AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG007324


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007324 MtrunA17_Chr2g0291581 71.901 242 51 3 1 232 1 235 1.33e-108 333
MsaG007324 MtrunA17_Chr2g0291581 83.908 87 14 0 203 289 492 578 3.52e-40 151
MsaG007324 MtrunA17_Chr2g0291591 44.444 180 91 2 37 210 37 213 2.57e-44 161
MsaG007324 MtrunA17_Chr2g0291591 50.794 63 31 0 202 264 494 556 1.34e-12 68.9
MsaG007324 MtrunA17_Chr2g0291601 90.566 53 5 0 137 189 1 53 2.75e-26 99.8
MsaG007324 MtrunA17_Chr4g0033611 35.644 101 62 1 64 161 76 176 4.51e-15 74.7
MsaG007324 MtrunA17_Chr2g0329421 34.653 101 63 1 64 161 27 127 9.48e-14 69.7
MsaG007324 MtrunA17_Chr2g0329361 35.849 106 58 2 64 161 61 164 1.43e-13 70.1
MsaG007324 MtrunA17_Chr2g0287061 33.621 116 67 2 47 161 11 117 1.83e-11 65.9
MsaG007324 MtrunA17_Chr1g0207551 37.037 108 65 2 56 161 27 133 4.45e-11 64.7
MsaG007324 MtrunA17_Chr3g0080351 33.913 115 59 1 64 161 76 190 8.71e-11 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007324 AT1G52520.1 65.972 144 44 1 58 201 79 217 1.36e-58 202
MsaG007324 AT1G52520.1 60.227 88 34 1 203 289 508 595 7.24e-26 110
MsaG007324 AT1G80010.1 49.660 147 67 2 62 201 93 239 2.63e-39 149
MsaG007324 AT1G80010.1 46.429 84 40 2 203 286 534 612 7.88e-13 70.5
MsaG007324 AT3G59470.3 37.624 101 60 1 64 161 70 170 5.76e-15 74.3
MsaG007324 AT3G59470.1 37.624 101 60 1 64 161 70 170 5.76e-15 74.3
MsaG007324 AT3G59470.2 37.624 101 60 1 64 161 82 182 7.08e-15 74.3
MsaG007324 AT3G06250.2 33.333 102 59 1 64 165 28 120 1.56e-11 66.6
MsaG007324 AT3G06250.1 33.333 102 59 1 64 165 28 120 1.56e-11 66.6
MsaG007324 AT3G06250.3 33.333 102 59 1 64 165 28 120 1.56e-11 66.6

Find 71 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATCCTTTGTCTCCATTTAT+AGG 0.144554 2:-16493004 None:intergenic
CGTCGACGGTGTCAAGCTTT+TGG 0.198914 2:-16490052 None:intergenic
CAATGGTCTAATCAGTTATT+TGG 0.205211 2:+16492216 MsaT007324.1:intron
GATTACCGAGATGGGTTTAT+AGG 0.259216 2:-16492951 None:intergenic
CATGAGACAAAATCCTTGTT+TGG 0.286181 2:+16492853 MsaT007324.1:CDS
GACATGAATGATCCTATAAA+TGG 0.290666 2:+16492992 MsaT007324.1:CDS
GAAGAAATGTTCTCTTGTTT+TGG 0.291820 2:+16491883 MsaT007324.1:CDS
CTGCAGTTCAAAAGAGCATT+TGG 0.320519 2:-16491809 None:intergenic
TGGAAGTGCCTTACAAGTTA+TGG 0.355565 2:+16492236 MsaT007324.1:CDS
TGGCTCCATCATAATCTTCT+TGG 0.357834 2:+16491927 MsaT007324.1:CDS
CACACAAAATCCCACCTCTT+TGG 0.362616 2:-16490549 None:intergenic
CATGGCAGGACAACCAGTTC+TGG 0.364832 2:-16490687 None:intergenic
CTCGAACATAACCACGTCTT+AGG 0.365078 2:+16490761 MsaT007324.1:CDS
CACAAACGTGCATCGCATCT+TGG 0.369011 2:+16492889 MsaT007324.1:CDS
CTTGGGTGGCACCGGTCTTA+AGG 0.381779 2:+16492907 MsaT007324.1:CDS
GAATTTCCCGCACCTGCTCT+TGG 0.386074 2:+16490476 MsaT007324.1:CDS
CCATTACGATGCAGCGCGTC+AGG 0.390140 2:+16492281 MsaT007324.1:CDS
GGGAAACAGACAGGAGATAA+AGG 0.399801 2:+16491972 MsaT007324.1:CDS
ACAAACGTGCATCGCATCTT+GGG 0.425404 2:+16492890 MsaT007324.1:CDS
TGGGTTTATAGGTGATCAAT+TGG 0.432839 2:-16492940 None:intergenic
ATTACCTGGCATTCTCCATC+GGG 0.434341 2:-16490413 None:intergenic
CATGATAAGGATTAAGTTAG+TGG 0.463158 2:+16490706 MsaT007324.1:CDS
TTGAGAAAAGAAACCAGAAC+TGG 0.466660 2:+16490674 MsaT007324.1:CDS
TCCCGCACCTGCTCTTGGAA+TGG 0.481909 2:+16490481 MsaT007324.1:CDS
CTGGTTGTCCTGCCATGATA+AGG 0.483669 2:+16490693 MsaT007324.1:CDS
AAATCTCTTGATTACCGAGA+TGG 0.485506 2:-16492960 None:intergenic
GTGCTTTGTTGTAGCAGTCA+AGG 0.493576 2:+16490623 MsaT007324.1:CDS
TCCCTCCTCCATAACTTGTA+AGG 0.494681 2:-16492244 None:intergenic
AATTACCTGGCATTCTCCAT+CGG 0.497269 2:-16490414 None:intergenic
TTTGACCAAGAAGATTATGA+TGG 0.497729 2:-16491932 None:intergenic
CATCGCATCTTGGGTGGCAC+CGG 0.498439 2:+16492899 MsaT007324.1:CDS
AATCTCTTGATTACCGAGAT+GGG 0.498651 2:-16492959 None:intergenic
TGTTCTTGTTCTTCTTCTTG+AGG 0.500286 2:-16490086 None:intergenic
TTTGATTGAGGGAAACAGAC+AGG 0.503735 2:+16491963 MsaT007324.1:CDS
CATGAAGTTCCAACTTGAAG+TGG 0.504481 2:+16491861 MsaT007324.1:CDS
ACATTTCTTCCACTTCAAGT+TGG 0.516480 2:-16491870 None:intergenic
AACTTAATCCTTATCATGGC+AGG 0.517948 2:-16490701 None:intergenic
GTTGCCTAGCTCTGATGCGG+AGG 0.527630 2:+16490838 MsaT007324.1:CDS
TTCCATTCCAAGAGCAGGTG+CGG 0.528014 2:-16490483 None:intergenic
GTATCTTGTTACCTTAAGAC+CGG 0.529149 2:-16492918 None:intergenic
CACTAACTTAATCCTTATCA+TGG 0.537066 2:-16490705 None:intergenic
TCCATTCCAAGAGCAGGTGC+GGG 0.537722 2:-16490482 None:intergenic
TTGCCTAGCTCTGATGCGGA+GGG 0.538891 2:+16490839 MsaT007324.1:CDS
TCAAATTCCATTCCAAGAGC+AGG 0.541895 2:-16490488 None:intergenic
TGCCTTACAAGTTATGGAGG+AGG 0.551483 2:+16492242 MsaT007324.1:CDS
TGTCAAGATGATATTTCTGA+AGG 0.552931 2:+16490446 MsaT007324.1:CDS
ATTACCCGATGGAGAATGCC+AGG 0.553334 2:+16490409 MsaT007324.1:CDS
GATCCTATAAATGGAGACAA+AGG 0.559600 2:+16493001 MsaT007324.1:CDS
TTCCCCTCCGCATCAGAGCT+AGG 0.562167 2:-16490842 None:intergenic
CCTGACGCGCTGCATCGTAA+TGG 0.562464 2:-16492281 None:intergenic
ATTTGCTATGCCAAAGAGGT+GGG 0.566055 2:+16490539 MsaT007324.1:CDS
ACCACTCAACTACGTGCAGA+TGG 0.567203 2:+16491907 MsaT007324.1:CDS
AGTTAGTGGAGTCTCAGAGA+TGG 0.573080 2:+16490720 MsaT007324.1:CDS
AGGTTGAGACTCGCCGTCGA+CGG 0.574630 2:-16490066 None:intergenic
TATTTGCTATGCCAAAGAGG+TGG 0.575475 2:+16490538 MsaT007324.1:CDS
GACAATCTAATTCAATTACC+TGG 0.587039 2:-16490427 None:intergenic
TAGTGGAGTCTCAGAGATGG+AGG 0.590281 2:+16490723 MsaT007324.1:CDS
GCCTTACAAGTTATGGAGGA+GGG 0.592013 2:+16492243 MsaT007324.1:CDS
AACGTGCATCGCATCTTGGG+TGG 0.609325 2:+16492893 MsaT007324.1:CDS
TTATATTTGCTATGCCAAAG+AGG 0.610702 2:+16490535 MsaT007324.1:CDS
GATCACCTATAAACCCATCT+CGG 0.610785 2:+16492946 MsaT007324.1:CDS
CTCGTTGCCTAGCTCTGATG+CGG 0.616476 2:+16490835 MsaT007324.1:CDS
GCCATCTGCACGTAGTTGAG+TGG 0.627400 2:-16491908 None:intergenic
TGCCTAGCTCTGATGCGGAG+GGG 0.628559 2:+16490840 MsaT007324.1:CDS
CAAAAGCTTGACACCGTCGA+CGG 0.630980 2:+16490053 MsaT007324.1:CDS
AAGTGCCTTACAAGTTATGG+AGG 0.637921 2:+16492239 MsaT007324.1:CDS
GTATCTTAGCACCTAAGACG+TGG 0.639364 2:-16490772 None:intergenic
AGAAGAACAAGAACACCCAA+AGG 0.641728 2:+16490094 MsaT007324.1:CDS
GCACTTGTGATAGATACAGA+AGG 0.672329 2:+16490884 MsaT007324.1:CDS
TCAGAGATGGAGGATATGTG+AGG 0.701673 2:+16490733 MsaT007324.1:CDS
TGTTGTGATCAATTACCCGA+TGG 0.706322 2:+16490398 MsaT007324.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 16490035 16493027 16490035 ID=MsaG007324
Chr2 mRNA 16490035 16493027 16490035 ID=MsaT007324.1;Parent=MsaG007324
Chr2 exon 16490035 16490115 16490035 ID=MsaT007324.1.exon1;Parent=MsaT007324.1
Chr2 CDS 16490035 16490115 16490035 ID=cds.MsaT007324.1;Parent=MsaT007324.1
Chr2 exon 16490380 16490905 16490380 ID=MsaT007324.1.exon2;Parent=MsaT007324.1
Chr2 CDS 16490380 16490905 16490380 ID=cds.MsaT007324.1;Parent=MsaT007324.1
Chr2 exon 16491773 16492029 16491773 ID=MsaT007324.1.exon3;Parent=MsaT007324.1
Chr2 CDS 16491773 16492029 16491773 ID=cds.MsaT007324.1;Parent=MsaT007324.1
Chr2 exon 16492231 16492326 16492231 ID=MsaT007324.1.exon4;Parent=MsaT007324.1
Chr2 CDS 16492231 16492326 16492231 ID=cds.MsaT007324.1;Parent=MsaT007324.1
Chr2 exon 16492839 16493027 16492839 ID=MsaT007324.1.exon5;Parent=MsaT007324.1
Chr2 CDS 16492839 16493027 16492839 ID=cds.MsaT007324.1;Parent=MsaT007324.1
Gene Sequence

>MsaT007324.1

ATGTCAGAGTTGCAGACCCAAAAGCTTGACACCGTCGACGGCGAGTCTCAACCTCAAGAAGAAGAACAAGAACACCCAAAGGTGGACGACATTTCTGTGTGTTGTGATCAATTACCCGATGGAGAATGCCAGGTAATTGAATTAGATTGTCAAGATGATATTTCTGAAGGAAGAAAAGAATTTCCCGCACCTGCTCTTGGAATGGAATTTGAGTCATATGATGATGCTTACAGTTATTATATTTGCTATGCCAAAGAGGTGGGATTTTGTGTGAGGATTAAGAATTCATGTTTCAAGCGAAATAGCAAAGAAAAATATGGTGCAGTGCTTTGTTGTAGCAGTCAAGGTTTCAATAGAACAAAAGATGTTGACATTTTGAGAAAAGAAACCAGAACTGGTTGTCCTGCCATGATAAGGATTAAGTTAGTGGAGTCTCAGAGATGGAGGATATGTGAGGTTACTCTCGAACATAACCACGTCTTAGGTGCTAAGATACATAAATTAGTTAAAAAGATGGCAAGTGGAACTAAAAAGAACTCGTTGCCTAGCTCTGATGCGGAGGGGAAAACAATTAAGATATATCATGCACTTGTGATAGATACAGAAGATATTGAATCTAGAAGCTCTAGCCCCTTGCTGAAAACCAAATGCTCTTTTGAACTGCAGTTGTCTAGCATGTACACAAAAGAAATATTCATGAAGTTCCAACTTGAAGTGGAAGAAATGTTCTCTTGTTTTGGTACCACTCAACTACGTGCAGATGGCTCCATCATAATCTTCTTGGTCAAAGAGCGTGTTTTGATTGAGGGAAACAGACAGGAGATAAAGGATTTTGAAGTTGTTTACAGTAAATCAGCATGTGAATTATTTGGAAGTGCCTTACAAGTTATGGAGGAGGGAATGATTTCTATAGACCATTACGATGCAGCGCGTCAGGCTTTTGAAGAATCACTTAATAAGAAACTAAAGAATTCCATGAGACAAAATCCTTGTTTGGAATTTCATCAAAACACAAACGTGCATCGCATCTTGGGTGGCACCGGTCTTAAGGTAACAAGATACCAATTGATCACCTATAAACCCATCTCGGTAATCAAGAGATTTGATCACATTGACATGAATGATCCTATAAATGGAGACAAAGGATGA

Protein sequence

>MsaT007324.1

MSELQTQKLDTVDGESQPQEEEQEHPKVDDISVCCDQLPDGECQVIELDCQDDISEGRKEFPAPALGMEFESYDDAYSYYICYAKEVGFCVRIKNSCFKRNSKEKYGAVLCCSSQGFNRTKDVDILRKETRTGCPAMIRIKLVESQRWRICEVTLEHNHVLGAKIHKLVKKMASGTKKNSLPSSDAEGKTIKIYHALVIDTEDIESRSSSPLLKTKCSFELQLSSMYTKEIFMKFQLEVEEMFSCFGTTQLRADGSIIIFLVKERVLIEGNRQEIKDFEVVYSKSACELFGSALQVMEEGMISIDHYDAARQAFEESLNKKLKNSMRQNPCLEFHQNTNVHRILGGTGLKVTRYQLITYKPISVIKRFDHIDMNDPINGDKG*