AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG045461


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045461 MtrunA17_Chr4g0063361 84.232 241 38 0 1 241 1 241 3.22e-153 429
MsaG045461 MtrunA17_Chr4g0063401 60.784 255 78 6 1 241 1 247 2.24e-109 318
MsaG045461 MtrunA17_Chr4g0063391 51.220 246 87 3 1 246 1 213 3.78e-83 251
MsaG045461 MtrunA17_Chr4g0063371 41.479 311 96 6 1 306 1 230 5.68e-72 222
MsaG045461 MtrunA17_Chr3g0098251 47.396 192 81 4 51 242 7 178 1.31e-56 182
MsaG045461 MtrunA17_Chr8g0360671 45.714 140 53 4 105 242 41 159 1.27e-31 116
MsaG045461 MtrunA17_Chr8g0366501 28.094 299 140 6 77 307 83 374 8.73e-28 111
MsaG045461 MtrunA17_Chr4g0063411 60.870 69 23 3 241 307 24 90 1.75e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045461 AT3G19360.1 37.304 319 142 7 49 310 59 376 1.28e-63 206
MsaG045461 AT3G19360.2 37.304 319 142 7 49 310 59 376 1.28e-63 206
MsaG045461 AT1G32360.1 26.621 293 148 5 82 307 90 382 4.27e-21 93.2
MsaG045461 AT2G35430.1 26.154 195 109 5 138 307 66 250 3.58e-12 65.9

Find 85 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACAAGATCAATCGTGTTTA+TGG 0.098083 8:+73066462 MsaT045461.1:CDS
TCCTTTGCCACAAGTCTTGC+AGG 0.252708 8:-73066396 None:intergenic
GACAGCAGCAGCTGAGAAAT+TGG 0.269527 8:+73064441 MsaT045461.1:CDS
ATGAGGATCCTGCTAAGTTT+AGG 0.284721 8:+73064558 MsaT045461.1:CDS
TCTATAAGCATTGGGGCTAT+TGG 0.301858 8:+73064611 MsaT045461.1:CDS
TAAGACTGCCACCACGAAAT+TGG 0.308491 8:+73064390 MsaT045461.1:CDS
TGAGGATCCTGCTAAGTTTA+GGG 0.331108 8:+73064559 MsaT045461.1:CDS
TCCACTGCACTTGGCAAGTT+GGG 0.333885 8:-73066516 None:intergenic
GATGGAGGCAGAACCATCTT+TGG 0.342870 8:-73064260 None:intergenic
TTGCGGCGGTGACATCTTAC+AGG 0.346131 8:-73064081 None:intergenic
AGCCAGCTAGAGGCACTTAT+TGG 0.353667 8:+73064675 MsaT045461.1:CDS
AATGGCGAGAAATGTTTCTT+TGG 0.354290 8:+73064515 MsaT045461.1:CDS
ACTTCACGAAAAGCCTTAAC+AGG 0.358557 8:+73066339 MsaT045461.1:CDS
TCAATCGTGTTTATGGTGAT+TGG 0.369324 8:+73066469 MsaT045461.1:CDS
ATCAAGGGAGATGTCCCTTT+GGG 0.372752 8:+73064726 MsaT045461.1:CDS
GCTAAGTTTAGGGATCATTC+TGG 0.384575 8:+73064569 MsaT045461.1:CDS
ATCAACCCCATTCCTTCAAA+AGG 0.390230 8:+73064189 MsaT045461.1:CDS
ACGTGGTCTGCTCTGTTTGA+TGG 0.398666 8:-73064278 None:intergenic
AGTGTTCTTCTATAAGCATT+GGG 0.403399 8:+73064603 MsaT045461.1:CDS
AAAGAAACATTTCTCGCCAT+TGG 0.440883 8:-73064513 None:intergenic
TTACAGGTTGGAATATTGTC+TGG 0.446583 8:-73064065 None:intergenic
TTAAGAAGATGCATTTACTT+TGG 0.454114 8:+73066430 MsaT045461.1:CDS
CTCCACTGCACTTGGCAAGT+TGG 0.458746 8:-73066517 None:intergenic
AGTCATTTGCGGATGGCACT+AGG 0.460095 8:+73064642 MsaT045461.1:CDS
ATCATTGGCAGAACCTGTTA+AGG 0.460853 8:-73066352 None:intergenic
CATCAAGGGAGATGTCCCTT+TGG 0.465946 8:+73064725 MsaT045461.1:CDS
TGCCACAAGTCTTGCAGGGA+AGG 0.471441 8:-73066391 None:intergenic
ACAGCAGCAGCTGAGAAATT+GGG 0.480050 8:+73064442 MsaT045461.1:CDS
CCCTGCAAGACTTGTGGCAA+AGG 0.480562 8:+73066395 MsaT045461.1:CDS
TGGTTCTTCAAAGTCATTTG+CGG 0.482413 8:+73064631 MsaT045461.1:CDS
GGTAGGTGCATATGCATCAT+TGG 0.482923 8:-73066367 None:intergenic
GATATGCCCTCCTCCAAAGA+TGG 0.484001 8:+73064247 MsaT045461.1:CDS
CTAAGTTTAGGGATCATTCT+GGG 0.485241 8:+73064570 MsaT045461.1:CDS
AAAGATTGCAACTTTGCTCA+TGG 0.488168 8:+73064356 MsaT045461.1:CDS
GTTTCTACAAGTACCAAGTC+TGG 0.493005 8:-73064330 None:intergenic
AAGATTGCAACTTTGCTCAT+GGG 0.501520 8:+73064357 MsaT045461.1:CDS
TTCCAATAAGTGCCTCTAGC+TGG 0.502818 8:-73064677 None:intergenic
AGTCAGTTCTCCACTGCACT+TGG 0.503719 8:-73066525 None:intergenic
TTCACAAGATGAAGCTATGC+AGG 0.506731 8:+73064483 MsaT045461.1:CDS
CAATTTGCTCATGGAGAAGC+AGG 0.507401 8:+73064758 MsaT045461.1:CDS
ATCTCCCTTGATGCTGCCAA+TGG 0.509822 8:-73064715 None:intergenic
AGACTAAGACGTGTTTCCAT+TGG 0.510007 8:+73064699 MsaT045461.1:CDS
TGCGGATGGCACTAGGGCTG+TGG 0.512870 8:+73064649 MsaT045461.1:CDS
GAATGATCCCTAAACTTAGC+AGG 0.515278 8:-73064566 None:intergenic
GAGTGTTCTTCTATAAGCAT+TGG 0.515583 8:+73064602 MsaT045461.1:CDS
GTTTCCATTGGCAGCATCAA+GGG 0.516368 8:+73064711 MsaT045461.1:CDS
AGACTTGGTACTTGTAGAAA+CGG 0.521320 8:+73064332 MsaT045461.1:CDS
GAGGACTGTCAATTTGCTCA+TGG 0.526443 8:+73064749 MsaT045461.1:CDS
GGCAGAACCATCTTTGGAGG+AGG 0.527920 8:-73064254 None:intergenic
AAGACTTGTGGCAAAGGAAG+AGG 0.529531 8:+73066401 MsaT045461.1:CDS
TGTTTCCATTGGCAGCATCA+AGG 0.535568 8:+73064710 MsaT045461.1:CDS
TGTGGCAAAGGAAGAGGAGC+AGG 0.535571 8:+73066407 MsaT045461.1:CDS
ACTAGCTCCTGCCAATTTCG+TGG 0.541649 8:-73064401 None:intergenic
CCTTTGCCACAAGTCTTGCA+GGG 0.547135 8:-73066395 None:intergenic
AGATTGCAACTTTGCTCATG+GGG 0.548831 8:+73064358 MsaT045461.1:CDS
TCCCAACTTGCCAAGTGCAG+TGG 0.549943 8:+73066515 MsaT045461.1:CDS
AGGAGGGCATATCAAAGCAT+TGG 0.555491 8:-73064237 None:intergenic
ACTGCCACCACGAAATTGGC+AGG 0.556769 8:+73064394 MsaT045461.1:CDS
AATTGACAGTCCTCCCCAAA+GGG 0.560613 8:-73064740 None:intergenic
GTCATTTGCGGATGGCACTA+GGG 0.561508 8:+73064643 MsaT045461.1:CDS
TCAACCCCATTCCTTCAAAA+GGG 0.562069 8:+73064190 MsaT045461.1:CDS
TCTTCAAAGTCATTTGCGGA+TGG 0.565179 8:+73064635 MsaT045461.1:CDS
CACCTTCCCTGCAAGACTTG+TGG 0.570439 8:+73066389 MsaT045461.1:CDS
CACAAGTCTTGCAGGGAAGG+TGG 0.574444 8:-73066388 None:intergenic
GGAGGCAGAACCATCTTTGG+AGG 0.575699 8:-73064257 None:intergenic
ATCTGTAATAAGTCCAGACT+TGG 0.576422 8:+73064317 MsaT045461.1:CDS
TGCTGCTGTCCGTCGCTGCG+AGG 0.579246 8:-73064428 None:intergenic
AGTCTTGCAGGGAAGGTGGT+AGG 0.597135 8:-73066384 None:intergenic
GGCGGTGACATCTTACAGGT+TGG 0.597501 8:-73064077 None:intergenic
GGCAAGTTGGGAAGAACAAG+AGG 0.612688 8:-73066504 None:intergenic
CTAGTTAGTCCTCGCAGCGA+CGG 0.619159 8:+73064419 MsaT045461.1:CDS
AAATTGACAGTCCTCCCCAA+AGG 0.626382 8:-73064741 None:intergenic
CTGTTTGATGTAGTGAATTG+CGG 0.628943 8:-73064098 None:intergenic
GCAGAACCATCTTTGGAGGA+GGG 0.630074 8:-73064253 None:intergenic
TGGTCTGCTCTGTTTGATGG+AGG 0.646374 8:-73064275 None:intergenic
CTATGCAGGATGTATTCCAA+TGG 0.648337 8:+73064497 MsaT045461.1:CDS
GCTGTGGACAAGCCAGCTAG+AGG 0.651351 8:+73064665 MsaT045461.1:CDS
AGGGAGATGTCCCTTTGGGG+AGG 0.652421 8:+73064730 MsaT045461.1:CDS
GTGTTCTTCTATAAGCATTG+GGG 0.654358 8:+73064604 MsaT045461.1:CDS
TCAAGGGAGATGTCCCTTTG+GGG 0.666746 8:+73064727 MsaT045461.1:CDS
AGCTCCTGCCAATTTCGTGG+TGG 0.669372 8:-73064398 None:intergenic
GCAGCAGCTGAGAAATTGGG+AGG 0.680326 8:+73064445 MsaT045461.1:CDS
TTTGATGTAGTGAATTGCGG+CGG 0.699237 8:-73064095 None:intergenic
TACGAGTCTTGTAGAAAACG+TGG 0.701748 8:-73064295 None:intergenic
AATATTGTCTGGAAGAACCA+TGG 0.708668 8:-73064054 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 73064056 73066545 73064056 ID=MsaG045461
Chr8 mRNA 73064056 73066545 73064056 ID=MsaT045461.1;Parent=MsaG045461
Chr8 exon 73064056 73064779 73064056 ID=MsaT045461.1.exon1;Parent=MsaT045461.1
Chr8 CDS 73064056 73064779 73064056 ID=cds.MsaT045461.1;Parent=MsaT045461.1
Chr8 exon 73066304 73066545 73066304 ID=MsaT045461.1.exon2;Parent=MsaT045461.1
Chr8 CDS 73066304 73066545 73066304 ID=cds.MsaT045461.1;Parent=MsaT045461.1
Gene Sequence

>MsaT045461.1

ATGGTTCTTCCAGACAATATTCCAACCTGTAAGATGTCACCGCCGCAATTCACTACATCAAACAGCGATATCATTGAAGTGAGACCTCGATTTCCAATGAAAAATGAAAACTTTCAACAACATTCAACATTGAATCAACCCCATTCCTTCAAAAGGGCAAGAATTTCTGATAACAATCGTTCCAATGCTTTGATATGCCCTCCTCCAAAGATGGTTCTGCCTCCATCAAACAGAGCAGACCACGTTTTCTACAAGACTCGTATCTGTAATAAGTCCAGACTTGGTACTTGTAGAAACGGTAAAGATTGCAACTTTGCTCATGGGGTTGAAGAACTAAGACTGCCACCACGAAATTGGCAGGAGCTAGTTAGTCCTCGCAGCGACGGACAGCAGCAGCTGAGAAATTGGGAGGAAGATCAAAAAATGATTCACAAGATGAAGCTATGCAGGATGTATTCCAATGGCGAGAAATGTTTCTTTGGTAGCAAGTGTTATTTTCTTCATGAGGATCCTGCTAAGTTTAGGGATCATTCTGGGAAGTCAAGAGAGTGTTCTTCTATAAGCATTGGGGCTATTGGTTCTTCAAAGTCATTTGCGGATGGCACTAGGGCTGTGGACAAGCCAGCTAGAGGCACTTATTGGAAGACTAAGACGTGTTTCCATTGGCAGCATCAAGGGAGATGTCCCTTTGGGGAGGACTGTCAATTTGCTCATGGAGAAGCAGTTGCAATAGCAAATTCAACAAAAGCTATCATTCCAACTTCACGAAAAGCCTTAACAGGTTCTGCCAATGATGCATATGCACCTACCACCTTCCCTGCAAGACTTGTGGCAAAGGAAGAGGAGCAGGTTAAGAAGATGCATTTACTTTGGTTGAAATTAAACAAGATCAATCGTGTTTATGGTGATTGGATTGATGATTCACCTCTTGTTCTTCCCAACTTGCCAAGTGCAGTGGAGAACTGA

Protein sequence

>MsaT045461.1

MVLPDNIPTCKMSPPQFTTSNSDIIEVRPRFPMKNENFQQHSTLNQPHSFKRARISDNNRSNALICPPPKMVLPPSNRADHVFYKTRICNKSRLGTCRNGKDCNFAHGVEELRLPPRNWQELVSPRSDGQQQLRNWEEDQKMIHKMKLCRMYSNGEKCFFGSKCYFLHEDPAKFRDHSGKSRECSSISIGAIGSSKSFADGTRAVDKPARGTYWKTKTCFHWQHQGRCPFGEDCQFAHGEAVAIANSTKAIIPTSRKALTGSANDAYAPTTFPARLVAKEEEQVKKMHLLWLKLNKINRVYGDWIDDSPLVLPNLPSAVEN*