAGGAAGAAA+AGG 0.534946 6:+101858287 MsaT033896.1:CDS
GGATCTCAATGCTTCTCAGA+AGG 0.536295 6:+101857253 MsaT033896.1:CDS
GAGCCTCGTGTCCAGGGGAA+AGG 0.537667 6:+101858522 MsaT033896.1:CDS
GTTACAACATGTGACTACCT+TGG 0.538247 6:+101857280 MsaT033896.1:CDS
TGTCGTGCTAACTGTTCAAA+AGG 0.539000 6:+101858856 MsaT033896.1:CDS
AGTTGAAAATTTGAACTTGG+AGG 0.545944 6:+101857139 MsaT033896.1:CDS
AATATATTGTTTAACAGGAG+AGG 0.547475 6:-101856449 None:intergenic
GTATTCACAGGTTCTAAGAC+AGG 0.547909 6:-101857413 None:intergenic
AATTGATCATTCCTTAGAGA+AGG 0.553028 6:+101857526 MsaT033896.1:CDS
TCAAGAAGATAGTGGTCCCT+TGG 0.557490 6:+101858428 MsaT033896.1:CDS
CATCTCGTCAGCATTTGCAT+TGG 0.562164 6:-101858367 None:intergenic
ACGCTATATATTTGTGCATG+AGG 0.569652 6:+101858341 MsaT033896.1:CDS
ACTAGTCGTCAAGAAGATAG+TGG 0.589965 6:+101858420 MsaT033896.1:CDS
AATTTACAGCTTAACATGGA+AGG 0.592808 6:+101858252 MsaT033896.1:intron
TCTAAATTTACAGCTTAACA+TGG 0.596468 6:+101858248 MsaT033896.1:intron
AATCCTTTCCCCTGGACACG+AGG 0.597062 6:-101858525 None:intergenic
TGATAGATAGTGATAGGCTG+AGG 0.604309 6:-101857356 None:intergenic
TGATATGGAAGCATCTAATG+AGG 0.606798 6:+101857211 MsaT033896.1:CDS
ATAGTGATAGGCTGAGGCAA+AGG 0.619660 6:-101857350 None:intergenic
GATCAATTTCTTCATCAGCA+AGG 0.622421 6:-101857511 None:intergenic
ATATGGATCCGAGTGGCAAG+AGG 0.624303 6:+101858278 MsaT033896.1:CDS
AGTTCATACACATAAAGTAC+CGG 0.630714 6:-101858492 None:intergenic
AGTTCGAGCCTCGTGTCCAG+GGG 0.660015 6:+101858517 MsaT033896.1:CDS
AATAACAGGATCCAAAGCCA+AGG 0.660686 6:-101857297 None:intergenic
TATGGAAGCATCTAATGAGG+AGG 0.669099 6:+101857214 MsaT033896.1:CDS
TAATGTACAAATCCAACCAA+GGG 0.669573 6:-101858444 None:intergenic
GTAATGTACAAATCCAACCA+AGG 0.669580 6:-101858445 None:intergenic
GATGACAACAGTGCTGACTG+AGG 0.675729 6:+101858386 MsaT033896.1:CDS
CCTCTTCTTCCAAAACAAAG+CGG 0.723548 6:-101858467 None:intergenic
TACTGCAGCTCAGAACAATG+TGG 0.734175 6:+101857463 MsaT033896.1:CDS
AAGGCCCATATGGATCCGAG+TGG 0.763208 6:+101858271 MsaT033896.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 101856434 101858922 101856434 ID=MsaG033896
Chr6 mRNA 101856434 101858922 101856434 ID=MsaT033896.1;Parent=MsaG033896
Chr6 exon 101856434 101856486 101856434 ID=MsaT033896.1.exon1;Parent=MsaT033896.1
Chr6 CDS 101856434 101856486 101856434 ID=cds.MsaT033896.1;Parent=MsaT033896.1
Chr6 exon 101857055 101857562 101857055 ID=MsaT033896.1.exon2;Parent=MsaT033896.1
Chr6 CDS 101857055 101857562 101857055 ID=cds.MsaT033896.1;Parent=MsaT033896.1
Chr6 exon 101858261 101858590 101858261 ID=MsaT033896.1.exon3;Parent=MsaT033896.1
Chr6 CDS 101858261 101858590 101858261 ID=cds.MsaT033896.1;Parent=MsaT033896.1
Chr6 exon 101858842 101858922 101858842 ID=MsaT033896.1.exon4;Parent=MsaT033896.1
Chr6 CDS 101858842 101858922 101858842 ID=cds.MsaT033896.1;Parent=MsaT033896.1
Gene Sequence

>MsaT033896.1

ATGGCACTAAACTTTCCTCTCCTGTTAAACAATATATTCAGAAACTTCTTAAGGGTGGAGGAGACATCTGCACAAGACAAAGTTGAGACATCAGCACAAGACAAAGTTGAGTTTTTAGCAAAAGACACAAATCAAACAGTTGAAAATTTGAACTTGGAGGTTAGTAATGAAGTTGAGTTTCTGCATAACTCTTTTTCCTTATTGAACTCTGATATGGAAGCATCTAATGAGGAGGTTTTGATTGAGGATTTGGATCTCAATGCTTCTCAGAAGGTTCAGTTACAACATGTGACTACCTTGGCTTTGGATCCTGTTATTCCTGAAGTAATAGGCTCTTCTTTGCAGCAGCCTTTGCCTCAGCCTATCACTATCTATCACACTTCTCTGACACGTGATAAGCTTCCTGTTTTTCCTGTCTTAGAACCTGTGAATACTGGATTGGAAACTACAGTTTCTTCATCTACTGCAGCTCAGAACAATGTGGCCTTGATGCCAAAGTTTTGGGGAGACCTTGCTGATGAAGAAATTGATCATTCCTTAGAGAAGGATCTCACTCTCCAACTTAACATGGAAGGCCCATATGGATCCGAGTGGCAAGAGGAAGAAAAGGTGAAGCGTAGAGAAATGGTTGATCCTGAAGCACGCTATATATTTGTGCATGAGGTTACCAATGCAAATGCTGACGAGATGACAACAGTGCTGACTGAGGAAGATCCTTCAACTAGTCGTCAAGAAGATAGTGGTCCCTTGGTTGGATTTGTACATTACCGCTTTGTTTTGGAAGAAGAGGTACCGGTACTTTATGTGTATGAACTACAGTTCGAGCCTCGTGTCCAGGGGAAAGGATTGGGAAAGCTTCTAATGGAACTTATTGAGCTTATCGCCCAAAAGAACTGCATGGGTGCTGTCGTGCTAACTGTTCAAAAGGCGAACGTATCAGCTATGAATTTTTACACAAGTAAACTAAGGTAA
Protein sequence

>MsaT033896.1

MALNFPLLLNNIFRNFLRVEETSAQDKVETSAQDKVEFLAKDTNQTVENLNLEVSNEVEFLHNSFSLLNSDMEASNEEVLIEDLDLNASQKVQLQHVTTLALDPVIPEVIGSSLQQPLPQPITIYHTSLTRDKLPVFPVLEPVNTGLETTVSSSTAAQNNVALMPKFWGDLADEEIDHSLEKDLTLQLNMEGPYGSEWQEEEKVKRREMVDPEARYIFVHEVTNANADEMTTVLTEEDPSTSRQEDSGPLVGFVHYRFVLEEEVPVLYVYELQFEPRVQGKGLGKLLMELIELIAQKNCMGAVVLTVQKANVSAMNFYTSKLR*