AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880047426.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880047426.01.T02 MTR_5g084060 96.154 52 2 0 1 52 1 52 6.28e-31 103
MsG0880047426.01.T02 MTR_4g127150 96.154 52 2 0 1 52 1 52 6.28e-31 103
MsG0880047426.01.T01 MTR_5g084060 96.154 52 2 0 1 52 1 52 6.28e-31 103
MsG0880047426.01.T01 MTR_4g127150 96.154 52 2 0 1 52 1 52 6.28e-31 103
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880047426.01.T02 AT5G50460 88.462 52 6 0 1 52 1 52 1.01e-28 97.8
MsG0880047426.01.T02 AT4G24920 88.462 52 6 0 1 52 1 52 1.01e-28 97.8
MsG0880047426.01.T02 AT3G48570 82.692 52 9 0 1 52 1 52 1.53e-26 92.0
MsG0880047426.01.T01 AT5G50460 88.462 52 6 0 1 52 1 52 1.01e-28 97.8
MsG0880047426.01.T01 AT4G24920 88.462 52 6 0 1 52 1 52 1.01e-28 97.8
MsG0880047426.01.T01 AT3G48570 82.692 52 9 0 1 52 1 52 1.53e-26 92.0

Find 6 sgRNAs with CRISPR-Local

Find 102 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTAACGATCGAAGTCTTAG+TGG 0.358218 8:+86130338 None:intergenic
AGACCTTTGTTCTGTGTGTT+GGG 0.368248 8:+86130368 None:intergenic
CCACTAAGACTTCGATCGTT+AGG 0.420908 8:-86130338 MsG0880047426.01.T01:intron
GAGACCTTTGTTCTGTGTGT+TGG 0.472045 8:+86130367 None:intergenic
GACCTTTGTTCTGTGTGTTG+GGG 0.517962 8:+86130369 None:intergenic
ATCCCCAACACACAGAACAA+AGG 0.654430 8:-86130371 MsG0880047426.01.T01:five_prime_UTR

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATGTAAAATTTTATTTTACA+TGG - Chr8:86130280-86130299 MsG0880047426.01.T01:intron 10.0%
!!! TGTAAAATTTTATTTTACAT+GGG - Chr8:86130281-86130300 MsG0880047426.01.T01:intron 10.0%
!!! TTTTAGAAAAAAAAGAAATA+TGG + Chr8:86130246-86130265 None:intergenic 10.0%
!! ACTATATAAAAAACTTTCAA+AGG + Chr8:86129869-86129888 None:intergenic 15.0%
!! AAATAATTGTTTATCCAAAC+AGG + Chr8:86128882-86128901 None:intergenic 20.0%
!! AAATATGTCCTTCAAATTAA+AGG + Chr8:86128800-86128819 None:intergenic 20.0%
!! AATAATTGTTTATCCAAACA+GGG + Chr8:86128881-86128900 None:intergenic 20.0%
!! ATCTAAGAATTGAAACAAAT+TGG + Chr8:86128406-86128425 None:intergenic 20.0%
!! ATGATTAATTGATTACATCT+TGG - Chr8:86129403-86129422 MsG0880047426.01.T01:three_prime_UTR 20.0%
!! ATTGGTATATATGGTAAAAT+TGG - Chr8:86130386-86130405 MsG0880047426.01.T01:five_prime_UTR 20.0%
!! GAAAATAATTATACAATCTC+TGG + Chr8:86129716-86129735 None:intergenic 20.0%
!! TATTCAAAGTAAACAAAGAA+GGG + Chr8:86128272-86128291 None:intergenic 20.0%
!!! AGCTGTTTTAATATAAATCA+AGG - Chr8:86129131-86129150 MsG0880047426.01.T01:three_prime_UTR 20.0%
!!! ATAATTATTTTCTTAGTGAC+CGG - Chr8:86129724-86129743 MsG0880047426.01.T01:three_prime_UTR 20.0%
!!! GCTGTTTTAATATAAATCAA+GGG - Chr8:86129132-86129151 MsG0880047426.01.T01:three_prime_UTR 20.0%
! AACAGAAGTAAACTTAAAAC+AGG + Chr8:86129553-86129572 None:intergenic 25.0%
! AATCGTATCATATGTTACTA+AGG - Chr8:86130030-86130049 MsG0880047426.01.T01:intron 25.0%
! AATTTGAAGGACATATTTGA+TGG - Chr8:86128802-86128821 MsG0880047426.01.T01:three_prime_UTR 25.0%
! ACATATGATACGATTTCTAT+TGG + Chr8:86130025-86130044 None:intergenic 25.0%
! ATTCTTAGATCGAAAGAAAA+TGG - Chr8:86128416-86128435 MsG0880047426.01.T01:three_prime_UTR 25.0%
! CTATTCAAAGTAAACAAAGA+AGG + Chr8:86128273-86128292 None:intergenic 25.0%
! GAAGTATGTTGTTGTATTTA+TGG - Chr8:86129161-86129180 MsG0880047426.01.T01:three_prime_UTR 25.0%
! GGACTATTTGATAAACTATA+TGG + Chr8:86129080-86129099 None:intergenic 25.0%
!! AAAAGCATGATTGGTATATA+TGG - Chr8:86130377-86130396 MsG0880047426.01.T01:five_prime_UTR 25.0%
!!! TTATCCTTCCTTTAATTTGA+AGG - Chr8:86128789-86128808 MsG0880047426.01.T01:three_prime_UTR 25.0%
AAAAATTAGAGTTCAGTGTG+AGG + Chr8:86128759-86128778 None:intergenic 30.0%
AAAATTAGAGTTCAGTGTGA+GGG + Chr8:86128758-86128777 None:intergenic 30.0%
AAGATCAAAGAGGAATGAAA+GGG + Chr8:86128549-86128568 None:intergenic 30.0%
ACAAGTAAATCCATTATGCA+GGG + Chr8:86129190-86129209 None:intergenic 30.0%
ACTGAATGTTCTATTAAAGC+GGG + Chr8:86130187-86130206 None:intergenic 30.0%
ATAGCTTATGAAACAGCTTA+TGG + Chr8:86129000-86129019 None:intergenic 30.0%
ATGTCCTTCAAATTAAAGGA+AGG + Chr8:86128796-86128815 None:intergenic 30.0%
CACTGAATGTTCTATTAAAG+CGG + Chr8:86130188-86130207 None:intergenic 30.0%
CATTACATTACAGAAATAGC+TGG + Chr8:86129781-86129800 None:intergenic 30.0%
GACATATTTGATGGAATGAT+TGG - Chr8:86128811-86128830 MsG0880047426.01.T01:three_prime_UTR 30.0%
TAGATCGAAATCAAAAGCAA+CGG + Chr8:86128307-86128326 None:intergenic 30.0%
TCATAAAACCAAGATCAAAG+AGG + Chr8:86128559-86128578 None:intergenic 30.0%
TCGTATTGTAGAATTCTCTA+AGG - Chr8:86128616-86128635 MsG0880047426.01.T01:three_prime_UTR 30.0%
TGAACATATTTGCGACAATA+TGG - Chr8:86129590-86129609 MsG0880047426.01.T01:three_prime_UTR 30.0%
TGTAATGTAATGAGAGAGTT+TGG - Chr8:86129789-86129808 MsG0880047426.01.T01:three_prime_UTR 30.0%
TTGTGAATGATAACACCTTA+TGG - Chr8:86129436-86129455 MsG0880047426.01.T01:three_prime_UTR 30.0%
! AAAACTCACAAAAGCATGAT+TGG - Chr8:86130368-86130387 MsG0880047426.01.T01:five_prime_UTR 30.0%
! AACTATGTCAAGGATGTTTT+TGG - Chr8:86129832-86129851 MsG0880047426.01.T01:intron 30.0%
! AGCAACTTTTTGTAACCATA+AGG + Chr8:86129454-86129473 None:intergenic 30.0%
! TTGAAACGATTTGAGATCTT+AGG - Chr8:86128855-86128874 MsG0880047426.01.T01:three_prime_UTR 30.0%
! TTTTATGAATCTCTGTGCTA+TGG - Chr8:86128571-86128590 MsG0880047426.01.T01:three_prime_UTR 30.0%
!! TTGCTTTTGCTTGTTCTAAA+TGG - Chr8:86129335-86129354 MsG0880047426.01.T01:three_prime_UTR 30.0%
!!! AGTTTTTTTACCTTTGCGAT+CGG + Chr8:86128520-86128539 None:intergenic 30.0%
AGCTTTCTCTTTGTCATGAT+TGG - Chr8:86129275-86129294 MsG0880047426.01.T01:three_prime_UTR 35.0%
ATGACGATGTAATTAACGCT+TGG - Chr8:86130085-86130104 MsG0880047426.01.T01:CDS 35.0%
CAAGATCAAAGAGGAATGAA+AGG + Chr8:86128550-86128569 None:intergenic 35.0%
CACAAGTAAATCCATTATGC+AGG + Chr8:86129191-86129210 None:intergenic 35.0%
CCAACGATGATGTTGTTAAT+TGG + Chr8:86128712-86128731 None:intergenic 35.0%
CCAATTAACAACATCATCGT+TGG - Chr8:86128709-86128728 MsG0880047426.01.T01:three_prime_UTR 35.0%
CTTTCATTCCTCTTTGATCT+TGG - Chr8:86128548-86128567 MsG0880047426.01.T01:three_prime_UTR 35.0%
GTTAGTGACTTTCTCTTTGT+TGG - Chr8:86129297-86129316 MsG0880047426.01.T01:three_prime_UTR 35.0%
TGGATCGAAAACAGAATCAA+TGG + Chr8:86128445-86128464 None:intergenic 35.0%
TTGTAGTTTCCATTATCCTG+TGG + Chr8:86130117-86130136 None:intergenic 35.0%
TTTATGGTTTCCCTGCATAA+TGG - Chr8:86129177-86129196 MsG0880047426.01.T01:three_prime_UTR 35.0%
! TGGTTATTTCCACAGGATAA+TGG - Chr8:86130105-86130124 MsG0880047426.01.T01:CDS 35.0%
!! AATTCAAGTTGTGAAGCGTA+TGG - Chr8:86130147-86130166 MsG0880047426.01.T01:intron 35.0%
!!! GACTTTCTCTTTGTTGGTTT+TGG - Chr8:86129303-86129322 MsG0880047426.01.T01:three_prime_UTR 35.0%
AACAACATCATCGTTGGATC+TGG - Chr8:86128715-86128734 MsG0880047426.01.T01:three_prime_UTR 40.0%
AGACCTTTGTTCTGTGTGTT+GGG + Chr8:86128204-86128223 None:intergenic 40.0%
CTTCACAACTTGAATTCCTG+AGG + Chr8:86130143-86130162 None:intergenic 40.0%
GAGAGTTTGGTATTAGTCGT+AGG - Chr8:86129802-86129821 MsG0880047426.01.T01:three_prime_UTR 40.0%
GTCATTACACAAGCTCCTTA+GGG + Chr8:86129759-86129778 None:intergenic 40.0%
! AAGGAGCAAAGCGTTTAGAA+TGG - Chr8:86130326-86130345 MsG0880047426.01.T01:intron 40.0%
! GACTTTTGACCCATTGTTCA+AGG - Chr8:86130307-86130326 MsG0880047426.01.T01:intron 40.0%
! TAACGCTTGGTTATTTCCAC+AGG - Chr8:86130098-86130117 MsG0880047426.01.T01:CDS 40.0%
!! TTTTGTTGTGATGGGATTCG+TGG - Chr8:86128661-86128680 MsG0880047426.01.T01:three_prime_UTR 40.0%
AATTCGCTAAGGACAGCGTA+AGG - Chr8:86128472-86128491 MsG0880047426.01.T01:three_prime_UTR 45.0%
ACGCTTTGCTCCTTGAACAA+TGG + Chr8:86130320-86130339 None:intergenic 45.0%
ATCCCCAACACACAGAACAA+AGG - Chr8:86128198-86128217 MsG0880047426.01.T01:three_prime_UTR 45.0%
ATGGAAACTACAATCGCCTC+AGG - Chr8:86130124-86130143 MsG0880047426.01.T01:CDS 45.0%
CATCATCGTTGGATCTGGTT+AGG - Chr8:86128720-86128739 MsG0880047426.01.T01:three_prime_UTR 45.0%
CCACTAAGACTTCGATCGTT+AGG - Chr8:86128231-86128250 MsG0880047426.01.T01:three_prime_UTR 45.0%
CCTAACGATCGAAGTCTTAG+TGG + Chr8:86128234-86128253 None:intergenic 45.0%
CGACTTGCATAAGCACTTGT+GGG + Chr8:86129101-86129120 None:intergenic 45.0%
CGCTTTGCTCCTTGAACAAT+GGG + Chr8:86130319-86130338 None:intergenic 45.0%
GACCTTTGTTCTGTGTGTTG+GGG + Chr8:86128203-86128222 None:intergenic 45.0%
GAGACCTTTGTTCTGTGTGT+TGG + Chr8:86128205-86128224 None:intergenic 45.0%
GGTCATTACACAAGCTCCTT+AGG + Chr8:86129760-86129779 None:intergenic 45.0%
TACACACTTTGCTCGAGACA+CGG + Chr8:86130066-86130085 None:intergenic 45.0%
TCCACTCAGAGAATTCGCTA+AGG - Chr8:86128461-86128480 MsG0880047426.01.T01:three_prime_UTR 45.0%
TCCCATCACAACAAAACCGA+TGG + Chr8:86128657-86128676 None:intergenic 45.0%
TCCTTAGCGAATTCTCTGAG+TGG + Chr8:86128465-86128484 None:intergenic 45.0%
TTGAGATCTTAGGCCCTGTT+TGG - Chr8:86128865-86128884 MsG0880047426.01.T01:three_prime_UTR 45.0%
! TCAAGTTGTGAAGCGTATGG+AGG - Chr8:86130150-86130169 MsG0880047426.01.T01:intron 45.0%
! TCGACTTGCATAAGCACTTG+TGG + Chr8:86129102-86129121 None:intergenic 45.0%
!! TACCTTTGCGATCGGTTTTG+TGG + Chr8:86128512-86128531 None:intergenic 45.0%
!!! GCCATCGGTTTTGTTGTGAT+GGG - Chr8:86128653-86128672 MsG0880047426.01.T01:three_prime_UTR 45.0%
!!! TGCCATCGGTTTTGTTGTGA+TGG - Chr8:86128652-86128671 MsG0880047426.01.T01:three_prime_UTR 45.0%
ACACAAGCTCCTTAGGGCAT+AGG + Chr8:86129753-86129772 None:intergenic 50.0%
AGGCTGCAGCAACTATGTCA+AGG - Chr8:86129822-86129841 MsG0880047426.01.T01:three_prime_UTR 50.0%
TGAAGCGTATGGAGGCAGTA+GGG - Chr8:86130158-86130177 MsG0880047426.01.T01:intron 50.0%
TGCCACAAAACCGATCGCAA+AGG - Chr8:86128507-86128526 MsG0880047426.01.T01:three_prime_UTR 50.0%
CTCCTTAGGGCATAGGTAGC+CGG + Chr8:86129746-86129765 None:intergenic 55.0%
GAAGCGTATGGAGGCAGTAG+GGG - Chr8:86130159-86130178 MsG0880047426.01.T01:intron 55.0%
GTGAAGCGTATGGAGGCAGT+AGG - Chr8:86130157-86130176 MsG0880047426.01.T01:intron 55.0%
GACCGGCTACCTATGCCCTA+AGG - Chr8:86129741-86129760 MsG0880047426.01.T01:three_prime_UTR 60.0%
GTTGCTGTGCGCACTGCCAT+CGG - Chr8:86128638-86128657 MsG0880047426.01.T01:three_prime_UTR 60.0%
Chromosome Type Strat End Strand Name
Chr8 gene 86128180 86130411 86128180 ID=MsG0880047426.01;Name=MsG0880047426.01
Chr8 mRNA 86128180 86130411 86128180 ID=MsG0880047426.01.T01;Parent=MsG0880047426.01;Name=MsG0880047426.01.T01;_AED=0.36;_eAED=0.36;_QI=84|1|1|1|0.5|0.33|3|1666|70
Chr8 exon 86130339 86130411 86130339 ID=MsG0880047426.01.T01:exon:2029;Parent=MsG0880047426.01.T01
Chr8 five_prime_UTR 86130339 86130411 86130339 ID=MsG0880047426.01.T01:five_prime_utr;Parent=MsG0880047426.01.T01
Chr8 five_prime_UTR 86130157 86130167 86130157 ID=MsG0880047426.01.T01:five_prime_utr;Parent=MsG0880047426.01.T01
Chr8 CDS 86130063 86130156 86130063 ID=MsG0880047426.01.T01:cds;Parent=MsG0880047426.01.T01
Chr8 CDS 86129846 86129964 86129846 ID=MsG0880047426.01.T01:cds;Parent=MsG0880047426.01.T01
Chr8 three_prime_UTR 86128180 86129845 86128180 ID=MsG0880047426.01.T01:three_prime_utr;Parent=MsG0880047426.01.T01
Chr8 mRNA 86128180 86130405 86128180 ID=MsG0880047426.01.T02;Parent=MsG0880047426.01;Name=MsG0880047426.01.T02;_AED=0.36;_eAED=0.36;_QI=45|1|1|1|0.5|0.33|3|1666|70
Chr8 exon 86130372 86130405 86130372 ID=MsG0880047426.01.T02:exon:2032;Parent=MsG0880047426.01.T02
Chr8 five_prime_UTR 86130372 86130405 86130372 ID=MsG0880047426.01.T02:five_prime_utr;Parent=MsG0880047426.01.T02
Chr8 five_prime_UTR 86130157 86130167 86130157 ID=MsG0880047426.01.T02:five_prime_utr;Parent=MsG0880047426.01.T02
Chr8 CDS 86130063 86130156 86130063 ID=MsG0880047426.01.T02:cds;Parent=MsG0880047426.01.T02
Chr8 CDS 86129846 86129964 86129846 ID=MsG0880047426.01.T02:cds;Parent=MsG0880047426.01.T02
Chr8 three_prime_UTR 86128180 86129845 86128180 ID=MsG0880047426.01.T02:three_prime_utr;Parent=MsG0880047426.01.T02
Gene Sequence

>MsG0880047426.01.T02

ATGGACGCCATTGATTCTGTTTTCGATCCACTCAGAGAATTCGCTAAGGACAGCGTAAGGCTCGTCAAGCGATGCCACAAAACCGATCGCAAAGAATTCTCTAAGGTTGCTGTGCGCACTGCCATCGGTTTTGTTGTGATGGGATTCGTGGCTTTTTCGTTAAGCTCATTTTCATTCCAATTAACAACATCATCGTTGGATCTGGTTAGGTAA

>MsG0880047426.01.T01

ATGGACGCCATTGATTCTGTTTTCGATCCACTCAGAGAATTCGCTAAGGACAGCGTAAGGCTCGTCAAGCGATGCCACAAAACCGATCGCAAAGAATTCTCTAAGGTTGCTGTGCGCACTGCCATCGGTTTTGTTGTGATGGGATTCGTGGCTTTTTCGTTAAGCTCATTTTCATTCCAATTAACAACATCATCGTTGGATCTGGTTAGGTAA
Protein sequence

>MsG0880047426.01.T02

MDAIDSVFDPLREFAKDSVRLVKRCHKTDRKEFSKVAVRTAIGFVVMGFVAFSLSSFSFQLTTSSLDLVR*

>MsG0880047426.01.T01

MDAIDSVFDPLREFAKDSVRLVKRCHKTDRKEFSKVAVRTAIGFVVMGFVAFSLSSFSFQLTTSSLDLVR*