AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016932.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016932.01.T01 MTR_3g098500 95.495 222 10 0 1 222 1 222 1.81e-161 445
MsG0380016932.01.T01 MTR_3g098490 75.229 218 46 3 7 222 1 212 8.66e-120 339
MsG0380016932.01.T01 MTR_8g096110 64.737 190 64 2 7 196 1 187 1.55e-85 253
MsG0380016932.01.T01 MTR_8g096080 64.062 192 64 4 7 196 1 189 2.58e-84 249
MsG0380016932.01.T01 MTR_8g096100 56.316 190 80 2 7 196 1 187 2.71e-74 224
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016932.01.T01 AT3G23760 61.828 186 60 4 18 196 9 190 1.15e-80 239
MsG0380016932.01.T01 AT4G14100 60.656 183 65 4 17 196 7 185 7.89e-78 233

Find 62 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTACTGTTCATGAGGATTT+TGG 0.136762 3:+89592103 MsG0380016932.01.T01:CDS
CGACAGCATTGAGTTGATTT+TGG 0.167038 3:-89591386 None:intergenic
AGTGTTTGTAATTATGAAAA+TGG 0.266071 3:+89592165 MsG0380016932.01.T01:exon
GCTCTTGTTCATAAACATTA+AGG 0.279361 3:-89591301 None:intergenic
ATAATTTCCTTTGTAATGTT+TGG 0.290309 3:+89591559 MsG0380016932.01.T01:CDS
CTTGAGGGCGCTACGTATTT+AGG 0.303379 3:+89591522 MsG0380016932.01.T01:CDS
TCTATTTCTGTTCTGATGAT+AGG 0.311754 3:+89592211 MsG0380016932.01.T01:three_prime_UTR
TCCGGCCAAACAGCCGGAAT+TGG 0.340541 3:-89591267 None:intergenic
GTAGCGCCCTCAAGAAAATT+AGG 0.340967 3:-89591513 None:intergenic
CTGAGCCAATTCCGGCTGTT+TGG 0.366949 3:+89591262 MsG0380016932.01.T01:CDS
GGTTTGTGACTCTCGATATC+AGG 0.371771 3:+89592316 MsG0380016932.01.T01:three_prime_UTR
TTCGATGGCTGAGCCAATTC+CGG 0.379483 3:+89591254 MsG0380016932.01.T01:CDS
GTTAAGTGGTTCTTCTACTC+AGG 0.396357 3:+89591633 MsG0380016932.01.T01:CDS
GAGAGAAGAGAATGACATAT+AGG 0.411659 3:-89591218 None:intergenic
GAGTAGAAGAACCACTTAAC+AGG 0.415932 3:-89591630 None:intergenic
GGAGAATACCTACAGGAAAC+TGG 0.417162 3:-89591488 None:intergenic
GCCAATTCCGGCTGTTTGGC+CGG 0.420441 3:+89591266 MsG0380016932.01.T01:CDS
CTGCAATAGAACAACTATCT+AGG 0.426683 3:+89591190 MsG0380016932.01.T01:CDS
TCCTGCAGAAAGTGGACTTA+TGG 0.436493 3:+89591328 MsG0380016932.01.T01:CDS
TGTCATTCTCTTCTCTCTCT+CGG 0.441820 3:+89591224 MsG0380016932.01.T01:CDS
GTCTGATTGAAGCAGTATAT+AGG 0.470699 3:-89592058 None:intergenic
CGCTCATGTAATGACGTTTG+AGG 0.471029 3:+89592000 MsG0380016932.01.T01:CDS
ATGTTGAAGTTTCGACCGTT+AGG 0.477068 3:-89591360 None:intergenic
AACTGCTCCGGCCAAACAGC+CGG 0.482218 3:-89591273 None:intergenic
CATCAGAACAGAAATAGAAT+AGG 0.482543 3:-89592206 None:intergenic
CATGTAATGACGTTTGAGGT+TGG 0.496845 3:+89592004 MsG0380016932.01.T01:CDS
TTGTTCTATTGCAGAGGCCA+TGG 0.498883 3:-89591181 None:intergenic
GCTTGAGGAACCGCATTGGC+AGG 0.504494 3:+89592033 MsG0380016932.01.T01:CDS
GGGATGGAGAGTGTAGATGA+AGG 0.516088 3:-89591442 None:intergenic
ACCATAAGTCCACTTTCTGC+AGG 0.523892 3:-89591329 None:intergenic
TCGTCGTTTACGACCTCGAA+TGG 0.528379 3:+89591406 MsG0380016932.01.T01:CDS
TGCAATGGCGGTCTGAGGGA+TGG 0.534618 3:-89591458 None:intergenic
GACCTTGCAATGGCGGTCTG+AGG 0.545191 3:-89591463 None:intergenic
TTATGGTACGACTGGCCTAA+CGG 0.548138 3:+89591345 MsG0380016932.01.T01:CDS
GAGCGGAGTCCTGCAGAAAG+TGG 0.548813 3:+89591320 MsG0380016932.01.T01:CDS
CACTGCTTGAGGAACCGCAT+TGG 0.549270 3:+89592029 MsG0380016932.01.T01:CDS
ACCTTGCAATGGCGGTCTGA+GGG 0.550186 3:-89591462 None:intergenic
TCACTCGTAGACCTGTTAAG+TGG 0.552659 3:+89591619 MsG0380016932.01.T01:CDS
TCCCTCAGACCGCCATTGCA+AGG 0.555841 3:+89591461 MsG0380016932.01.T01:CDS
ATTAAGGCATGAAACTGCTC+CGG 0.562441 3:-89591285 None:intergenic
AGGTACCGTTGGTCCATTCG+AGG 0.563492 3:-89591419 None:intergenic
ATGGAGAGTGTAGATGAAGG+AGG 0.563676 3:-89591439 None:intergenic
AAGTGGACTTATGGTACGAC+TGG 0.577314 3:+89591337 MsG0380016932.01.T01:CDS
TGAGGTTGGAGCACTGCTTG+AGG 0.579016 3:+89592018 MsG0380016932.01.T01:CDS
AAAATCCTCATGAACAGTAG+TGG 0.580647 3:-89592101 None:intergenic
ACTGGACGACCTTGCAATGG+CGG 0.580698 3:-89591470 None:intergenic
TCTCTCGGCTTCATATTCGA+TGG 0.592702 3:+89591239 MsG0380016932.01.T01:CDS
CTTTCGTCCAAACATTACAA+AGG 0.600135 3:-89591566 None:intergenic
GATGAAACTTAGAGCAGCCA+TGG 0.603003 3:+89591164 MsG0380016932.01.T01:exon
GTAGATGAAGGAGGTACCGT+TGG 0.604808 3:-89591430 None:intergenic
CGCCCTCAAGAAAATTAGGA+CGG 0.606966 3:-89591509 None:intergenic
AAGGTCGTCCAGTTTCCTGT+AGG 0.614277 3:+89591480 MsG0380016932.01.T01:CDS
ACAAACCATTTAGAAAACAA+TGG 0.616253 3:-89592300 None:intergenic
AGATAGTTGTTCTATTGCAG+AGG 0.619269 3:-89591187 None:intergenic
TACGACCTCGAATGGACCAA+CGG 0.625467 3:+89591414 MsG0380016932.01.T01:CDS
AGAATCCACTACTGTTCATG+AGG 0.630604 3:+89592096 MsG0380016932.01.T01:CDS
TTAGGACGGAGAATACCTAC+AGG 0.634745 3:-89591495 None:intergenic
GAAACTGGACGACCTTGCAA+TGG 0.636092 3:-89591473 None:intergenic
CTCAAACGTCATTACATGAG+CGG 0.651282 3:-89591999 None:intergenic
TATCAGGACAAGATCAAGAG+TGG 0.655946 3:+89592332 MsG0380016932.01.T01:three_prime_UTR
TTAATGTTTATGAACAAGAG+CGG 0.658259 3:+89591303 MsG0380016932.01.T01:CDS
TATATAGGAGCCTGCCAATG+CGG 0.702014 3:-89592043 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATAATTAATAAGCTCAAT+CGG - Chr3:89591868-89591887 None:intergenic 15.0%
!!! ATAGTGATAATTTTAATAGA+TGG + Chr3:89591968-89591987 MsG0380016932.01.T01:intron 15.0%
!! AGTGTTTGTAATTATGAAAA+TGG + Chr3:89592165-89592184 MsG0380016932.01.T01:exon 20.0%
!! ATAATTTCCTTTGTAATGTT+TGG + Chr3:89591559-89591578 MsG0380016932.01.T01:CDS 20.0%
!!! TCTCTTATATTATCACTTTT+GGG + Chr3:89591668-89591687 MsG0380016932.01.T01:intron 20.0%
! ACAAACCATTTAGAAAACAA+TGG - Chr3:89592303-89592322 None:intergenic 25.0%
! ATGACAAGATAAGCTTAAAT+AGG - Chr3:89591709-89591728 None:intergenic 25.0%
! ATTCACTTCATTCAATATCT+TGG - Chr3:89591900-89591919 None:intergenic 25.0%
! TTAATGTTTATGAACAAGAG+CGG + Chr3:89591303-89591322 MsG0380016932.01.T01:CDS 25.0%
!! ATGAACCATTGTTTTCTAAA+TGG + Chr3:89592295-89592314 MsG0380016932.01.T01:three_prime_UTR 25.0%
!! ATTTTTCTATCAGTCTTCTT+GGG + Chr3:89592268-89592287 MsG0380016932.01.T01:three_prime_UTR 25.0%
!! CTCTCTTATATTATCACTTT+TGG + Chr3:89591667-89591686 MsG0380016932.01.T01:intron 25.0%
!! CTTATCTTGTCATACATTTT+GGG + Chr3:89591716-89591735 MsG0380016932.01.T01:intron 25.0%
!!! GTGATAATTTTAATAGATGG+AGG + Chr3:89591971-89591990 MsG0380016932.01.T01:intron 25.0%
CATCAGAACAGAAATAGAAT+AGG - Chr3:89592209-89592228 None:intergenic 30.0%
GAAGACTGATAGAAAAATGA+TGG - Chr3:89592266-89592285 None:intergenic 30.0%
GCTCTTGTTCATAAACATTA+AGG - Chr3:89591304-89591323 None:intergenic 30.0%
! CATTTTTCTATCAGTCTTCT+TGG + Chr3:89592267-89592286 MsG0380016932.01.T01:three_prime_UTR 30.0%
! GCTTATCTTGTCATACATTT+TGG + Chr3:89591715-89591734 MsG0380016932.01.T01:intron 30.0%
!! TATCACTTTTGGGCTATATT+TGG + Chr3:89591678-89591697 MsG0380016932.01.T01:intron 30.0%
!! TCTATTTCTGTTCTGATGAT+AGG + Chr3:89592211-89592230 MsG0380016932.01.T01:three_prime_UTR 30.0%
AAAATCCTCATGAACAGTAG+TGG - Chr3:89592104-89592123 None:intergenic 35.0%
AGATAGTTGTTCTATTGCAG+AGG - Chr3:89591190-89591209 None:intergenic 35.0%
CTGCAATAGAACAACTATCT+AGG + Chr3:89591190-89591209 MsG0380016932.01.T01:CDS 35.0%
CTTTCGTCCAAACATTACAA+AGG - Chr3:89591569-89591588 None:intergenic 35.0%
GAGAGAAGAGAATGACATAT+AGG - Chr3:89591221-89591240 None:intergenic 35.0%
GTCTGATTGAAGCAGTATAT+AGG - Chr3:89592061-89592080 None:intergenic 35.0%
! ACTACTGTTCATGAGGATTT+TGG + Chr3:89592103-89592122 MsG0380016932.01.T01:CDS 35.0%
! CTACTGTTCATGAGGATTTT+GGG + Chr3:89592104-89592123 MsG0380016932.01.T01:CDS 35.0%
AGAATCCACTACTGTTCATG+AGG + Chr3:89592096-89592115 MsG0380016932.01.T01:CDS 40.0%
ATGTTGAAGTTTCGACCGTT+AGG - Chr3:89591363-89591382 None:intergenic 40.0%
ATTAAGGCATGAAACTGCTC+CGG - Chr3:89591288-89591307 None:intergenic 40.0%
CTCAAACGTCATTACATGAG+CGG - Chr3:89592002-89592021 None:intergenic 40.0%
GAGTAGAAGAACCACTTAAC+AGG - Chr3:89591633-89591652 None:intergenic 40.0%
GTTAAGTGGTTCTTCTACTC+AGG + Chr3:89591633-89591652 MsG0380016932.01.T01:CDS 40.0%
TATCAGGACAAGATCAAGAG+TGG + Chr3:89592332-89592351 MsG0380016932.01.T01:three_prime_UTR 40.0%
TGTCATTCTCTTCTCTCTCT+CGG + Chr3:89591224-89591243 MsG0380016932.01.T01:CDS 40.0%
! CATGTAATGACGTTTGAGGT+TGG + Chr3:89592004-89592023 MsG0380016932.01.T01:CDS 40.0%
! CTCCGTCCTAATTTTCTTGA+GGG + Chr3:89591507-89591526 MsG0380016932.01.T01:CDS 40.0%
! TCTCCGTCCTAATTTTCTTG+AGG + Chr3:89591506-89591525 MsG0380016932.01.T01:CDS 40.0%
!! GATTTTGGGAGTTTGATGAG+AGG + Chr3:89592118-89592137 MsG0380016932.01.T01:CDS 40.0%
!!! CGACAGCATTGAGTTGATTT+TGG - Chr3:89591389-89591408 None:intergenic 40.0%
ACCATAAGTCCACTTTCTGC+AGG - Chr3:89591332-89591351 None:intergenic 45.0%
CGCCCTCAAGAAAATTAGGA+CGG - Chr3:89591512-89591531 None:intergenic 45.0%
CGCTCATGTAATGACGTTTG+AGG + Chr3:89592000-89592019 MsG0380016932.01.T01:CDS 45.0%
GATGAAACTTAGAGCAGCCA+TGG + Chr3:89591164-89591183 MsG0380016932.01.T01:exon 45.0%
GGAGAATACCTACAGGAAAC+TGG - Chr3:89591491-89591510 None:intergenic 45.0%
GGTTTGTGACTCTCGATATC+AGG + Chr3:89592316-89592335 MsG0380016932.01.T01:three_prime_UTR 45.0%
GTAGCGCCCTCAAGAAAATT+AGG - Chr3:89591516-89591535 None:intergenic 45.0%
GTGGTTCTTCTACTCAGGTT+TGG + Chr3:89591638-89591657 MsG0380016932.01.T01:intron 45.0%
TATATAGGAGCCTGCCAATG+CGG - Chr3:89592046-89592065 None:intergenic 45.0%
TCACTCGTAGACCTGTTAAG+TGG + Chr3:89591619-89591638 MsG0380016932.01.T01:CDS 45.0%
TCTCTCGGCTTCATATTCGA+TGG + Chr3:89591239-89591258 MsG0380016932.01.T01:CDS 45.0%
TTAGGACGGAGAATACCTAC+AGG - Chr3:89591498-89591517 None:intergenic 45.0%
TTGTTCTATTGCAGAGGCCA+TGG - Chr3:89591184-89591203 None:intergenic 45.0%
! AAGTGGACTTATGGTACGAC+TGG + Chr3:89591337-89591356 MsG0380016932.01.T01:CDS 45.0%
! ATGGAGAGTGTAGATGAAGG+AGG - Chr3:89591442-89591461 None:intergenic 45.0%
! TCCTGCAGAAAGTGGACTTA+TGG + Chr3:89591328-89591347 MsG0380016932.01.T01:CDS 45.0%
!! TTATGGTACGACTGGCCTAA+CGG + Chr3:89591345-89591364 MsG0380016932.01.T01:CDS 45.0%
AAGGTCGTCCAGTTTCCTGT+AGG + Chr3:89591480-89591499 MsG0380016932.01.T01:CDS 50.0%
GAAACTGGACGACCTTGCAA+TGG - Chr3:89591476-89591495 None:intergenic 50.0%
TACGACCTCGAATGGACCAA+CGG + Chr3:89591414-89591433 MsG0380016932.01.T01:CDS 50.0%
TCGTCGTTTACGACCTCGAA+TGG + Chr3:89591406-89591425 MsG0380016932.01.T01:CDS 50.0%
TTCGATGGCTGAGCCAATTC+CGG + Chr3:89591254-89591273 MsG0380016932.01.T01:CDS 50.0%
! GGGATGGAGAGTGTAGATGA+AGG - Chr3:89591445-89591464 None:intergenic 50.0%
!! CTTGAGGGCGCTACGTATTT+AGG + Chr3:89591522-89591541 MsG0380016932.01.T01:CDS 50.0%
!! GTAGATGAAGGAGGTACCGT+TGG - Chr3:89591433-89591452 None:intergenic 50.0%
ACCTTGCAATGGCGGTCTGA+GGG - Chr3:89591465-89591484 None:intergenic 55.0%
ACTGGACGACCTTGCAATGG+CGG - Chr3:89591473-89591492 None:intergenic 55.0%
CACTGCTTGAGGAACCGCAT+TGG + Chr3:89592029-89592048 MsG0380016932.01.T01:CDS 55.0%
CTGAGCCAATTCCGGCTGTT+TGG + Chr3:89591262-89591281 MsG0380016932.01.T01:CDS 55.0%
! AGGTACCGTTGGTCCATTCG+AGG - Chr3:89591422-89591441 None:intergenic 55.0%
!! TGAGGTTGGAGCACTGCTTG+AGG + Chr3:89592018-89592037 MsG0380016932.01.T01:CDS 55.0%
AACTGCTCCGGCCAAACAGC+CGG - Chr3:89591276-89591295 None:intergenic 60.0%
GACCTTGCAATGGCGGTCTG+AGG - Chr3:89591466-89591485 None:intergenic 60.0%
GAGCGGAGTCCTGCAGAAAG+TGG + Chr3:89591320-89591339 MsG0380016932.01.T01:CDS 60.0%
GCCAATTCCGGCTGTTTGGC+CGG + Chr3:89591266-89591285 MsG0380016932.01.T01:CDS 60.0%
TCCCTCAGACCGCCATTGCA+AGG + Chr3:89591461-89591480 MsG0380016932.01.T01:CDS 60.0%
TCCGGCCAAACAGCCGGAAT+TGG - Chr3:89591270-89591289 None:intergenic 60.0%
TGCAATGGCGGTCTGAGGGA+TGG - Chr3:89591461-89591480 None:intergenic 60.0%
! GCTTGAGGAACCGCATTGGC+AGG + Chr3:89592033-89592052 MsG0380016932.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 89591159 89592380 89591159 ID=MsG0380016932.01;Name=MsG0380016932.01
Chr3 mRNA 89591159 89592380 89591159 ID=MsG0380016932.01.T01;Parent=MsG0380016932.01;Name=MsG0380016932.01.T01;_AED=0.48;_eAED=0.48;_QI=6|1|1|1|1|1|2|215|222
Chr3 exon 89591159 89591654 89591159 ID=MsG0380016932.01.T01:exon:20544;Parent=MsG0380016932.01.T01
Chr3 exon 89591987 89592380 89591987 ID=MsG0380016932.01.T01:exon:20545;Parent=MsG0380016932.01.T01
Chr3 five_prime_UTR 89591159 89591164 89591159 ID=MsG0380016932.01.T01:five_prime_utr;Parent=MsG0380016932.01.T01
Chr3 CDS 89591165 89591654 89591165 ID=MsG0380016932.01.T01:cds;Parent=MsG0380016932.01.T01
Chr3 CDS 89591987 89592165 89591987 ID=MsG0380016932.01.T01:cds;Parent=MsG0380016932.01.T01
Chr3 three_prime_UTR 89592166 89592380 89592166 ID=MsG0380016932.01.T01:three_prime_utr;Parent=MsG0380016932.01.T01
Gene Sequence

>MsG0380016932.01.T01

ATGAAACTTAGAGCAGCCATGGCCTCTGCAATAGAACAACTATCTAGGATATTCCTATATGTCATTCTCTTCTCTCTCTCGGCTTCATATTCGATGGCTGAGCCAATTCCGGCTGTTTGGCCGGAGCAGTTTCATGCCTTAATGTTTATGAACAAGAGCGGAGTCCTGCAGAAAGTGGACTTATGGTACGACTGGCCTAACGGTCGAAACTTCAACATCATCCAAAATCAACTCAATGCTGTCGTCGTTTACGACCTCGAATGGACCAACGGTACCTCCTTCATCTACACTCTCCATCCCTCAGACCGCCATTGCAAGGTCGTCCAGTTTCCTGTAGGTATTCTCCGTCCTAATTTTCTTGAGGGCGCTACGTATTTAGGTCAAGAACATGTTGATAATTTCCTTTGTAATGTTTGGACGAAAGTTGATTTCATTGTGTACTATGAAGATGTTCTCACTCGTAGACCTGTTAAGTGGTTCTTCTACTCAGATGGAGGATATACCGCTCATGTAATGACGTTTGAGGTTGGAGCACTGCTTGAGGAACCGCATTGGCAGGCTCCTATATACTGCTTCAATCAGACTGAGATAATAATAATAGAATCCACTACTGTTCATGAGGATTTTGGGAGTTTGATGAGAGGCAAAGTTGATGCTGCTGCTGCATAA

Protein sequence

>MsG0380016932.01.T01

MKLRAAMASAIEQLSRIFLYVILFSLSASYSMAEPIPAVWPEQFHALMFMNKSGVLQKVDLWYDWPNGRNFNIIQNQLNAVVVYDLEWTNGTSFIYTLHPSDRHCKVVQFPVGILRPNFLEGATYLGQEHVDNFLCNVWTKVDFIVYYEDVLTRRPVKWFFYSDGGYTAHVMTFEVGALLEEPHWQAPIYCFNQTEIIIIESTTVHEDFGSLMRGKVDAAAA*