AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880046128.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046128.01.T01 MTR_4g100530 92.250 400 31 0 1 400 84 483 0.0 685
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046128.01.T01 AT4G16790 80.952 42 7 1 360 400 432 473 1.07e-11 66.6

Find 56 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTATTTGTTCTCTAAATT+TGG 0.122718 8:-69412432 None:intergenic
CATTGATGGGTCGTCTAAAA+TGG 0.199427 8:+69411671 MsG0880046128.01.T01:CDS
CGAATTGCTTGAAAATCTTT+TGG 0.208613 8:-69411697 None:intergenic
TGTTGTCTTTGTCTGGTTCT+TGG 0.254175 8:-69411329 None:intergenic
CCAAATTTAGAGAACAAATA+AGG 0.283657 8:+69412432 MsG0880046128.01.T01:CDS
ATTGTTGGTGGTGGAGGTGG+GGG 0.321166 8:-69412053 None:intergenic
GAAGAAGCTTTCACCATTGA+AGG 0.344629 8:-69411939 None:intergenic
AACATTGTTGGTGGTGGAGG+TGG 0.359244 8:-69412056 None:intergenic
ATGCACAATCACTTGTTTCT+CGG 0.368553 8:+69411373 MsG0880046128.01.T01:CDS
GATCTTGATCTCCATGGAAT+TGG 0.379084 8:-69411810 None:intergenic
TTATTGTTGTTGTCTTTGTC+TGG 0.381174 8:-69411336 None:intergenic
GTTCAATCTAAATCCATTGA+TGG 0.387905 8:+69411657 MsG0880046128.01.T01:CDS
ACATTGTTGGTGGTGGAGGT+GGG 0.410884 8:-69412055 None:intergenic
AGAAACTATGCTGAATTTGA+AGG 0.415262 8:+69411732 MsG0880046128.01.T01:CDS
TTTGATTTATAAAACATTGT+TGG 0.423613 8:-69412068 None:intergenic
TCAGCTTTCTTATCCACATC+AGG 0.425177 8:-69412398 None:intergenic
AAAAGCTTTGAAGGCTTCAA+TGG 0.433415 8:+69411875 MsG0880046128.01.T01:CDS
CATTGTTGGTGGTGGAGGTG+GGG 0.437517 8:-69412054 None:intergenic
TGCTTCCTTCTCCAATTCCA+TGG 0.445437 8:+69411799 MsG0880046128.01.T01:CDS
AATCAAACTTCTTGAAATCA+AGG 0.445569 8:+69412084 MsG0880046128.01.T01:CDS
TAACATCTTCAGACTCAGAT+TGG 0.460498 8:-69411443 None:intergenic
AGATAAACTGAAAGAGAAAG+AGG 0.466150 8:+69411764 MsG0880046128.01.T01:CDS
CGAGATTTCAAGCTTCGAAC+CGG 0.469801 8:-69411612 None:intergenic
AGTGAAGAAGATGAAGATGT+TGG 0.471735 8:+69412284 MsG0880046128.01.T01:CDS
AATGGAAGGAACATTTCAAC+GGG 0.477331 8:+69412119 MsG0880046128.01.T01:CDS
TTATAAAACATTGTTGGTGG+TGG 0.482758 8:-69412062 None:intergenic
AGAAGAAGGAACGAATGAAA+AGG 0.487798 8:+69412151 MsG0880046128.01.T01:CDS
ATTGATGGGTCGTCTAAAAT+GGG 0.488054 8:+69411672 MsG0880046128.01.T01:CDS
AAGAGGAAACAGAGAAAGAA+AGG 0.489347 8:+69412219 MsG0880046128.01.T01:CDS
TAAAACATTGTTGGTGGTGG+AGG 0.492994 8:-69412059 None:intergenic
ATCAGCATCAGCAAGAATGA+TGG 0.505607 8:+69411830 MsG0880046128.01.T01:CDS
CCATGTTCTTCATCTTTGAG+TGG 0.510670 8:+69412347 MsG0880046128.01.T01:CDS
TTCAATCTAAATCCATTGAT+GGG 0.519226 8:+69411658 MsG0880046128.01.T01:CDS
TGTTCTTCATCTTTGAGTGG+TGG 0.520696 8:+69412350 MsG0880046128.01.T01:CDS
ACGGGAAAATATATAGAAGA+AGG 0.522010 8:+69412137 MsG0880046128.01.T01:CDS
AAATGCTTCGAAGCCTTCAA+TGG 0.534518 8:+69411926 MsG0880046128.01.T01:CDS
TTTGAAGGCTTCAATGGTGA+TGG 0.542984 8:+69411881 MsG0880046128.01.T01:CDS
GATTTATAAAACATTGTTGG+TGG 0.546226 8:-69412065 None:intergenic
AATCTTGGAAGCTGAAGAAA+CGG 0.546550 8:+69412259 MsG0880046128.01.T01:CDS
ATAGACACAGGGAGTGATGA+AGG 0.549629 8:+69412374 MsG0880046128.01.T01:CDS
AACTTCTTGAAATCAAGGTA+TGG 0.556840 8:+69412089 MsG0880046128.01.T01:CDS
TTGAGTGGTGGCATAGACAC+AGG 0.562870 8:+69412362 MsG0880046128.01.T01:CDS
TTCTACTTCATCAATGCAAG+AGG 0.564027 8:+69412202 MsG0880046128.01.T01:CDS
TTCTTCGCAACTGATTCTGA+AGG 0.571693 8:-69411975 None:intergenic
GATGCTGATCTTGATCTCCA+TGG 0.571896 8:-69411816 None:intergenic
GATCTCCATGGAATTGGAGA+AGG 0.573727 8:-69411804 None:intergenic
TGAGGAGCAACAACAAGCAT+GGG 0.579526 8:-69411513 None:intergenic
TTGAGGAGCAACAACAAGCA+TGG 0.583362 8:-69411514 None:intergenic
CTTCGAACCGGCAAAAGCAA+AGG 0.588888 8:-69411600 None:intergenic
AAATGGAAGGAACATTTCAA+CGG 0.597755 8:+69412118 MsG0880046128.01.T01:CDS
GAGTGATGAAGGACCTGATG+TGG 0.620098 8:+69412385 MsG0880046128.01.T01:CDS
ATCAGTTGCGAAGAATTCAG+AGG 0.639951 8:+69411983 MsG0880046128.01.T01:CDS
CCACTCAAAGATGAAGAACA+TGG 0.643951 8:-69412347 None:intergenic
TGAGTGGTGGCATAGACACA+GGG 0.661486 8:+69412363 MsG0880046128.01.T01:CDS
ATGTTAACAAAATCCAAACA+TGG 0.673314 8:+69411460 MsG0880046128.01.T01:CDS
GAATTGCAAGAAATTCTACA+AGG 0.693374 8:+69412489 MsG0880046128.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTGATTTATAAAACATTGT+TGG - Chr8:69412071-69412090 None:intergenic 15.0%
! AAGAAAGGTTTACTGAAAAA+AGG + Chr8:69412234-69412253 MsG0880046128.01.T01:CDS 25.0%
! AATCAAACTTCTTGAAATCA+AGG + Chr8:69412084-69412103 MsG0880046128.01.T01:CDS 25.0%
! AGAAAGGTTTACTGAAAAAA+GGG + Chr8:69412235-69412254 MsG0880046128.01.T01:CDS 25.0%
! ATGTTAACAAAATCCAAACA+TGG + Chr8:69411460-69411479 MsG0880046128.01.T01:CDS 25.0%
! CCAAATTTAGAGAACAAATA+AGG + Chr8:69412432-69412451 MsG0880046128.01.T01:CDS 25.0%
! GATTTATAAAACATTGTTGG+TGG - Chr8:69412068-69412087 None:intergenic 25.0%
! TTCAATCTAAATCCATTGAT+GGG + Chr8:69411658-69411677 MsG0880046128.01.T01:CDS 25.0%
!! CCTTATTTGTTCTCTAAATT+TGG - Chr8:69412435-69412454 None:intergenic 25.0%
!!! TTTTCAATAGCTTCTTGTTT+AGG - Chr8:69411858-69411877 None:intergenic 25.0%
!!! TTTTCATTAGCTTCTTGTTT+AGG - Chr8:69411909-69411928 None:intergenic 25.0%
AAATGGAAGGAACATTTCAA+CGG + Chr8:69412118-69412137 MsG0880046128.01.T01:CDS 30.0%
AACTTCTTGAAATCAAGGTA+TGG + Chr8:69412089-69412108 MsG0880046128.01.T01:CDS 30.0%
ACGGGAAAATATATAGAAGA+AGG + Chr8:69412137-69412156 MsG0880046128.01.T01:CDS 30.0%
AGAAACTATGCTGAATTTGA+AGG + Chr8:69411732-69411751 MsG0880046128.01.T01:CDS 30.0%
AGATAAACTGAAAGAGAAAG+AGG + Chr8:69411764-69411783 MsG0880046128.01.T01:CDS 30.0%
GAATTGCAAGAAATTCTACA+AGG + Chr8:69412489-69412508 MsG0880046128.01.T01:CDS 30.0%
GTTCAATCTAAATCCATTGA+TGG + Chr8:69411657-69411676 MsG0880046128.01.T01:CDS 30.0%
TACTGAAAAAAGGGTAATCT+TGG + Chr8:69412244-69412263 MsG0880046128.01.T01:CDS 30.0%
! AGCTATTGAAAAAGCTTTGA+AGG + Chr8:69411866-69411885 MsG0880046128.01.T01:CDS 30.0%
! CGAATTGCTTGAAAATCTTT+TGG - Chr8:69411700-69411719 None:intergenic 30.0%
! TTATAAAACATTGTTGGTGG+TGG - Chr8:69412065-69412084 None:intergenic 30.0%
! TTATTGTTGTTGTCTTTGTC+TGG - Chr8:69411339-69411358 None:intergenic 30.0%
! TTTTGTAGTTGTTGTACTTG+AGG - Chr8:69411534-69411553 None:intergenic 30.0%
!!! GATTTTGATTACTCCATGTT+TGG - Chr8:69411476-69411495 None:intergenic 30.0%
AAGAGGAAACAGAGAAAGAA+AGG + Chr8:69412219-69412238 MsG0880046128.01.T01:CDS 35.0%
AATCTTGGAAGCTGAAGAAA+CGG + Chr8:69412259-69412278 MsG0880046128.01.T01:CDS 35.0%
AATGGAAGGAACATTTCAAC+GGG + Chr8:69412119-69412138 MsG0880046128.01.T01:CDS 35.0%
AGAAGAAGGAACGAATGAAA+AGG + Chr8:69412151-69412170 MsG0880046128.01.T01:CDS 35.0%
AGTGAAGAAGATGAAGATGT+TGG + Chr8:69412284-69412303 MsG0880046128.01.T01:CDS 35.0%
TAACATCTTCAGACTCAGAT+TGG - Chr8:69411446-69411465 None:intergenic 35.0%
TCAAGGTATGGTGAGAAAAA+TGG + Chr8:69412101-69412120 MsG0880046128.01.T01:CDS 35.0%
TTCTACTTCATCAATGCAAG+AGG + Chr8:69412202-69412221 MsG0880046128.01.T01:CDS 35.0%
! ATGCACAATCACTTGTTTCT+CGG + Chr8:69411373-69411392 MsG0880046128.01.T01:CDS 35.0%
! ATTGATGGGTCGTCTAAAAT+GGG + Chr8:69411672-69411691 MsG0880046128.01.T01:CDS 35.0%
! TGTTGAAAGTGCAAAAACAG+AGG + Chr8:69412322-69412341 MsG0880046128.01.T01:CDS 35.0%
!! AAAAGCTTTGAAGGCTTCAA+TGG + Chr8:69411875-69411894 MsG0880046128.01.T01:CDS 35.0%
!! GTTTTTGAAGATGAACAGAG+TGG + Chr8:69411558-69411577 MsG0880046128.01.T01:CDS 35.0%
AAATGCTTCGAAGCCTTCAA+TGG + Chr8:69411926-69411945 MsG0880046128.01.T01:CDS 40.0%
ATCAGCATCAGCAAGAATGA+TGG + Chr8:69411830-69411849 MsG0880046128.01.T01:CDS 40.0%
ATCAGTTGCGAAGAATTCAG+AGG + Chr8:69411983-69412002 MsG0880046128.01.T01:CDS 40.0%
CCACTCAAAGATGAAGAACA+TGG - Chr8:69412350-69412369 None:intergenic 40.0%
CCATGTTCTTCATCTTTGAG+TGG + Chr8:69412347-69412366 MsG0880046128.01.T01:CDS 40.0%
GAAGAAGCTTTCACCATTGA+AGG - Chr8:69411942-69411961 None:intergenic 40.0%
GATCTTGATCTCCATGGAAT+TGG - Chr8:69411813-69411832 None:intergenic 40.0%
GGTATGGTGAGAAAAATGGA+AGG + Chr8:69412105-69412124 MsG0880046128.01.T01:CDS 40.0%
TCAGCTTTCTTATCCACATC+AGG - Chr8:69412401-69412420 None:intergenic 40.0%
TGTTCTTCATCTTTGAGTGG+TGG + Chr8:69412350-69412369 MsG0880046128.01.T01:CDS 40.0%
TTTGAAGGCTTCAATGGTGA+TGG + Chr8:69411881-69411900 MsG0880046128.01.T01:CDS 40.0%
! CATTGATGGGTCGTCTAAAA+TGG + Chr8:69411671-69411690 MsG0880046128.01.T01:CDS 40.0%
! CATTTTAGACGACCCATCAA+TGG - Chr8:69411673-69411692 None:intergenic 40.0%
! TTCTTCGCAACTGATTCTGA+AGG - Chr8:69411978-69411997 None:intergenic 40.0%
!! TAAAACATTGTTGGTGGTGG+AGG - Chr8:69412062-69412081 None:intergenic 40.0%
!! TGAAAAGCCTTTGCTTTTGC+CGG + Chr8:69411593-69411612 MsG0880046128.01.T01:CDS 40.0%
!! TGTTGTCTTTGTCTGGTTCT+TGG - Chr8:69411332-69411351 None:intergenic 40.0%
ATAGACACAGGGAGTGATGA+AGG + Chr8:69412374-69412393 MsG0880046128.01.T01:CDS 45.0%
CGAGATTTCAAGCTTCGAAC+CGG - Chr8:69411615-69411634 None:intergenic 45.0%
GATCTCCATGGAATTGGAGA+AGG - Chr8:69411807-69411826 None:intergenic 45.0%
GATGCTGATCTTGATCTCCA+TGG - Chr8:69411819-69411838 None:intergenic 45.0%
TGAGGAGCAACAACAAGCAT+GGG - Chr8:69411516-69411535 None:intergenic 45.0%
TGCTTCCTTCTCCAATTCCA+TGG + Chr8:69411799-69411818 MsG0880046128.01.T01:CDS 45.0%
TTGAGGAGCAACAACAAGCA+TGG - Chr8:69411517-69411536 None:intergenic 45.0%
CTTCGAACCGGCAAAAGCAA+AGG - Chr8:69411603-69411622 None:intergenic 50.0%
GAGTGATGAAGGACCTGATG+TGG + Chr8:69412385-69412404 MsG0880046128.01.T01:CDS 50.0%
TGAGTGGTGGCATAGACACA+GGG + Chr8:69412363-69412382 MsG0880046128.01.T01:CDS 50.0%
TTGAGTGGTGGCATAGACAC+AGG + Chr8:69412362-69412381 MsG0880046128.01.T01:CDS 50.0%
!! AACATTGTTGGTGGTGGAGG+TGG - Chr8:69412059-69412078 None:intergenic 50.0%
!! ACATTGTTGGTGGTGGAGGT+GGG - Chr8:69412058-69412077 None:intergenic 50.0%
!! ATTGTTGGTGGTGGAGGTGG+GGG - Chr8:69412056-69412075 None:intergenic 55.0%
!! CATTGTTGGTGGTGGAGGTG+GGG - Chr8:69412057-69412076 None:intergenic 55.0%
!! GTTGGTGGTGGAGGTGGGGG+TGG - Chr8:69412053-69412072 None:intergenic 70.0%
GGTGGAGGTGGGGGTGGAGG+AGG - Chr8:69412047-69412066 None:intergenic 75.0%
!! GGTGGTGGAGGTGGGGGTGG+AGG - Chr8:69412050-69412069 None:intergenic 75.0%
Chromosome Type Strat End Strand Name
Chr8 gene 69411312 69412514 69411312 ID=MsG0880046128.01;Name=MsG0880046128.01
Chr8 mRNA 69411312 69412514 69411312 ID=MsG0880046128.01.T01;Parent=MsG0880046128.01;Name=MsG0880046128.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|400
Chr8 exon 69411312 69412514 69411312 ID=MsG0880046128.01.T01:exon:12970;Parent=MsG0880046128.01.T01
Chr8 CDS 69411312 69412514 69411312 ID=MsG0880046128.01.T01:cds;Parent=MsG0880046128.01.T01
Gene Sequence

>MsG0880046128.01.T01

TTGTTCAGTCGTAGAAACCAAGAACCAGACAAAGACAACAACAATAACACAAAATTTGATAATGCACAATCACTTGTTTCTCGGTTCTTGCAAGTTTCATCGTTTTTTGAAGATGAAGTTGATCATCAAAACCAATCTGAGTCTGAAGATGTTAACAAAATCCAAACATGGAGTAATCAAAATCAACACTACAGAAATAAACCCATGCTTGTTGTTGCTCCTCAAGTACAACAACTACAAAACTCTGTTTTTGAAGATGAACAGAGTGGTTTCAATGAAAATGAAAAGCCTTTGCTTTTGCCGGTTCGAAGCTTGAAATCTCGTTTATCTGATGATGATTGTGTTGTTCAATCTAAATCCATTGATGGGTCGTCTAAAATGGGCTCCAAAAGATTTTCAAGCAATTCGTTTAATAGAGTTAGAAACTATGCTGAATTTGAAGGTGTGATAGAAGATAAACTGAAAGAGAAAGAGGAAGAGAACGCTGTGCTTCCTTCTCCAATTCCATGGAGATCAAGATCAGCATCAGCAAGAATGATGGAACCTAAACAAGAAGCTATTGAAAAAGCTTTGAAGGCTTCAATGGTGATGGAACCTAAACAAGAAGCTAATGAAAATGCTTCGAAGCCTTCAATGGTGAAAGCTTCTTCGATAAAATTTACTCCTTCAGAATCAGTTGCGAAGAATTCAGAGGATTTGATGAAGAAAAAGAGCTTTTACTATAAGTCTTGTCCTCCTCCACCCCCACCTCCACCACCAACAATGTTTTATAAATCAAACTTCTTGAAATCAAGGTATGGTGAGAAAAATGGAAGGAACATTTCAACGGGAAAATATATAGAAGAAGGAACGAATGAAAAGGAAGATGAAGATGAAGAAGAAAAAGAATATTCTACTTCATCAATGCAAGAGGAAACAGAGAAAGAAAGGTTTACTGAAAAAAGGGTAATCTTGGAAGCTGAAGAAACGGAAAGTGAAGAAGATGAAGATGTTGGAGAACTAAAACAGAGTGTTGAAAGTGCAAAAACAGAGGAACCATGTTCTTCATCTTTGAGTGGTGGCATAGACACAGGGAGTGATGAAGGACCTGATGTGGATAAGAAAGCTGATGAATTCATAGCCAAATTTAGAGAACAAATAAGGCTTCAAAGAATTGAATCTATCAAGAGAAGTACACGAATTGCAAGAAATTCTACAAGGTAA
Protein sequence

>MsG0880046128.01.T01

LFSRRNQEPDKDNNNNTKFDNAQSLVSRFLQVSSFFEDEVDHQNQSESEDVNKIQTWSNQNQHYRNKPMLVVAPQVQQLQNSVFEDEQSGFNENEKPLLLPVRSLKSRLSDDDCVVQSKSIDGSSKMGSKRFSSNSFNRVRNYAEFEGVIEDKLKEKEEENAVLPSPIPWRSRSASARMMEPKQEAIEKALKASMVMEPKQEANENASKPSMVKASSIKFTPSESVAKNSEDLMKKKSFYYKSCPPPPPPPPPTMFYKSNFLKSRYGEKNGRNISTGKYIEEGTNEKEDEDEEEKEYSTSSMQEETEKERFTEKRVILEAEETESEEDEDVGELKQSVESAKTEEPCSSSLSGGIDTGSDEGPDVDKKADEFIAKFREQIRLQRIESIKRSTRIARNSTR*