AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880047229.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880047229.01.T01 MTR_4g123760 50.777 193 5 3 1 178 1 118 6.10e-48 152
MsG0880047229.01.T01 MTR_7g096540 64.211 95 1 1 84 178 1 62 5.07e-32 110
MsG0880047229.01.T01 MTR_1g086310 40.373 161 21 2 18 178 33 118 1.86e-29 105
MsG0880047229.01.T01 MTR_4g048510 31.677 161 35 2 18 178 32 117 6.23e-22 86.3
MsG0880047229.01.T01 MTR_2g088230 30.508 177 45 3 5 178 4 105 3.92e-21 83.6
MsG0880047229.01.T01 MTR_2g023430 30.435 161 37 2 18 178 32 117 6.04e-20 80.9
MsG0880047229.01.T01 MTR_4g101090 30.435 161 37 2 18 178 32 117 8.41e-19 78.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880047229.01.T01 AT3G15580 36.316 190 31 3 4 178 1 115 1.72e-30 107
MsG0880047229.01.T01 AT3G06420 39.752 161 22 2 18 178 34 119 2.49e-29 105
MsG0880047229.01.T01 AT4G21980 31.677 161 35 2 18 178 32 117 4.01e-21 84.0
MsG0880047229.01.T01 AT4G21980 31.677 161 35 2 18 178 47 132 4.78e-21 84.3
MsG0880047229.01.T01 AT2G05630 30.435 161 37 2 18 178 32 117 6.37e-21 83.6
MsG0880047229.01.T01 AT4G04620 31.056 161 36 2 18 178 32 117 1.36e-20 82.8
MsG0880047229.01.T01 AT4G04620 31.056 161 36 2 18 178 32 117 1.36e-20 82.8
MsG0880047229.01.T01 AT4G04620 31.056 161 36 2 18 178 32 117 1.36e-20 82.8
MsG0880047229.01.T01 AT2G05630 30.435 161 37 2 18 178 76 161 2.76e-20 83.2
MsG0880047229.01.T01 AT1G62040 31.056 161 36 2 18 178 32 117 3.97e-20 81.3
MsG0880047229.01.T01 AT3G60640 30.435 161 37 2 18 178 32 117 1.32e-18 77.4
MsG0880047229.01.T01 AT2G45170 38.235 102 30 1 77 178 50 118 2.38e-18 77.0
MsG0880047229.01.T01 AT2G45170 38.235 102 30 1 77 178 50 118 2.38e-18 77.0
MsG0880047229.01.T01 AT1G62040 33.663 101 25 1 18 118 32 90 1.27e-12 61.2

Find 32 sgRNAs with CRISPR-Local

Find 101 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACTTCTTCTTGTCCAATTC+AGG 0.278998 8:+83597623 None:intergenic
CCACATAAGATGAGAAGATT+TGG 0.315556 8:+83596385 None:intergenic
CATCCTCCTCCTTGTAAGTT+TGG 0.322568 8:+83596307 None:intergenic
TAGGACAGACCTACCTGAAT+TGG 0.369195 8:-83597636 MsG0880047229.01.T01:CDS
GAGAGAGAATTCTTGTTTGA+AGG 0.384970 8:+83597925 None:intergenic
CTCCTTGTAAGTTTGGTAGA+TGG 0.391844 8:+83596314 None:intergenic
TACAGCAGTGAGAAAACATT+TGG 0.420898 8:-83596267 MsG0880047229.01.T01:CDS
TCATCATTGAGAAATATTCT+AGG 0.422511 8:-83597655 MsG0880047229.01.T01:CDS
AGAAAACAAAATATGAGATT+AGG 0.438353 8:+83596870 None:intergenic
AGTAGGCTACGTTTGCCTCC+TGG 0.446454 8:-83596786 MsG0880047229.01.T01:CDS
GTCATAAGACTAGCTGTAGA+TGG 0.448920 8:+83596339 None:intergenic
AAGATGCATTTACCAGTTTG+AGG 0.454421 8:+83596729 None:intergenic
GTAGGCTACGTTTGCCTCCT+GGG 0.455739 8:-83596785 MsG0880047229.01.T01:CDS
CCAAATCTTCTCATCTTATG+TGG 0.487490 8:-83596385 MsG0880047229.01.T01:CDS
AGTAATGAGAGTTGATAAGA+TGG 0.500091 8:-83597393 MsG0880047229.01.T01:CDS
AATGAGAGTTGATAAGATGG+AGG 0.518026 8:-83597390 MsG0880047229.01.T01:CDS
CTCCATCTACCAAACTTACA+AGG 0.518610 8:-83596316 MsG0880047229.01.T01:CDS
TCGTATCAGGTGGTTTGAGC+TGG 0.519794 8:-83597441 MsG0880047229.01.T01:intron
CAAACTTACAAGGAGGAGGA+TGG 0.523873 8:-83596306 MsG0880047229.01.T01:CDS
TTCAAACAAGAATTCTCTCT+CGG 0.525359 8:-83597923 MsG0880047229.01.T01:CDS
GTTCCTCGAGACATGTCTGT+TGG 0.526742 8:-83596831 MsG0880047229.01.T01:CDS
TCTTCTTGTCCAATTCAGGT+AGG 0.548533 8:+83597627 None:intergenic
ATGAGAGTTGATAAGATGGA+GGG 0.565449 8:-83597389 MsG0880047229.01.T01:CDS
AGAGTTGATAAGATGGAGGG+TGG 0.568286 8:-83597386 MsG0880047229.01.T01:intron
AAAATAAACAGAGCTTTCCC+AGG 0.586278 8:+83596768 None:intergenic
CTACCAAACTTACAAGGAGG+AGG 0.590671 8:-83596310 MsG0880047229.01.T01:CDS
CTTGTAAGTTTGGTAGATGG+AGG 0.594122 8:+83596317 None:intergenic
AAACTTACAAGGAGGAGGAT+GGG 0.597052 8:-83596305 MsG0880047229.01.T01:CDS
TAGCTGTAGATGGAATCAAA+AGG 0.599057 8:+83596349 None:intergenic
ATAAACAGAGCTTTCCCAGG+AGG 0.685967 8:+83596771 None:intergenic
TGTCCAACAGACATGTCTCG+AGG 0.712779 8:+83596828 None:intergenic
CATCTACCAAACTTACAAGG+AGG 0.745667 8:-83596313 MsG0880047229.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATATATTATAGAATTCTTTT+TGG - Chr8:83597200-83597219 MsG0880047229.01.T01:intron 10.0%
!! ATTGATTGAGAAAAAAAAAA+TGG + Chr8:83596478-83596497 None:intergenic 15.0%
!! ATTTATCTTATTCTTATTGA+AGG - Chr8:83596526-83596545 MsG0880047229.01.T01:intron 15.0%
!! TACAAAATTGACAAATTTAT+AGG + Chr8:83596726-83596745 None:intergenic 15.0%
!!! TATTTTATATTGAAATGTGA+GGG + Chr8:83596333-83596352 None:intergenic 15.0%
!!! TTATTTTATATTGAAATGTG+AGG + Chr8:83596334-83596353 None:intergenic 15.0%
!! AGAAAACAAAATATGAGATT+AGG + Chr8:83597337-83597356 None:intergenic 20.0%
!! GTTATAGTAGTTATTAGTTA+AGG - Chr8:83597517-83597536 MsG0880047229.01.T01:intron 20.0%
!!! AAATTCAAAATCAGCTTTTA+AGG + Chr8:83597149-83597168 None:intergenic 20.0%
!!! AATACCAATTTTGATTTGAA+GGG - Chr8:83597311-83597330 MsG0880047229.01.T01:intron 20.0%
!!! AATGATGATGTTGAATAATT+AGG + Chr8:83596635-83596654 None:intergenic 20.0%
!!! ATGTTTTCATTTTGCATTTT+TGG - Chr8:83596603-83596622 MsG0880047229.01.T01:intron 20.0%
!!! TTATTCACATTTTAAGTAGT+AGG - Chr8:83597401-83597420 MsG0880047229.01.T01:CDS 20.0%
! AATGGAGGAGAAAAATAATA+CGG + Chr8:83596460-83596479 None:intergenic 25.0%
! ATGCAATGCATAATAAATCA+TGG - Chr8:83597739-83597758 MsG0880047229.01.T01:intron 25.0%
! GATTGAGAAAAAAAAAATGG+AGG + Chr8:83596475-83596494 None:intergenic 25.0%
! TAAAGCATGGAAAATACAAA+TGG + Chr8:83597041-83597060 None:intergenic 25.0%
! TCATCATTGAGAAATATTCT+AGG - Chr8:83596549-83596568 MsG0880047229.01.T01:intron 25.0%
! TGCAATGCATAATAAATCAT+GGG - Chr8:83597740-83597759 MsG0880047229.01.T01:intron 25.0%
!! TTGTCAATTTTGTATGTGTT+GGG - Chr8:83596732-83596751 MsG0880047229.01.T01:CDS 25.0%
!! TTTATAAGCTCTAGTTGATT+AGG + Chr8:83597110-83597129 None:intergenic 25.0%
!! TTTGTCAATTTTGTATGTGT+TGG - Chr8:83596731-83596750 MsG0880047229.01.T01:CDS 25.0%
!! TTTTCTCTCTTTTAGATACT+TGG - Chr8:83597351-83597370 MsG0880047229.01.T01:intron 25.0%
!!! AAGCTGATTTTGAATTTATG+TGG - Chr8:83597152-83597171 MsG0880047229.01.T01:intron 25.0%
!!! GAATACCAATTTTGATTTGA+AGG - Chr8:83597310-83597329 MsG0880047229.01.T01:intron 25.0%
AACTAGAGCTTATAAAGCTT+GGG - Chr8:83597114-83597133 MsG0880047229.01.T01:intron 30.0%
AAGACTGAGAAAAGCTATAA+GGG - Chr8:83596862-83596881 MsG0880047229.01.T01:CDS 30.0%
ATGGAGGAGAAAAATAATAC+GGG + Chr8:83596459-83596478 None:intergenic 30.0%
CAATGCATAATAAATCATGG+GGG - Chr8:83597742-83597761 MsG0880047229.01.T01:intron 30.0%
GCAATGCATAATAAATCATG+GGG - Chr8:83597741-83597760 MsG0880047229.01.T01:intron 30.0%
TGATGCATGATAGAATGTTA+TGG - Chr8:83596930-83596949 MsG0880047229.01.T01:intron 30.0%
TTAGAGCATGTTTAGTATCA+CGG - Chr8:83597628-83597647 MsG0880047229.01.T01:CDS 30.0%
TTCAAACAAGAATTCTCTCT+CGG - Chr8:83596281-83596300 MsG0880047229.01.T01:CDS 30.0%
! ATTGCATTAATGTTTGCTGA+TGG - Chr8:83596363-83596382 MsG0880047229.01.T01:CDS 30.0%
!! AGTAATGAGAGTTGATAAGA+TGG - Chr8:83596811-83596830 MsG0880047229.01.T01:CDS 30.0%
!! CTTTTTGGTGATAGCAATAT+AGG - Chr8:83597215-83597234 MsG0880047229.01.T01:intron 30.0%
!!! GGATTTTGAGATGAAAACAA+AGG + Chr8:83596312-83596331 None:intergenic 30.0%
AAAAACACACTTCCTCAAAC+TGG - Chr8:83597463-83597482 MsG0880047229.01.T01:intron 35.0%
AAAATAAACAGAGCTTTCCC+AGG + Chr8:83597439-83597458 None:intergenic 35.0%
AAATAATACGGGAACTCGAT+CGG + Chr8:83596448-83596467 None:intergenic 35.0%
AAGATGCATTTACCAGTTTG+AGG + Chr8:83597478-83597497 None:intergenic 35.0%
CAACTAGAGCTTATAAAGCT+TGG - Chr8:83597113-83597132 MsG0880047229.01.T01:intron 35.0%
CCAAATCTTCTCATCTTATG+TGG - Chr8:83597819-83597838 MsG0880047229.01.T01:intron 35.0%
CCACATAAGATGAGAAGATT+TGG + Chr8:83597822-83597841 None:intergenic 35.0%
GAAGACTGAGAAAAGCTATA+AGG - Chr8:83596861-83596880 MsG0880047229.01.T01:CDS 35.0%
GAGTGTGGAGATTAATGAAA+TGG - Chr8:83596898-83596917 MsG0880047229.01.T01:intron 35.0%
GGAAACTATTAAGAAGAGTG+TGG - Chr8:83596883-83596902 MsG0880047229.01.T01:intron 35.0%
TACAGCAGTGAGAAAACATT+TGG - Chr8:83597937-83597956 MsG0880047229.01.T01:CDS 35.0%
TACTTCTTCTTGTCCAATTC+AGG + Chr8:83596584-83596603 None:intergenic 35.0%
TAGCTGTAGATGGAATCAAA+AGG + Chr8:83597858-83597877 None:intergenic 35.0%
TAGGCCCTTCAAATCAAAAT+TGG + Chr8:83597318-83597337 None:intergenic 35.0%
TCAAACGTGCACAAAATCAA+TGG - Chr8:83597706-83597725 MsG0880047229.01.T01:intron 35.0%
! CAATTTTGTATGTGTTGGGA+TGG - Chr8:83596736-83596755 MsG0880047229.01.T01:CDS 35.0%
! GAGAGAGAATTCTTGTTTGA+AGG + Chr8:83596282-83596301 None:intergenic 35.0%
!! AATGAGAGTTGATAAGATGG+AGG - Chr8:83596814-83596833 MsG0880047229.01.T01:CDS 35.0%
!! ATGAGAGTTGATAAGATGGA+GGG - Chr8:83596815-83596834 MsG0880047229.01.T01:CDS 35.0%
AAACTTACAAGGAGGAGGAT+GGG - Chr8:83597899-83597918 MsG0880047229.01.T01:intron 40.0%
AATAATACGGGAACTCGATC+GGG + Chr8:83596447-83596466 None:intergenic 40.0%
AGCATGTTTAGTATCACGGT+GGG - Chr8:83597632-83597651 MsG0880047229.01.T01:CDS 40.0%
CATCTACCAAACTTACAAGG+AGG - Chr8:83597891-83597910 MsG0880047229.01.T01:intron 40.0%
CTCCATCTACCAAACTTACA+AGG - Chr8:83597888-83597907 MsG0880047229.01.T01:intron 40.0%
CTCCTTGTAAGTTTGGTAGA+TGG + Chr8:83597893-83597912 None:intergenic 40.0%
CTTGTAAGTTTGGTAGATGG+AGG + Chr8:83597890-83597909 None:intergenic 40.0%
GAGTTAGACTGAAGCTTCTA+AGG - Chr8:83597177-83597196 MsG0880047229.01.T01:intron 40.0%
TAGTTAAGGTTCTGCCTTCT+TGG - Chr8:83597531-83597550 MsG0880047229.01.T01:intron 40.0%
TCTTCTTGTCCAATTCAGGT+AGG + Chr8:83596580-83596599 None:intergenic 40.0%
TGACGAGTTAGACAGAATCA+CGG + Chr8:83597681-83597700 None:intergenic 40.0%
! ACGGTGAACTATTGCGATTT+TGG + Chr8:83597662-83597681 None:intergenic 40.0%
! CAACAAAGCCTTATCACACT+AGG + Chr8:83596984-83597003 None:intergenic 40.0%
! GTCATAAGACTAGCTGTAGA+TGG + Chr8:83597868-83597887 None:intergenic 40.0%
ATAAACAGAGCTTTCCCAGG+AGG + Chr8:83597436-83597455 None:intergenic 45.0%
ATGGCGTTGCTCAATTCATG+TGG - Chr8:83596949-83596968 MsG0880047229.01.T01:intron 45.0%
CAAACTTACAAGGAGGAGGA+TGG - Chr8:83597898-83597917 MsG0880047229.01.T01:intron 45.0%
CATCCTCCTCCTTGTAAGTT+TGG + Chr8:83597900-83597919 None:intergenic 45.0%
CTACCAAACTTACAAGGAGG+AGG - Chr8:83597894-83597913 MsG0880047229.01.T01:intron 45.0%
GAGCATGTTTAGTATCACGG+TGG - Chr8:83597631-83597650 MsG0880047229.01.T01:CDS 45.0%
GAGGGTGGTTAAATCACTAG+AGG - Chr8:83596833-83596852 MsG0880047229.01.T01:CDS 45.0%
GGTGGTTAAATCACTAGAGG+TGG - Chr8:83596836-83596855 MsG0880047229.01.T01:CDS 45.0%
GGTTAAATCACTAGAGGTGG+AGG - Chr8:83596839-83596858 MsG0880047229.01.T01:CDS 45.0%
TAGACGAGTCACATCCAAGA+AGG + Chr8:83597548-83597567 None:intergenic 45.0%
TAGGACAGACCTACCTGAAT+TGG - Chr8:83596568-83596587 MsG0880047229.01.T01:intron 45.0%
TGACCACACCTAGTGTGATA+AGG - Chr8:83596973-83596992 MsG0880047229.01.T01:intron 45.0%
TTGGGATGGAAACTCGTATC+AGG - Chr8:83596750-83596769 MsG0880047229.01.T01:CDS 45.0%
! AAGCCTTATCACACTAGGTG+TGG + Chr8:83596979-83596998 None:intergenic 45.0%
! GCGTGAGACAATCTAAAGCA+TGG + Chr8:83597054-83597073 None:intergenic 45.0%
!! AGAGTTGATAAGATGGAGGG+TGG - Chr8:83596818-83596837 MsG0880047229.01.T01:CDS 45.0%
!! ATAAGATAAATAAATAAAAA+AGG + Chr8:83596517-83596536 None:intergenic 5.0%
!! TTAATAAAATAAAAAAATCA+AGG + Chr8:83597781-83597800 None:intergenic 5.0%
!!! AATTTATAATGTTTTTATTT+AGG - Chr8:83596657-83596676 MsG0880047229.01.T01:intron 5.0%
GAATCCAGATGAACGACGCA+AGG - Chr8:83596395-83596414 MsG0880047229.01.T01:intron 50.0%
GATTCCTTGCGTCGTTCATC+TGG + Chr8:83596402-83596421 None:intergenic 50.0%
GGATGGAAACTCGTATCAGG+TGG - Chr8:83596753-83596772 MsG0880047229.01.T01:CDS 50.0%
GTTCCTCGAGACATGTCTGT+TGG - Chr8:83597373-83597392 MsG0880047229.01.T01:intron 50.0%
TCAACACCCTCCTTATGCTC+AGG + Chr8:83597076-83597095 None:intergenic 50.0%
TCGTATCAGGTGGTTTGAGC+TGG - Chr8:83596763-83596782 MsG0880047229.01.T01:CDS 50.0%
TGTCCAACAGACATGTCTCG+AGG + Chr8:83597379-83597398 None:intergenic 50.0%
TTGTCTCACGCCTGAGCATA+AGG - Chr8:83597063-83597082 MsG0880047229.01.T01:intron 50.0%
AGTAGGCTACGTTTGCCTCC+TGG - Chr8:83597418-83597437 MsG0880047229.01.T01:CDS 55.0%
CTCACGCCTGAGCATAAGGA+GGG - Chr8:83597067-83597086 MsG0880047229.01.T01:intron 55.0%
GTAGGCTACGTTTGCCTCCT+GGG - Chr8:83597419-83597438 MsG0880047229.01.T01:CDS 55.0%
TCTCACGCCTGAGCATAAGG+AGG - Chr8:83597066-83597085 MsG0880047229.01.T01:intron 55.0%
Chromosome Type Strat End Strand Name
Chr8 gene 83596263 83597963 83596263 ID=MsG0880047229.01;Name=MsG0880047229.01
Chr8 mRNA 83596263 83597963 83596263 ID=MsG0880047229.01.T01;Parent=MsG0880047229.01;Name=MsG0880047229.01.T01;_AED=0.50;_eAED=0.68;_QI=0|0|0|1|0|0|5|0|178
Chr8 exon 83597913 83597963 83597913 ID=MsG0880047229.01.T01:exon:20850;Parent=MsG0880047229.01.T01
Chr8 exon 83597602 83597678 83597602 ID=MsG0880047229.01.T01:exon:20849;Parent=MsG0880047229.01.T01
Chr8 exon 83597387 83597454 83597387 ID=MsG0880047229.01.T01:exon:20848;Parent=MsG0880047229.01.T01
Chr8 exon 83596704 83596894 83596704 ID=MsG0880047229.01.T01:exon:20847;Parent=MsG0880047229.01.T01
Chr8 exon 83596263 83596412 83596263 ID=MsG0880047229.01.T01:exon:20846;Parent=MsG0880047229.01.T01
Chr8 CDS 83597913 83597963 83597913 ID=MsG0880047229.01.T01:cds;Parent=MsG0880047229.01.T01
Chr8 CDS 83597602 83597678 83597602 ID=MsG0880047229.01.T01:cds;Parent=MsG0880047229.01.T01
Chr8 CDS 83597387 83597454 83597387 ID=MsG0880047229.01.T01:cds;Parent=MsG0880047229.01.T01
Chr8 CDS 83596704 83596894 83596704 ID=MsG0880047229.01.T01:cds;Parent=MsG0880047229.01.T01
Chr8 CDS 83596263 83596412 83596263 ID=MsG0880047229.01.T01:cds;Parent=MsG0880047229.01.T01
Gene Sequence

>MsG0880047229.01.T01

ATGGGAAAGATCAATTCCTTCAAACAAGAATTCTCTCTCGGTAATTCCTTTGTCATCATTGAGAAATATTCTAGGACAGACCTACCTGAATTGGACAAGAAGAAGTATGTTTTCATTTTGCATTTTTGGTGGTTTGAGCTGGTAGAGAGAAATCTTGTAGATAATATAGTAATGAGAGTTGATAAGATGGAGGGTGGGCCTAATCTCATATTTTGTTTTCTCTCTTTTAGATACTTGGTTCCTCGAGACATGTCTGTTGGACAGTTTATTCACATTTTAAGTAGTAGGCTACGTTTGCCTCCTGGGAAAGCTCTGTTTATTTTTGTGAAAAACACACTTCCTCAAACTGGTAAATGCATCTTATATTATCACTATAATCTTGTTATAATGAACCAAATCTTCTCATCTTATGTGGAAGCTGATATATGCCTTTTGATTCCATCTACAGCTAGTCTTATGACCTCCATCTACCAAACTTACAAGGAGGAGGATGGGTTTCTGTATATGTGTTACAGCAGTGAGAAAACATTTGGTTAA
Protein sequence

>MsG0880047229.01.T01

MGKINSFKQEFSLGNSFVIIEKYSRTDLPELDKKKYVFILHFWWFELVERNLVDNIVMRVDKMEGGPNLIFCFLSFRYLVPRDMSVGQFIHILSSRLRLPPGKALFIFVKNTLPQTGKCILYYHYNLVIMNQIFSSYVEADICLLIPSTASLMTSIYQTYKEEDGFLYMCYSSEKTFG*