AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680032057.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680032057.01.T01 MTR_6g035305 94.393 107 6 0 8 114 202 308 3.30e-71 216
MsG0680032057.01.T01 MTR_2g008030 84.112 107 17 0 8 114 202 308 4.32e-63 195
MsG0680032057.01.T01 MTR_7g066120 57.944 107 45 0 8 114 278 384 1.58e-36 128
MsG0680032057.01.T01 MTR_0776s0010 38.889 108 62 2 9 112 482 589 2.33e-23 94.0
MsG0680032057.01.T01 MTR_4g093620 43.519 108 54 2 8 114 259 360 4.87e-22 89.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680032057.01.T01 AT1G43670 85.981 107 15 0 8 114 202 308 2.31e-65 201
MsG0680032057.01.T01 AT3G54050 51.327 113 55 0 2 114 278 390 1.16e-33 120
MsG0680032057.01.T01 AT3G54050 51.327 113 55 0 2 114 278 390 1.16e-33 120
MsG0680032057.01.T01 AT5G64380 39.823 113 61 2 3 114 260 366 2.39e-20 84.7

Find 33 sgRNAs with CRISPR-Local

Find 87 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAATAAATCTTGCCTTTCTT+TGG 0.224320 6:-32839103 None:intergenic
GCAAAGTCTCTTAGATATAT+TGG 0.276844 6:+32839299 MsG0680032057.01.T01:CDS
CTTCCCAATGTCCTTCTTGA+TGG 0.290934 6:+32840434 MsG0680032057.01.T01:CDS
ATGCATTACCCTTTCCTTGC+CGG 0.313636 6:-32840481 None:intergenic
AATAAATCTTGCCTTTCTTT+GGG 0.337209 6:-32839102 None:intergenic
GTTCATCGTACATTGCTATA+TGG 0.377460 6:+32840245 MsG0680032057.01.T01:CDS
GGTAGGACCATCCCAGTTCT+TGG 0.411498 6:-32839143 None:intergenic
ATGAAGGGAATGCCAAGAAC+TGG 0.427423 6:+32839131 MsG0680032057.01.T01:CDS
TTTGTCAGCAGGGTACAAAA+AGG 0.440471 6:-32840273 None:intergenic
AATGTCCTTCTTGATGGAAC+AGG 0.459315 6:+32840440 MsG0680032057.01.T01:CDS
AAGATTTATTCAGTGAATGA+AGG 0.460520 6:+32839115 MsG0680032057.01.T01:CDS
GGCTTTCACCGGCAAGGAAA+GGG 0.474657 6:+32840473 MsG0680032057.01.T01:CDS
GTTCCATCAAGAAGGACATT+GGG 0.503823 6:-32840437 None:intergenic
GATGGAACAGGCAGGAGGAC+AGG 0.504743 6:+32840452 MsG0680032057.01.T01:CDS
AGGCTTTCACCGGCAAGGAA+AGG 0.509795 6:+32840472 MsG0680032057.01.T01:CDS
ATATATCTAAGAGACTTTGC+TGG 0.512421 6:-32839296 None:intergenic
AAATGCAAGTTTCCAACAGA+TGG 0.529309 6:+32839269 MsG0680032057.01.T01:CDS
TCTTTGCAGATCCCAAAGAA+AGG 0.537179 6:+32839091 MsG0680032057.01.T01:CDS
TGTTCCATCAAGAAGGACAT+TGG 0.542151 6:-32840438 None:intergenic
GCAGGAGGACAGGCTTTCAC+CGG 0.548518 6:+32840462 MsG0680032057.01.T01:CDS
TTTGCTGGTGAACCATCTGT+TGG 0.549730 6:-32839281 None:intergenic
TCCTGCCTGTTCCATCAAGA+AGG 0.554789 6:-32840445 None:intergenic
AGATTTATTCAGTGAATGAA+GGG 0.580033 6:+32839116 MsG0680032057.01.T01:CDS
TCCTTCTTGATGGAACAGGC+AGG 0.593282 6:+32840444 MsG0680032057.01.T01:CDS
AGAGTCCAAATGGAAAACTT+CGG 0.610193 6:+32840297 MsG0680032057.01.T01:CDS
GGGAATGCCAAGAACTGGGA+TGG 0.611887 6:+32839136 MsG0680032057.01.T01:CDS
AGTCTCTTAGATATATTGGA+AGG 0.616044 6:+32839303 MsG0680032057.01.T01:CDS
ATTCATACGTACGCAGCGGT+AGG 0.620838 6:-32839160 None:intergenic
AGGACAGGCTTTCACCGGCA+AGG 0.624102 6:+32840467 MsG0680032057.01.T01:CDS
TGAAGGGAATGCCAAGAACT+GGG 0.636555 6:+32839132 MsG0680032057.01.T01:CDS
GTTAATTGTTAGTGTGTGTG+TGG 0.648710 6:+32839065 None:intergenic
CATCGTACATTGCTATATGG+AGG 0.654004 6:+32840248 MsG0680032057.01.T01:CDS
TTCTTGATGGAACAGGCAGG+AGG 0.688021 6:+32840447 MsG0680032057.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TCTAATTATTTTAATTTTGA+TGG + Chr6:32840368-32840387 MsG0680032057.01.T01:intron 10.0%
!! TAAGATTGAAAATTTAACAA+TGG + Chr6:32839212-32839231 MsG0680032057.01.T01:intron 15.0%
!!! AAGCTAATATAATTTGTATT+TGG + Chr6:32840345-32840364 MsG0680032057.01.T01:intron 15.0%
!! CTAGAGTCTATAATTATTAA+TGG + Chr6:32839658-32839677 MsG0680032057.01.T01:intron 20.0%
!! TCTTGTGAATAAAAAAAATG+CGG - Chr6:32839997-32840016 None:intergenic 20.0%
!!! AAAAACAACTTATTTCTTAC+AGG - Chr6:32839575-32839594 None:intergenic 20.0%
!!! TGAAAGATAATTGATGATTT+TGG - Chr6:32839712-32839731 None:intergenic 20.0%
!!! TTATATTAGCTTAAACATTG+AGG - Chr6:32840337-32840356 None:intergenic 20.0%
!!! TTGTTTATTTTATCCAAACA+AGG - Chr6:32839386-32839405 None:intergenic 20.0%
!!! TTTTTCTTATTACAGTTATG+TGG + Chr6:32839244-32839263 MsG0680032057.01.T01:intron 20.0%
! AAGATTTATTCAGTGAATGA+AGG + Chr6:32839115-32839134 MsG0680032057.01.T01:CDS 25.0%
! AATAAATCTTGCCTTTCTTT+GGG - Chr6:32839105-32839124 None:intergenic 25.0%
! AGATTTATTCAGTGAATGAA+GGG + Chr6:32839116-32839135 MsG0680032057.01.T01:CDS 25.0%
! GAAAACAACTTATAGCTTAT+TGG - Chr6:32839524-32839543 None:intergenic 25.0%
! TAAAAGTTAATCGGTAAAGT+CGG - Chr6:32839955-32839974 None:intergenic 25.0%
! TGAATAAAAAAAATGCGGTT+GGG - Chr6:32839992-32840011 None:intergenic 25.0%
!! AAAAGAAGTATACATCACAT+TGG - Chr6:32840069-32840088 None:intergenic 25.0%
!! TTTTTGTACATTAAACAGCA+TGG + Chr6:32840214-32840233 MsG0680032057.01.T01:intron 25.0%
!!! TATTTTTACAACCCTGTTAT+TGG + Chr6:32839916-32839935 MsG0680032057.01.T01:intron 25.0%
AGATATCTTAAGTAAGGTCT+CGG - Chr6:32840027-32840046 None:intergenic 30.0%
AGTCTCTTAGATATATTGGA+AGG + Chr6:32839303-32839322 MsG0680032057.01.T01:CDS 30.0%
ATACATACACTCTTCACTAA+TGG - Chr6:32839827-32839846 None:intergenic 30.0%
ATAGCTATTGCTATAAGCTT+TGG - Chr6:32839468-32839487 None:intergenic 30.0%
ATATATCTAAGAGACTTTGC+TGG - Chr6:32839299-32839318 None:intergenic 30.0%
GAACTCAGATATCTTAAGTA+AGG - Chr6:32840033-32840052 None:intergenic 30.0%
GAATAAATCTTGCCTTTCTT+TGG - Chr6:32839106-32839125 None:intergenic 30.0%
GATACTTTACACCAATAACA+GGG - Chr6:32839930-32839949 None:intergenic 30.0%
GCAAAGTCTCTTAGATATAT+TGG + Chr6:32839299-32839318 MsG0680032057.01.T01:CDS 30.0%
GGACTTCACTAAAAGTTAAT+CGG - Chr6:32839964-32839983 None:intergenic 30.0%
GTGAATAAAAAAAATGCGGT+TGG - Chr6:32839993-32840012 None:intergenic 30.0%
TACATACACTCTTCACTAAT+GGG - Chr6:32839826-32839845 None:intergenic 30.0%
AAACCAAGTGCATAGAATAG+AGG - Chr6:32839896-32839915 None:intergenic 35.0%
AAATGCAAGTTTCCAACAGA+TGG + Chr6:32839269-32839288 MsG0680032057.01.T01:CDS 35.0%
AAGCATGTTAGACTCTTTCT+AGG - Chr6:32839346-32839365 None:intergenic 35.0%
AATAGAGGCTTAAGTCCAAT+TGG - Chr6:32839881-32839900 None:intergenic 35.0%
AGACTCAAGAAGCTGAAAAA+TGG - Chr6:32839760-32839779 None:intergenic 35.0%
AGAGTCCAAATGGAAAACTT+CGG + Chr6:32840297-32840316 MsG0680032057.01.T01:CDS 35.0%
AGCATGTTAGACTCTTTCTA+GGG - Chr6:32839345-32839364 None:intergenic 35.0%
CAGGAAAACAATAAGCTCTT+TGG - Chr6:32839556-32839575 None:intergenic 35.0%
GATATCTTAAGTAAGGTCTC+GGG - Chr6:32840026-32840045 None:intergenic 35.0%
GGATACTTTACACCAATAAC+AGG - Chr6:32839931-32839950 None:intergenic 35.0%
GTTCATCGTACATTGCTATA+TGG + Chr6:32840245-32840264 MsG0680032057.01.T01:CDS 35.0%
TAAAAAAAATGCGGTTGGGA+TGG - Chr6:32839988-32840007 None:intergenic 35.0%
TGTGATCTGTTCATAACTCT+TGG + Chr6:32839783-32839802 MsG0680032057.01.T01:intron 35.0%
TTTGTGGGCAATAACTAATG+AGG - Chr6:32839851-32839870 None:intergenic 35.0%
! ACATACCGAAGTTTTCCATT+TGG - Chr6:32840305-32840324 None:intergenic 35.0%
! TGAGTTTTCATGCTTTTGTG+TGG + Chr6:32839732-32839751 MsG0680032057.01.T01:intron 35.0%
!! CCAATTGGTTCAACTTTTGT+GGG - Chr6:32839866-32839885 None:intergenic 35.0%
!! TCCAATTGGTTCAACTTTTG+TGG - Chr6:32839867-32839886 None:intergenic 35.0%
AAGCCTCTATTCTATGCACT+TGG + Chr6:32839890-32839909 MsG0680032057.01.T01:intron 40.0%
AAGTTAATCGGTAAAGTCGG+TGG - Chr6:32839952-32839971 None:intergenic 40.0%
AATGTCCTTCTTGATGGAAC+AGG + Chr6:32840440-32840459 MsG0680032057.01.T01:CDS 40.0%
ATGCTTACTGCCCATGTATT+AGG + Chr6:32839360-32839379 MsG0680032057.01.T01:intron 40.0%
CATCGTACATTGCTATATGG+AGG + Chr6:32840248-32840267 MsG0680032057.01.T01:CDS 40.0%
CCAAACAAGGCCTAATACAT+GGG - Chr6:32839373-32839392 None:intergenic 40.0%
CCCACAAAAGTTGAACCAAT+TGG + Chr6:32839863-32839882 MsG0680032057.01.T01:intron 40.0%
GCTGACAAAAAGAGTCCAAA+TGG + Chr6:32840287-32840306 MsG0680032057.01.T01:CDS 40.0%
GTCTGAGTTCATAAGCTCTT+TGG - Chr6:32839607-32839626 None:intergenic 40.0%
GTTCCATCAAGAAGGACATT+GGG - Chr6:32840440-32840459 None:intergenic 40.0%
TATCTGAGTTCAGTTCCACT+CGG + Chr6:32840042-32840061 MsG0680032057.01.T01:intron 40.0%
TCCAAACAAGGCCTAATACA+TGG - Chr6:32839374-32839393 None:intergenic 40.0%
TCTTTGCAGATCCCAAAGAA+AGG + Chr6:32839091-32839110 MsG0680032057.01.T01:CDS 40.0%
TGTTCCATCAAGAAGGACAT+TGG - Chr6:32840441-32840460 None:intergenic 40.0%
TTTGTCAGCAGGGTACAAAA+AGG - Chr6:32840276-32840295 None:intergenic 40.0%
! TTGGACTCTTTTTGTCAGCA+GGG - Chr6:32840286-32840305 None:intergenic 40.0%
! TTTGGACTCTTTTTGTCAGC+AGG - Chr6:32840287-32840306 None:intergenic 40.0%
AAAAAATGCGGTTGGGATGG+AGG - Chr6:32839985-32840004 None:intergenic 45.0%
ATACATCACATTGGTCCGAG+TGG - Chr6:32840060-32840079 None:intergenic 45.0%
ATGAAGGGAATGCCAAGAAC+TGG + Chr6:32839131-32839150 MsG0680032057.01.T01:CDS 45.0%
ATGCATTACCCTTTCCTTGC+CGG - Chr6:32840484-32840503 None:intergenic 45.0%
CTGAATTCATACGTACGCAG+CGG - Chr6:32839167-32839186 None:intergenic 45.0%
CTTCCCAATGTCCTTCTTGA+TGG + Chr6:32840434-32840453 MsG0680032057.01.T01:CDS 45.0%
TGAAGGGAATGCCAAGAACT+GGG + Chr6:32839132-32839151 MsG0680032057.01.T01:CDS 45.0%
TTTGCTGGTGAACCATCTGT+TGG - Chr6:32839284-32839303 None:intergenic 45.0%
! ACTCTTCACTAATGGGTCAG+TGG - Chr6:32839819-32839838 None:intergenic 45.0%
!! CCCATGTATTAGGCCTTGTT+TGG + Chr6:32839370-32839389 MsG0680032057.01.T01:intron 45.0%
ATTCATACGTACGCAGCGGT+AGG - Chr6:32839163-32839182 None:intergenic 50.0%
TCCTGCCTGTTCCATCAAGA+AGG - Chr6:32840448-32840467 None:intergenic 50.0%
TCCTTCTTGATGGAACAGGC+AGG + Chr6:32840444-32840463 MsG0680032057.01.T01:CDS 50.0%
TTCTTGATGGAACAGGCAGG+AGG + Chr6:32840447-32840466 MsG0680032057.01.T01:CDS 50.0%
AGGCTTTCACCGGCAAGGAA+AGG + Chr6:32840472-32840491 MsG0680032057.01.T01:CDS 55.0%
GGCTTTCACCGGCAAGGAAA+GGG + Chr6:32840473-32840492 MsG0680032057.01.T01:CDS 55.0%
GGGAATGCCAAGAACTGGGA+TGG + Chr6:32839136-32839155 MsG0680032057.01.T01:CDS 55.0%
GGTAGGACCATCCCAGTTCT+TGG - Chr6:32839146-32839165 None:intergenic 55.0%
AGGACAGGCTTTCACCGGCA+AGG + Chr6:32840467-32840486 MsG0680032057.01.T01:CDS 60.0%
GATGGAACAGGCAGGAGGAC+AGG + Chr6:32840452-32840471 MsG0680032057.01.T01:CDS 60.0%
GCAGGAGGACAGGCTTTCAC+CGG + Chr6:32840462-32840481 MsG0680032057.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr6 gene 32839070 32840512 32839070 ID=MsG0680032057.01;Name=MsG0680032057.01
Chr6 mRNA 32839070 32840512 32839070 ID=MsG0680032057.01.T01;Parent=MsG0680032057.01;Name=MsG0680032057.01.T01;_AED=0.50;_eAED=0.51;_QI=0|0|0|1|1|1|4|0|115
Chr6 exon 32839070 32839170 32839070 ID=MsG0680032057.01.T01:exon:18134;Parent=MsG0680032057.01.T01
Chr6 exon 32839259 32839324 32839259 ID=MsG0680032057.01.T01:exon:18135;Parent=MsG0680032057.01.T01
Chr6 exon 32840232 32840318 32840232 ID=MsG0680032057.01.T01:exon:18136;Parent=MsG0680032057.01.T01
Chr6 exon 32840419 32840512 32840419 ID=MsG0680032057.01.T01:exon:18137;Parent=MsG0680032057.01.T01
Chr6 CDS 32839070 32839170 32839070 ID=MsG0680032057.01.T01:cds;Parent=MsG0680032057.01.T01
Chr6 CDS 32839259 32839324 32839259 ID=MsG0680032057.01.T01:cds;Parent=MsG0680032057.01.T01
Chr6 CDS 32840232 32840318 32840232 ID=MsG0680032057.01.T01:cds;Parent=MsG0680032057.01.T01
Chr6 CDS 32840419 32840512 32840419 ID=MsG0680032057.01.T01:cds;Parent=MsG0680032057.01.T01
Gene Sequence

>MsG0680032057.01.T01

TTGTTAGTGTGTGTGTGGTTCTCTTTGCAGATCCCAAAGAAAGGCAAGATTTATTCAGTGAATGAAGGGAATGCCAAGAACTGGGATGGTCCTACCGCTGCTTATGTGGAGAAATGCAAGTTTCCAACAGATGGTTCACCAGCAAAGTCTCTTAGATATATTGGAAGCATGGTAGCTGATGTTCATCGTACATTGCTATATGGAGGTACCTTTTTGTACCCTGCTGACAAAAAGAGTCCAAATGGAAAACTTCGTGTATTGTATGAAGTCTTCCCAATGTCCTTCTTGATGGAACAGGCAGGAGGACAGGCTTTCACCGGCAAGGAAAGGGTAATGCATCTTTATTGA

Protein sequence

>MsG0680032057.01.T01

LLVCVWFSLQIPKKGKIYSVNEGNAKNWDGPTAAYVEKCKFPTDGSPAKSLRYIGSMVADVHRTLLYGGTFLYPADKKSPNGKLRVLYEVFPMSFLMEQAGGQAFTGKERVMHLY*