AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014445

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014445 MtrunA17_Chr3g0105711 87.386 547 60 5 1 543 1 542 0.0 919
MsaG014445 MtrunA17_Chr3g0136081 49.129 574 197 13 7 542 2 518 3.89e-163 474
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014445 AT5G16100.2 26.599 297 176 8 264 527 153 440 2.80e-24 106

Find 111 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCCAAGTCCATGGTAATTT+TGG 0.212819 3:-73290559 None:intergenic
GGCATTGCATTGGAATTAAA+TGG 0.228611 3:-73290773 None:intergenic
GGGTCCATTATTGCTATTAA+TGG 0.250205 3:-73290534 None:intergenic
ATTGCTATTAATGGACAAAT+TGG 0.250376 3:-73290525 None:intergenic
CAAAATAATAATGTTTCATT+TGG 0.253731 3:+73291097 MsaT014445.1:CDS
TTGTCCATTAATAGCAATAA+TGG 0.260366 3:+73290530 MsaT014445.1:CDS
TGGATTGCGGTTGCTCAAAT+TGG 0.290960 3:-73290501 None:intergenic
AGACGAATCATTTACTCTAA+TGG 0.306498 3:+73291247 MsaT014445.1:CDS
ATTGTTGGGCCTCCATTAAC+AGG 0.321028 3:-73291428 None:intergenic
TATGAAAATCTTGAGATTCA+TGG 0.321881 3:+73291365 MsaT014445.1:CDS
CAGGAGCAAGTTGGTGAGAT+TGG 0.325114 3:+73292291 MsaT014445.1:CDS
CGCCATGTGACACCTGTTAA+TGG 0.325291 3:+73291416 MsaT014445.1:CDS
TTGGATTGATGATATTAATA+TGG 0.329852 3:+73291702 MsaT014445.1:CDS
CACACTACTGCTGCTGATAA+TGG 0.341115 3:-73292929 None:intergenic
CTCTTTGCACCGGATATGAT+TGG 0.357597 3:+73291683 MsaT014445.1:CDS
CTTGAGATTCATGGAAGCTT+GGG 0.357672 3:+73291374 MsaT014445.1:CDS
AACGTTGCACCTTCAATACT+TGG 0.362140 3:-73290359 None:intergenic
CATGCTTACAGATGAGATAA+TGG 0.387376 3:+73292248 MsaT014445.1:intron
GATATTAAATTGTAATTGAA+TGG 0.400636 3:-73290917 None:intergenic
TGATGAAATAAAGAACTTCC+TGG 0.412875 3:+73291588 MsaT014445.1:CDS
CTATTAATGGACAAATTGGT+TGG 0.419381 3:-73290521 None:intergenic
AGCAATACTTGAAAATCAAT+TGG 0.419584 3:+73292776 MsaT014445.1:CDS
TGGAATAAGTAACTTTGAAG+TGG 0.427695 3:+73291117 MsaT014445.1:CDS
CGATTACTTTCATCTACCTA+TGG 0.438638 3:+73292552 MsaT014445.1:CDS
CTTCCTGGATCAGTATTGTA+TGG 0.458075 3:+73291603 MsaT014445.1:CDS
TATATATATCATTTAGTGTA+GGG 0.463074 3:-73290433 None:intergenic
CAATCGTTCGATCAATTGTT+GGG 0.465946 3:-73291442 None:intergenic
TCTTGAGATTCATGGAAGCT+TGG 0.468339 3:+73291373 MsaT014445.1:CDS
CACCAAAATTACCATGGACT+TGG 0.468970 3:+73290557 MsaT014445.1:CDS
AGATGTGCACAATTTACATT+GGG 0.476510 3:+73292520 MsaT014445.1:CDS
TCAATCGTTCGATCAATTGT+TGG 0.476535 3:-73291443 None:intergenic
CAACAAAATTACCATGGACT+TGG 0.485409 3:+73290641 MsaT014445.1:CDS
GGAAGTTCTTTATTTCATCA+AGG 0.486733 3:-73291585 None:intergenic
GGAATAAGTAACTTTGAAGT+GGG 0.489373 3:+73291118 MsaT014445.1:CDS
TCAATTGGACAGGCAAGATC+CGG 0.489751 3:+73292791 MsaT014445.1:CDS
ATCATCAATCCAATCATATC+CGG 0.493113 3:-73291692 None:intergenic
ATTCTGTTGTGGCATTGCAT+TGG 0.493127 3:-73290783 None:intergenic
TGTATGGAACATAATTCAGC+AGG 0.494565 3:+73291619 MsaT014445.1:CDS
TTGATCAAGTGCCAACGCTT+CGG 0.497530 3:-73291176 None:intergenic
CCAATGGTTCAAAATCAACT+TGG 0.499953 3:+73291070 MsaT014445.1:CDS
CCATGTCCATGTTGAATACC+AGG 0.503325 3:-73291022 None:intergenic
GTAGAACAAAATTAAGAAGA+TGG 0.504860 3:+73292629 MsaT014445.1:CDS
CATGGACATGGTAGTAACAT+TGG 0.506327 3:+73290743 MsaT014445.1:CDS
CTAGCCGCTGCTTCTTCCAT+AGG 0.508372 3:-73292568 None:intergenic
AGAGTCCTTTCCCTTGTCGC+CGG 0.514274 3:-73292810 None:intergenic
AAGATGTGCACAATTTACAT+TGG 0.515263 3:+73292519 MsaT014445.1:CDS
TTATATATATCATTTAGTGT+AGG 0.515490 3:-73290434 None:intergenic
AAGCGTTGGCACTTGATCAA+TGG 0.517228 3:+73291179 MsaT014445.1:CDS
GCATTGCATTGGAATTAAAT+GGG 0.518101 3:-73290772 None:intergenic
AAGAAGATGGCCACACAGAA+AGG 0.518680 3:+73292642 MsaT014445.1:CDS
GATTGATGATATTAATATGG+AGG 0.518874 3:+73291705 MsaT014445.1:CDS
TACTTGAAAATCAATTGGAC+AGG 0.519249 3:+73292781 MsaT014445.1:CDS
AATGAACGTGGCATTCAACA+TGG 0.527845 3:+73290875 MsaT014445.1:CDS
ATGGTGCGGCGGCAAGAAGT+TGG 0.529787 3:-73292910 None:intergenic
GTTCCATACAATACTGATCC+AGG 0.531567 3:-73291606 None:intergenic
CGTGGCATTCAACATGGGTG+GGG 0.538443 3:+73290881 MsaT014445.1:CDS
CCATGGTATTCAACAAGGGC+AGG 0.540350 3:+73290952 MsaT014445.1:CDS
ATGTCACAACAAAATGATCC+TGG 0.543235 3:+73291004 MsaT014445.1:CDS
GCAAGAGCAAGAGCAAGAGC+AGG 0.545117 3:+73292272 MsaT014445.1:CDS
TCCGTCCATGTTGAATGCCA+TGG 0.546329 3:-73290808 None:intergenic
AAGATCCGGCGACAAGGGAA+AGG 0.552910 3:+73292805 MsaT014445.1:CDS
GCGACATAATTCAACGCTGT+TGG 0.553307 3:-73292888 None:intergenic
CTCCATTAACAGGTGTCACA+TGG 0.555997 3:-73291418 None:intergenic
GACTTGGAATACTTCAACGA+GGG 0.562322 3:+73290573 MsaT014445.1:CDS
CAGGCAAGATCCGGCGACAA+GGG 0.569973 3:+73292800 MsaT014445.1:CDS
GATATATATAACAATAACAA+TGG 0.570306 3:+73290446 MsaT014445.1:CDS
ACGTGGCATTCAACATGGGT+GGG 0.570502 3:+73290880 MsaT014445.1:CDS
GATACTAAATTATAATCGAA+TGG 0.571744 3:-73290845 None:intergenic
ATGCCATGGTCATTCTGTTG+TGG 0.572180 3:-73290794 None:intergenic
AACGTGGCATTCAACATGGG+TGG 0.573675 3:+73290879 MsaT014445.1:CDS
CACCAGAGTGTGGTTCAACA+TGG 0.578034 3:+73290725 MsaT014445.1:CDS
GGCATTCAACATGGGTGGGG+TGG 0.579205 3:+73290884 MsaT014445.1:CDS
AAAGACATGATTGAAGATTG+TGG 0.583708 3:+73292855 MsaT014445.1:CDS
ATTGATGATATTAATATGGA+GGG 0.585774 3:+73291706 MsaT014445.1:CDS
GAGCAAGAGCAGGAGCAAGT+TGG 0.586207 3:+73292282 MsaT014445.1:CDS
GGTATTCAACAAGGGCAGGA+TGG 0.589069 3:+73290956 MsaT014445.1:CDS
AATGACCATGGCATTCAACA+TGG 0.593253 3:+73290803 MsaT014445.1:CDS
TTGAGATTCATGGAAGCTTG+GGG 0.597747 3:+73291375 MsaT014445.1:CDS
GTAGAAGTATTCCAAGTCCA+TGG 0.598550 3:-73290652 None:intergenic
CCTGGTATTCAACATGGACA+TGG 0.598984 3:+73291022 MsaT014445.1:CDS
GTTGAAGTATTCCAAGTCCA+TGG 0.599108 3:-73290568 None:intergenic
ACAGGCAAGATCCGGCGACA+AGG 0.599603 3:+73292799 MsaT014445.1:CDS
TCAACATCAGACCGAAGCGT+TGG 0.600663 3:+73291165 MsaT014445.1:CDS
ACCATGGCATTCAACATGGA+CGG 0.602432 3:+73290807 MsaT014445.1:CDS
TATTATGAGACTCTTTGCAC+CGG 0.606478 3:+73291673 MsaT014445.1:CDS
CTATCCCAACAAAATTACCA+TGG 0.618972 3:+73290635 MsaT014445.1:CDS
GGACTTGGAATACTTCTACA+AGG 0.619567 3:+73290656 MsaT014445.1:CDS
AATGATCCTGGTATTCAACA+TGG 0.622879 3:+73291016 MsaT014445.1:CDS
CAACAACAAAATTCTTGCAG+TGG 0.625689 3:+73291211 MsaT014445.1:CDS
AATGACCATGGTATTCAACA+AGG 0.634847 3:+73290947 MsaT014445.1:CDS
CCTGCCCTTGTTGAATACCA+TGG 0.635763 3:-73290952 None:intergenic
CATGTGACACCTGTTAATGG+AGG 0.638273 3:+73291419 MsaT014445.1:CDS
TGGACAAATTGGTTGGATTG+CGG 0.639366 3:-73290514 None:intergenic
TCTACCTATGGAAGAAGCAG+CGG 0.639381 3:+73292564 MsaT014445.1:CDS
GTCCATGTTGAACCACACTC+TGG 0.639765 3:-73290727 None:intergenic
TGCTGCTGATAATGGTGCGG+CGG 0.640455 3:-73292921 None:intergenic
ATGAACGTGGCATTCAACAT+GGG 0.644224 3:+73290876 MsaT014445.1:CDS
GGACCCCACCAAAATTACCA+TGG 0.646800 3:+73290551 MsaT014445.1:CDS
GGAATACTTCTACAAGGACA+TGG 0.662894 3:+73290662 MsaT014445.1:CDS
TACTGCTGCTGATAATGGTG+CGG 0.670583 3:-73292924 None:intergenic
GTATGGAACATAATTCAGCA+GGG 0.676056 3:+73291620 MsaT014445.1:CDS
ATGCCACAACAGAATGACCA+TGG 0.677298 3:+73290791 MsaT014445.1:CDS
ATAAAATTACCTGCTCTGAG+AGG 0.686791 3:-73292332 None:intergenic
GACAAGGGAAAGGACTCTAG+AGG 0.686791 3:+73292815 MsaT014445.1:CDS
CCAACAAAATCACCAGAGTG+TGG 0.687205 3:+73290715 MsaT014445.1:CDS
AGTGTGGTTCAACATGGACA+TGG 0.687520 3:+73290731 MsaT014445.1:CDS
ATGACCATGGTATTCAACAA+GGG 0.702657 3:+73290948 MsaT014445.1:CDS
ATATCACCAGAAAATGACCA+TGG 0.703982 3:+73290935 MsaT014445.1:CDS
GACATGATTGAAGATTGTGG+CGG 0.748374 3:+73292858 MsaT014445.1:CDS
GTATCACCCGAAAATGAACG+TGG 0.754321 3:+73290863 MsaT014445.1:CDS
GGACTTGGAATACTTCAACG+AGG 0.774898 3:+73290572 MsaT014445.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 73290338 73292947 73290338 ID=MsaG014445
Chr3 mRNA 73290338 73292947 73290338 ID=MsaT014445.1;Parent=MsaG014445
Chr3 exon 73290338 73291268 73290338 ID=MsaT014445.1.exon1;Parent=MsaT014445.1
Chr3 CDS 73290338 73291268 73290338 ID=cds.MsaT014445.1;Parent=MsaT014445.1
Chr3 exon 73291357 73291465 73291357 ID=MsaT014445.1.exon2;Parent=MsaT014445.1
Chr3 CDS 73291357 73291465 73291357 ID=cds.MsaT014445.1;Parent=MsaT014445.1
Chr3 exon 73291570 73291748 73291570 ID=MsaT014445.1.exon3;Parent=MsaT014445.1
Chr3 CDS 73291570 73291748 73291570 ID=cds.MsaT014445.1;Parent=MsaT014445.1
Chr3 exon 73292259 73292344 73292259 ID=MsaT014445.1.exon4;Parent=MsaT014445.1
Chr3 CDS 73292259 73292344 73292259 ID=cds.MsaT014445.1;Parent=MsaT014445.1
Chr3 exon 73292514 73292663 73292514 ID=MsaT014445.1.exon5;Parent=MsaT014445.1
Chr3 CDS 73292514 73292663 73292514 ID=cds.MsaT014445.1;Parent=MsaT014445.1
Chr3 exon 73292753 73292947 73292753 ID=MsaT014445.1.exon6;Parent=MsaT014445.1
Chr3 CDS 73292753 73292947 73292753 ID=cds.MsaT014445.1;Parent=MsaT014445.1
Gene Sequence

>MsaT014445.1

ATGGCAAACAGAAAAAATAATCCAAGTATTGAAGGTGCAACGTTTAAATTTAATGATGATGATGCCATTGACCCAAATTTTTTCAACATGAGTAACCCTACACTAAATGATATATATAACAATAACAATGGACCCACAAATTTGTCCCAACAAAATCATCATTCCAATTTGAGCAACCGCAATCCAACCAATTTGTCCATTAATAGCAATAATGGACCCCACCAAAATTACCATGGACTTGGAATACTTCAACGAGGGCAACAAAGTAGTAATTTCAATAGTCACTTTTCCAATCCACTATCCCAACAAAATTACCATGGACTTGGAATACTTCTACAAGGACATGGTAGTAATGAACAATTTCACACTACACTGTCCCAACAAAATCACCAGAGTGTGGTTCAACATGGACATGGTAGTAACATTGGAAATGTCCCATTTAATTCCAATGCAATGCCACAACAGAATGACCATGGCATTCAACATGGACGGAGTAGTAATTACGATCCATTCGATTATAATTTAGTATCACCCGAAAATGAACGTGGCATTCAACATGGGTGGGGTGGTAATTACGATCCATTCAATTACAATTTAATATCACCAGAAAATGACCATGGTATTCAACAAGGGCAGGATGGTAATAATGATGTATTTTCTCATGCAATGTCACAACAAAATGATCCTGGTATTCAACATGGACATGGTAGTACAAATGAAACATTTTCTCTTCCAATGGTTCAAAATCAACTTGGTCAGCAAAATAATAATGTTTCATTTGGAATAAGTAACTTTGAAGTGGGTAGTTCGTCACGAATGAATGAGAATCAACATCAGACCGAAGCGTTGGCACTTGATCAATGGCCACTCGAACAACAACAAAATTCTTGCAGTGGTAGTCAAGTTCTTAGACGAATCATTTACTCTAATGGTTTTCAATATGAAAATCTTGAGATTCATGGAAGCTTGGGGTTGATTACACATGCAGTTCGCCATGTGACACCTGTTAATGGAGGCCCAACAATTGATCGAACGATTGATTTTTCAGAGAAAGGCCTTGATGAAATAAAGAACTTCCTGGATCAGTATTGTATGGAACATAATTCAGCAGGGTACTTTCTTATACAAGATTCAATGTGTGCGTATTATGAGACTCTTTGCACCGGATATGATTGGATTGATGATATTAATATGGAGGGTCCTATCGATAATTTTTCAGATGAGATAATGGAGCAAGAGCAAGAGCAAGAGCAGGAGCAAGTTGGTGAGATTGGAACACCTGAAAAAAGGAACCTCTCAGAGCAGAGGAAAAGATGTGCACAATTTACATTGGGTGATTTCTGCGATTACTTTCATCTACCTATGGAAGAAGCAGCGGCTAGAGTGAACATAGCTGCATCAACTCTAAAGAAAATTTGTCGTAGAACAAAATTAAGAAGATGGCCACACAGAAAGGTGAAATGTCTTTTGAGGCAAATAGCAATACTTGAAAATCAATTGGACAGGCAAGATCCGGCGACAAGGGAAAGGACTCTAGAGGAAATTAAGCAGCTTAAAAAAGACATGATTGAAGATTGTGGCGGACATACACCAACAGCGTTGAATTATGTCGCCAACTTCTTGCCGCCGCACCATTATCAGCAGCAGTAG
Protein sequence

>MsaT014445.1

MANRKNNPSIEGATFKFNDDDAIDPNFFNMSNPTLNDIYNNNNGPTNLSQQNHHSNLSNRNPTNLSINSNNGPHQNYHGLGILQRGQQSSNFNSHFSNPLSQQNYHGLGILLQGHGSNEQFHTTLSQQNHQSVVQHGHGSNIGNVPFNSNAMPQQNDHGIQHGRSSNYDPFDYNLVSPENERGIQHGWGGNYDPFNYNLISPENDHGIQQGQDGNNDVFSHAMSQQNDPGIQHGHGSTNETFSLPMVQNQLGQQNNNVSFGISNFEVGSSSRMNENQHQTEALALDQWPLEQQQNSCSGSQVLRRIIYSNGFQYENLEIHGSLGLITHAVRHVTPVNGGPTIDRTIDFSEKGLDEIKNFLDQYCMEHNSAGYFLIQDSMCAYYETLCTGYDWIDDINMEGPIDNFSDEIMEQEQEQEQEQVGEIGTPEKRNLSEQRKRCAQFTLGDFCDYFHLPMEEAAARVNIAASTLKKICRRTKLRRWPHRKVKCLLRQIAILENQLDRQDPATRERTLEEIKQLKKDMIEDCGGHTPTALNYVANFLPPHHYQQQ*