AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017670.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017670.01.T01 MTR_3g109860 95.918 147 6 0 12 158 1 147 4.10e-102 289
MsG0380017670.01.T01 MTR_8g021190 42.593 108 60 2 47 153 30 136 2.11e-24 92.8
MsG0380017670.01.T01 MTR_4g125030 41.121 107 62 1 34 139 9 115 3.00e-21 83.6
MsG0380017670.01.T01 MTR_5g006430 42.222 90 48 1 47 136 2 87 8.78e-21 82.0
MsG0380017670.01.T01 MTR_3g105340 36.111 108 68 1 47 154 11 117 7.25e-19 77.8
MsG0380017670.01.T01 MTR_4g125010 41.053 95 54 1 47 139 24 118 8.27e-19 78.6
MsG0380017670.01.T01 MTR_1g014930 35.185 108 66 2 35 139 4 110 7.52e-18 75.9
MsG0380017670.01.T01 MTR_8g013990 34.146 123 79 2 15 137 31 151 1.12e-17 76.3
MsG0380017670.01.T01 MTR_2g101140 34.146 123 78 3 15 137 32 151 1.39e-17 76.3
MsG0380017670.01.T01 MTR_1g103550 37.500 88 50 2 47 133 2 85 1.50e-15 68.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017670.01.T01 AT2G25780 37.143 140 86 2 19 156 7 146 1.04e-22 88.6
MsG0380017670.01.T01 AT1G79770 39.496 119 67 2 19 137 27 140 4.02e-20 82.0
MsG0380017670.01.T01 AT4G14819 41.111 90 47 2 47 136 2 85 3.26e-19 78.2
MsG0380017670.01.T01 AT1G72510 38.947 95 57 1 46 139 32 126 3.78e-19 79.7
MsG0380017670.01.T01 AT1G72510 38.947 95 57 1 46 139 32 126 3.78e-19 79.7
MsG0380017670.01.T01 AT3G22540 37.778 90 52 2 47 136 2 87 3.81e-17 72.8
MsG0380017670.01.T01 AT5G20670 40.278 72 43 0 45 116 20 91 2.78e-15 69.3
MsG0380017670.01.T01 AT5G25840 31.013 158 85 4 19 156 4 157 5.98e-14 66.2
MsG0380017670.01.T01 AT2G09970 35.354 99 56 3 46 139 32 127 7.57e-14 65.9
MsG0380017670.01.T01 AT1G54095 37.895 95 54 2 47 138 15 107 3.01e-13 63.9

Find 33 sgRNAs with CRISPR-Local

Find 93 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAAAGTTAATGAGAGTTTA+GGG 0.268783 3:+99402353 None:intergenic
GACAAAGTTAATGAGAGTTT+AGG 0.302938 3:+99402352 None:intergenic
AAAAGGAATTGTAAGGGATT+AGG 0.374238 3:-99402298 MsG0380017670.01.T01:CDS
AAGAAGATTATTGTGGAAAG+TGG 0.375021 3:-99402504 MsG0380017670.01.T01:CDS
TGATTGTGGCATTATATTCC+TGG 0.387287 3:+99402383 None:intergenic
TTTAGACAAAAGGAATTGTA+AGG 0.387538 3:-99402305 MsG0380017670.01.T01:CDS
TCTCATTAACTTTGTCTATG+AGG 0.404000 3:-99402345 MsG0380017670.01.T01:CDS
CTAAGAGAAGTTTAGACAAA+AGG 0.433359 3:-99402315 MsG0380017670.01.T01:CDS
AAGGCTACGAAAGGCGGTCT+CGG 0.484076 3:-99402665 MsG0380017670.01.T01:CDS
CTCATTAACTTTGTCTATGA+GGG 0.486170 3:-99402344 MsG0380017670.01.T01:CDS
GAAGCTGTTAAAGATAAAGT+AGG 0.501109 3:-99402463 MsG0380017670.01.T01:CDS
CTTCTTTCATCCCACAACAT+TGG 0.506214 3:+99402557 None:intergenic
TAGGAGTGCAAGTTATCCAT+AGG 0.508727 3:-99402260 None:intergenic
AATTAACAAATACTATAACT+TGG 0.525508 3:-99402629 MsG0380017670.01.T01:CDS
GTCTCAGATGGATTTCAGCC+AGG 0.530828 3:-99402401 MsG0380017670.01.T01:CDS
TTTAGGGTTAAGTCTGATTG+TGG 0.540154 3:+99402369 None:intergenic
GCACTTACAATAGGAGACCT+TGG 0.548085 3:+99404357 None:intergenic
AAGCTGAATGCCAATGTTGT+GGG 0.549736 3:-99402567 MsG0380017670.01.T01:CDS
AAGCTGTTAAAGATAAAGTA+GGG 0.550044 3:-99402462 MsG0380017670.01.T01:CDS
TGATGCTTTGAAGTCTCAGA+TGG 0.552591 3:-99402413 MsG0380017670.01.T01:CDS
GAAGTTGAAGAAGATTATTG+TGG 0.554061 3:-99402511 MsG0380017670.01.T01:CDS
TTAGACAAAAGGAATTGTAA+GGG 0.554428 3:-99402304 MsG0380017670.01.T01:CDS
GACCCTGAGCATGGACGAGA+TGG 0.559776 3:-99404388 None:intergenic
TAGGAATAACTAAGCTCACT+AGG 0.561524 3:-99402279 MsG0380017670.01.T01:CDS
TATTGTGGAAAGTGGGTGTG+TGG 0.596235 3:-99402496 MsG0380017670.01.T01:CDS
AGAAGATTATTGTGGAAAGT+GGG 0.599804 3:-99402503 MsG0380017670.01.T01:CDS
GAGTCAGCAAAGGCTACGAA+AGG 0.603985 3:-99402674 MsG0380017670.01.T01:CDS
GAAGCTGAATGCCAATGTTG+TGG 0.606985 3:-99402568 MsG0380017670.01.T01:CDS
AGGAGTGCAAGTTATCCATA+GGG 0.615137 3:-99402259 None:intergenic
TCAGCAAAGGCTACGAAAGG+CGG 0.643815 3:-99402671 MsG0380017670.01.T01:CDS
TATAGGAGGAGAGTCAGCAA+AGG 0.654980 3:-99402684 MsG0380017670.01.T01:intron
ACGAGATGGGTGAACGACCA+AGG 0.668821 3:-99404374 MsG0380017670.01.T01:CDS
ACCCTGAGCATGGACGAGAT+GGG 0.685133 3:-99404387 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTTTTAACAACAAAAAT+TGG + Chr3:99402962-99402981 None:intergenic 10.0%
!! AAAAGAATCAAAAAACTATA+AGG + Chr3:99402934-99402953 None:intergenic 15.0%
!! AATTAACAAATACTATAACT+TGG - Chr3:99404010-99404029 MsG0380017670.01.T01:intron 15.0%
!! ATGAATAAATTAGAGATTAA+TGG + Chr3:99403863-99403882 None:intergenic 15.0%
!! CAAAAAAAATATATCTTCAA+TGG + Chr3:99402699-99402718 None:intergenic 15.0%
!! TGAATAAATTAGAGATTAAT+GGG + Chr3:99403862-99403881 None:intergenic 15.0%
!!! TACTGATCAATTTTTTTTTA+TGG + Chr3:99402498-99402517 None:intergenic 15.0%
!! AAAAAAAAATCTTGAGTCTA+CGG - Chr3:99402325-99402344 MsG0380017670.01.T01:CDS 20.0%
!! TTAAAAGAGTTTACAAATAG+TGG - Chr3:99403115-99403134 MsG0380017670.01.T01:intron 20.0%
!!! AATTTTTTTTTATGGTGGTA+GGG + Chr3:99402490-99402509 None:intergenic 20.0%
!!! GACTCAAGATTTTTTTTTAT+TGG + Chr3:99402323-99402342 None:intergenic 20.0%
!!! TGATCAATTTTTTTTTATGG+TGG + Chr3:99402495-99402514 None:intergenic 20.0%
!!! TTTTGGTTGTGAAATTATTA+TGG + Chr3:99402744-99402763 None:intergenic 20.0%
!!! TTTTTTTTAGCACTTACAAT+AGG + Chr3:99402294-99402313 None:intergenic 20.0%
! AACAATACTCAATAGTACAA+AGG - Chr3:99402771-99402790 MsG0380017670.01.T01:intron 25.0%
! AAGCTGTTAAAGATAAAGTA+GGG - Chr3:99404177-99404196 MsG0380017670.01.T01:intron 25.0%
! AATTTCCTGTTTCCATATAT+AGG - Chr3:99403938-99403957 MsG0380017670.01.T01:intron 25.0%
! ACAAAGTTAATGAGAGTTTA+GGG + Chr3:99404289-99404308 None:intergenic 25.0%
! GAAATAACAAACTTTATGCA+TGG + Chr3:99403502-99403521 None:intergenic 25.0%
! TATCACATGTATATAGTTGA+AGG + Chr3:99403411-99403430 None:intergenic 25.0%
! TTAGACAAAAGGAATTGTAA+GGG - Chr3:99404335-99404354 MsG0380017670.01.T01:intron 25.0%
! TTTAGACAAAAGGAATTGTA+AGG - Chr3:99404334-99404353 MsG0380017670.01.T01:intron 25.0%
!! GTACAAAGGTAGTATTTTAT+TGG - Chr3:99402785-99402804 MsG0380017670.01.T01:intron 25.0%
!!! ATTTTTTTTTATGGTGGTAG+GGG + Chr3:99402489-99402508 None:intergenic 25.0%
!!! CAACTTTTTTCTTTCATTCA+TGG - Chr3:99403824-99403843 MsG0380017670.01.T01:intron 25.0%
!!! CAATTTTTTTTTATGGTGGT+AGG + Chr3:99402491-99402510 None:intergenic 25.0%
!!! GAGTATTGTTCTTCAATTTT+TGG + Chr3:99402761-99402780 None:intergenic 25.0%
!!! TTTTATCTACCTTGCTTTTT+AGG - Chr3:99403182-99403201 MsG0380017670.01.T01:intron 25.0%
AAAAGGAATTGTAAGGGATT+AGG - Chr3:99404341-99404360 MsG0380017670.01.T01:intron 30.0%
AAGAAGATTATTGTGGAAAG+TGG - Chr3:99404135-99404154 MsG0380017670.01.T01:intron 30.0%
AGAAGATTATTGTGGAAAGT+GGG - Chr3:99404136-99404155 MsG0380017670.01.T01:intron 30.0%
ATGTGTGTGTTTAAATGAGT+TGG - Chr3:99403336-99403355 MsG0380017670.01.T01:intron 30.0%
ATTTATACATTACGTGTGTG+TGG + Chr3:99403719-99403738 None:intergenic 30.0%
CACACACGTAATGTATAAAT+AGG - Chr3:99403719-99403738 MsG0380017670.01.T01:intron 30.0%
CTAAGAGAAGTTTAGACAAA+AGG - Chr3:99404324-99404343 MsG0380017670.01.T01:intron 30.0%
CTCATTAACTTTGTCTATGA+GGG - Chr3:99404295-99404314 MsG0380017670.01.T01:intron 30.0%
GAAGCTGTTAAAGATAAAGT+AGG - Chr3:99404176-99404195 MsG0380017670.01.T01:intron 30.0%
GAAGTTGAAGAAGATTATTG+TGG - Chr3:99404128-99404147 MsG0380017670.01.T01:intron 30.0%
GACAAAGTTAATGAGAGTTT+AGG + Chr3:99404290-99404309 None:intergenic 30.0%
GACAATGCATAATATACACA+AGG - Chr3:99402451-99402470 MsG0380017670.01.T01:CDS 30.0%
TAACAAACTTTATGCATGGA+TGG + Chr3:99403498-99403517 None:intergenic 30.0%
TCTCATTAACTTTGTCTATG+AGG - Chr3:99404294-99404313 MsG0380017670.01.T01:intron 30.0%
! AAGGAGTACAAGAATTAGTT+AGG + Chr3:99402915-99402934 None:intergenic 30.0%
! GTTGAAGGTGTATTAAAAAG+AGG + Chr3:99403396-99403415 None:intergenic 30.0%
AAACTTTATGCATGGATGGA+TGG + Chr3:99403494-99403513 None:intergenic 35.0%
CTTCAATGGAAATCAAAGTG+AGG + Chr3:99402685-99402704 None:intergenic 35.0%
GCAAGGTAGATAAAAGTTTG+AGG + Chr3:99403177-99403196 None:intergenic 35.0%
TAGGAATAACTAAGCTCACT+AGG - Chr3:99404360-99404379 MsG0380017670.01.T01:intron 35.0%
TGATTGTGGCATTATATTCC+TGG + Chr3:99404259-99404278 None:intergenic 35.0%
TTCCTGTTTCCATATATAGG+AGG - Chr3:99403941-99403960 MsG0380017670.01.T01:intron 35.0%
! CTCTGTACTTTGTTTATTGC+AGG - Chr3:99402834-99402853 MsG0380017670.01.T01:intron 35.0%
! TACTTTGTTTATTGCAGGTC+TGG - Chr3:99402839-99402858 MsG0380017670.01.T01:intron 35.0%
! TTTAGGGTTAAGTCTGATTG+TGG + Chr3:99404273-99404292 None:intergenic 35.0%
!!! GTATTTTATTGGTTCGAGCT+TGG - Chr3:99402796-99402815 MsG0380017670.01.T01:intron 35.0%
AAGCTGAATGCCAATGTTGT+GGG - Chr3:99404072-99404091 MsG0380017670.01.T01:intron 40.0%
ATCACTGCTCCTAAAAAGCA+AGG + Chr3:99403194-99403213 None:intergenic 40.0%
CAATGCAAAGGGTTTCTACT+TGG + Chr3:99403648-99403667 None:intergenic 40.0%
CATTGCTAGACTTACAAAGC+AGG - Chr3:99403774-99403793 MsG0380017670.01.T01:intron 40.0%
CTCCTCCTATATATGGAAAC+AGG + Chr3:99403946-99403965 None:intergenic 40.0%
CTGCTTTGTAAGTCTAGCAA+TGG + Chr3:99403776-99403795 None:intergenic 40.0%
CTTCTTTCATCCCACAACAT+TGG + Chr3:99404085-99404104 None:intergenic 40.0%
GCATAATATACACAAGGTCC+AGG - Chr3:99402457-99402476 MsG0380017670.01.T01:CDS 40.0%
!! ATTGCTAGTGGTGGACAAAT+TGG - Chr3:99403664-99403683 MsG0380017670.01.T01:intron 40.0%
!! TGATGCTTTGAAGTCTCAGA+TGG - Chr3:99404226-99404245 MsG0380017670.01.T01:intron 40.0%
!! TTTTAGGAGCAGTGATTGTG+TGG - Chr3:99403198-99403217 MsG0380017670.01.T01:intron 40.0%
GAAACCCTTTGCATTGCTAG+TGG - Chr3:99403652-99403671 MsG0380017670.01.T01:intron 45.0%
GAAGCTGAATGCCAATGTTG+TGG - Chr3:99404071-99404090 MsG0380017670.01.T01:intron 45.0%
GCACTTACAATAGGAGACCT+TGG + Chr3:99402285-99402304 None:intergenic 45.0%
TATAGGAGGAGAGTCAGCAA+AGG - Chr3:99403955-99403974 MsG0380017670.01.T01:intron 45.0%
TATTGTGGAAAGTGGGTGTG+TGG - Chr3:99404143-99404162 MsG0380017670.01.T01:intron 45.0%
TCCACCACTAGCAATGCAAA+GGG + Chr3:99403659-99403678 None:intergenic 45.0%
TGTGGAACAAGTTGTACTGC+TGG + Chr3:99403524-99403543 None:intergenic 45.0%
TGTTGCATGCATGATGCATG+TGG + Chr3:99403542-99403561 None:intergenic 45.0%
! AGTGGAGTATTTGTGTGCTC+TGG - Chr3:99403133-99403152 MsG0380017670.01.T01:intron 45.0%
! CTTGGCTTGATGTGGAACAA+TGG + Chr3:99403630-99403649 None:intergenic 45.0%
! GCTGACTCTCCTCCTATATA+TGG + Chr3:99403953-99403972 None:intergenic 45.0%
! GGTTTCTACTTGGCTTGATG+TGG + Chr3:99403638-99403657 None:intergenic 45.0%
!!! TTGTGTGCTCTGGTTTTGCA+GGG - Chr3:99403143-99403162 MsG0380017670.01.T01:intron 45.0%
!!! TTTGTGTGCTCTGGTTTTGC+AGG - Chr3:99403142-99403161 MsG0380017670.01.T01:intron 45.0%
ACCCTTTGCATTGCTAGTGG+TGG - Chr3:99403655-99403674 MsG0380017670.01.T01:intron 50.0%
GAGTCAGCAAAGGCTACGAA+AGG - Chr3:99403965-99403984 MsG0380017670.01.T01:intron 50.0%
GATGGATGGTTGTGTTCTGC+TGG + Chr3:99403480-99403499 None:intergenic 50.0%
GTCCACCACTAGCAATGCAA+AGG + Chr3:99403660-99403679 None:intergenic 50.0%
TCAGCAAAGGCTACGAAAGG+CGG - Chr3:99403968-99403987 MsG0380017670.01.T01:intron 50.0%
TGAGCTTAGCTCAGTTGGCA+GGG - Chr3:99402429-99402448 MsG0380017670.01.T01:CDS 50.0%
! GTCTCAGATGGATTTCAGCC+AGG - Chr3:99404238-99404257 MsG0380017670.01.T01:intron 50.0%
!! TGGTTCGAGCTTGGCTTGTT+AGG - Chr3:99402805-99402824 MsG0380017670.01.T01:intron 50.0%
AAGGCTACGAAAGGCGGTCT+CGG - Chr3:99403974-99403993 MsG0380017670.01.T01:intron 55.0%
ACGAGATGGGTGAACGACCA+AGG - Chr3:99402265-99402284 MsG0380017670.01.T01:CDS 55.0%
CCAACTGAGCTAAGCTCACG+AGG + Chr3:99402427-99402446 None:intergenic 55.0%
CCTCGTGAGCTTAGCTCAGT+TGG - Chr3:99402424-99402443 MsG0380017670.01.T01:CDS 55.0%
GTGAGCTTAGCTCAGTTGGC+AGG - Chr3:99402428-99402447 MsG0380017670.01.T01:CDS 55.0%
TGGTGGTAGGGGTTTGAACC+TGG + Chr3:99402478-99402497 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr3 gene 99402261 99404400 99402261 ID=MsG0380017670.01;Name=MsG0380017670.01
Chr3 mRNA 99402261 99404400 99402261 ID=MsG0380017670.01.T01;Parent=MsG0380017670.01;Name=MsG0380017670.01.T01;_AED=0.24;_eAED=0.24;_QI=0|0|0|0.5|1|1|2|0|158
Chr3 exon 99404365 99404400 99404365 ID=MsG0380017670.01.T01:exon:2195;Parent=MsG0380017670.01.T01
Chr3 exon 99402261 99402701 99402261 ID=MsG0380017670.01.T01:exon:2194;Parent=MsG0380017670.01.T01
Chr3 CDS 99404365 99404400 99404365 ID=MsG0380017670.01.T01:cds;Parent=MsG0380017670.01.T01
Chr3 CDS 99402261 99402701 99402261 ID=MsG0380017670.01.T01:cds;Parent=MsG0380017670.01.T01
Gene Sequence

>MsG0380017670.01.T01

ATGGACGAGATGGGTGAACGACCAAGGTCTCCTATTGAGGAGAGTCAGCAAAGGCTACGAAAGGCGGTCTCGGACGTGTCTCAAGAAATTAACAAATACTATAACTTGGAAGTAGAAAGAAAGTTTGATGACATTGAAGAGTTAGAAGAAGCTGAATGCCAATGTTGTGGGATGAAAGAAGAATGTAGCAAAGTTTATATGAGTGAAGTTGAAGAAGATTATTGTGGAAAGTGGGTGTGTGGACTTTGTTGTGAAGCTGTTAAAGATAAAGTAGGGCGAAGTTCTAAAGTTATTACACTTGTTGATGCTTTGAAGTCTCAGATGGATTTCAGCCAGGAATATAATGCCACAATCAGACTTAACCCTAAACTCTCATTAACTTTGTCTATGAGGGATATAGCTAAGAGAAGTTTAGACAAAAGGAATTGTAAGGGATTAGGAATAACTAAGCTCACTAGGAGTGCAAGTTATCCATAG
Protein sequence

>MsG0380017670.01.T01

MDEMGERPRSPIEESQQRLRKAVSDVSQEINKYYNLEVERKFDDIEELEEAECQCCGMKEECSKVYMSEVEEDYCGKWVCGLCCEAVKDKVGRSSKVITLVDALKSQMDFSQEYNATIRLNPKLSLTLSMRDIAKRSLDKRNCKGLGITKLTRSASYP*