AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180002266.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180002266.01.T01 MTR_7g056603 95.238 168 8 0 1 168 1798 1965 2.38e-85 274
MsG0180002266.01.T01 MTR_7g056603 95.238 168 8 0 1 168 1817 1984 2.75e-85 274
MsG0180002266.01.T01 MTR_7g056603 95.238 168 8 0 1 168 1800 1967 3.06e-85 274
MsG0180002266.01.T01 MTR_7g056603 95.238 168 8 0 1 168 1723 1890 3.08e-85 274
MsG0180002266.01.T01 MTR_7g056603 95.238 168 8 0 1 168 1798 1965 3.12e-85 273
MsG0180002266.01.T01 MTR_7g056603 95.238 168 8 0 1 168 1725 1892 3.67e-85 273
MsG0180002266.01.T01 MTR_7g056603 95.238 168 8 0 1 168 1742 1909 3.93e-85 273
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 48 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAACGTAGACTGTTGTTTA+AGG 0.180132 1:-35957500 None:intergenic
GTTGCTGATGTTCTGGTTCT+TGG 0.192057 1:-35957548 None:intergenic
TGCTCCTGTTGCTGATGTTC+TGG 0.271428 1:-35957555 None:intergenic
AAAGTGCTCACTTGAGTAAC+TGG 0.340797 1:-35957339 None:intergenic
TGTTGCAAAGCCACATCTTC+GGG 0.346362 1:-35957591 None:intergenic
TACAAGCACTTCAATGTCTC+AGG 0.391112 1:+35957221 MsG0180002266.01.T01:CDS
TGAGTAACTGGATTGGGAAT+GGG 0.405153 1:-35957327 None:intergenic
ACTTGAGAAGCACTATTTCC+AGG 0.407130 1:-35957195 None:intergenic
CAACGTAGACTGTTGTTTAA+GGG 0.410056 1:-35957499 None:intergenic
ATGTTGCAAAGCCACATCTT+CGG 0.421140 1:-35957592 None:intergenic
CTTGGCATGACTGTTGAGAC+AGG 0.421927 1:-35957530 None:intergenic
GCGTCTCATTCACATAACTC+TGG 0.426581 1:+35957450 MsG0180002266.01.T01:CDS
CTCACTTGAGTAACTGGATT+GGG 0.430468 1:-35957333 None:intergenic
CTCAAAATTGATCAACAGCC+TGG 0.433353 1:+35957177 MsG0180002266.01.T01:CDS
CATGACTGTTGAGACAGGTT+TGG 0.452941 1:-35957525 None:intergenic
ACTGTTGTGGGCCCAGCCCT+TGG 0.456150 1:-35957413 None:intergenic
TTCAATGTCTCAGGGTTCCA+TGG 0.463157 1:+35957230 MsG0180002266.01.T01:CDS
AGAACCAGAACATCAGCAAC+AGG 0.471825 1:+35957551 MsG0180002266.01.T01:CDS
CGTCTCATTCACATAACTCT+GGG 0.472424 1:+35957451 MsG0180002266.01.T01:CDS
TTGAGTAACTGGATTGGGAA+TGG 0.485224 1:-35957328 None:intergenic
GAGTAACTGGATTGGGAATG+GGG 0.488364 1:-35957326 None:intergenic
TCATCATTCCACTGTAGAGT+TGG 0.495483 1:-35957672 None:intergenic
GTTGTTTAAGGGGCAAAGGC+TGG 0.503530 1:-35957488 None:intergenic
ACAACAGTTATCAGCTAACT+TGG 0.503909 1:+35957428 MsG0180002266.01.T01:CDS
ACTGACTGTTAACCAAGGGC+TGG 0.504949 1:+35957401 MsG0180002266.01.T01:CDS
CATCATTCCACTGTAGAGTT+GGG 0.515598 1:-35957671 None:intergenic
AGAACATCAGCAACAGGAGC+AGG 0.516222 1:+35957557 MsG0180002266.01.T01:CDS
GACTGTTGTTTAAGGGGCAA+AGG 0.530968 1:-35957492 None:intergenic
GATAAGCAAACTGCTCTGCC+TGG 0.532252 1:-35957642 None:intergenic
AAGTTAGCTGATAACTGTTG+TGG 0.534895 1:-35957426 None:intergenic
AGTTAGCTGATAACTGTTGT+GGG 0.536011 1:-35957425 None:intergenic
GCTCACTTGAGTAACTGGAT+TGG 0.538473 1:-35957334 None:intergenic
AGTTACTCAAGTGAGCACTT+TGG 0.549050 1:+35957341 MsG0180002266.01.T01:CDS
AACGTAGACTGTTGTTTAAG+GGG 0.553325 1:-35957498 None:intergenic
AGTGGAATGATGACTTCTGA+TGG 0.568368 1:+35957682 MsG0180002266.01.T01:CDS
TAATAAACTAGCTGAATCCA+TGG 0.585438 1:-35957247 None:intergenic
CTGACTGTTAACCAAGGGCT+GGG 0.608092 1:+35957402 MsG0180002266.01.T01:CDS
CCACTGTAGAGTTGGGTGGA+CGG 0.618553 1:-35957664 None:intergenic
CATTCCACTGTAGAGTTGGG+TGG 0.621330 1:-35957668 None:intergenic
TTCTGCTGAGAAGACACAGT+AGG 0.628223 1:-35957279 None:intergenic
CATGTACAAAATCTACAACC+AGG 0.634185 1:+35957624 MsG0180002266.01.T01:CDS
AGTAACTGGATTGGGAATGG+GGG 0.646716 1:-35957325 None:intergenic
ACAAGCACTTCAATGTCTCA+GGG 0.658164 1:+35957222 MsG0180002266.01.T01:CDS
CCGTCCACCCAACTCTACAG+TGG 0.664638 1:+35957664 MsG0180002266.01.T01:CDS
AGTCACTGACTGTTAACCAA+GGG 0.669403 1:+35957397 MsG0180002266.01.T01:CDS
GTCTCATTCACATAACTCTG+GGG 0.679844 1:+35957452 MsG0180002266.01.T01:CDS
GAGTCACTGACTGTTAACCA+AGG 0.685822 1:+35957396 MsG0180002266.01.T01:CDS
CACATAACTCTGGGGCACAG+CGG 0.707718 1:+35957460 MsG0180002266.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TAATAAACTAGCTGAATCCA+TGG - Chr1:35957250-35957269 None:intergenic 30.0%
! TGTAGATTTTGTACATGTTG+AGG - Chr1:35957621-35957640 None:intergenic 30.0%
AAGTTAGCTGATAACTGTTG+TGG - Chr1:35957429-35957448 None:intergenic 35.0%
ACAACAGTTATCAGCTAACT+TGG + Chr1:35957428-35957447 MsG0180002266.01.T01:CDS 35.0%
AGTTAGCTGATAACTGTTGT+GGG - Chr1:35957428-35957447 None:intergenic 35.0%
CATGTACAAAATCTACAACC+AGG + Chr1:35957624-35957643 MsG0180002266.01.T01:CDS 35.0%
! AACGTAGACTGTTGTTTAAG+GGG - Chr1:35957501-35957520 None:intergenic 35.0%
! CAACGTAGACTGTTGTTTAA+GGG - Chr1:35957502-35957521 None:intergenic 35.0%
! TCAACGTAGACTGTTGTTTA+AGG - Chr1:35957503-35957522 None:intergenic 35.0%
ACAAGCACTTCAATGTCTCA+GGG + Chr1:35957222-35957241 MsG0180002266.01.T01:CDS 40.0%
AGTTACTCAAGTGAGCACTT+TGG + Chr1:35957341-35957360 MsG0180002266.01.T01:CDS 40.0%
ATGTTGCAAAGCCACATCTT+CGG - Chr1:35957595-35957614 None:intergenic 40.0%
CATCATTCCACTGTAGAGTT+GGG - Chr1:35957674-35957693 None:intergenic 40.0%
CGTCTCATTCACATAACTCT+GGG + Chr1:35957451-35957470 MsG0180002266.01.T01:CDS 40.0%
CTCAAAATTGATCAACAGCC+TGG + Chr1:35957177-35957196 MsG0180002266.01.T01:CDS 40.0%
CTCACTTGAGTAACTGGATT+GGG - Chr1:35957336-35957355 None:intergenic 40.0%
GTCTCATTCACATAACTCTG+GGG + Chr1:35957452-35957471 MsG0180002266.01.T01:CDS 40.0%
TACAAGCACTTCAATGTCTC+AGG + Chr1:35957221-35957240 MsG0180002266.01.T01:CDS 40.0%
TCATCATTCCACTGTAGAGT+TGG - Chr1:35957675-35957694 None:intergenic 40.0%
! AAAGTGCTCACTTGAGTAAC+TGG - Chr1:35957342-35957361 None:intergenic 40.0%
! AGTCACTGACTGTTAACCAA+GGG + Chr1:35957397-35957416 MsG0180002266.01.T01:CDS 40.0%
! TGAGTAACTGGATTGGGAAT+GGG - Chr1:35957330-35957349 None:intergenic 40.0%
! TTGAGTAACTGGATTGGGAA+TGG - Chr1:35957331-35957350 None:intergenic 40.0%
!! ACTTGAGAAGCACTATTTCC+AGG - Chr1:35957198-35957217 None:intergenic 40.0%
AGAACCAGAACATCAGCAAC+AGG + Chr1:35957551-35957570 MsG0180002266.01.T01:CDS 45.0%
CATGACTGTTGAGACAGGTT+TGG - Chr1:35957528-35957547 None:intergenic 45.0%
GCGTCTCATTCACATAACTC+TGG + Chr1:35957450-35957469 MsG0180002266.01.T01:CDS 45.0%
GCTCACTTGAGTAACTGGAT+TGG - Chr1:35957337-35957356 None:intergenic 45.0%
TGTTGCAAAGCCACATCTTC+GGG - Chr1:35957594-35957613 None:intergenic 45.0%
TTCAATGTCTCAGGGTTCCA+TGG + Chr1:35957230-35957249 MsG0180002266.01.T01:CDS 45.0%
TTCTGCTGAGAAGACACAGT+AGG - Chr1:35957282-35957301 None:intergenic 45.0%
TTGGGAATGGGGGAATCAAA+TGG - Chr1:35957318-35957337 None:intergenic 45.0%
! AGTAACTGGATTGGGAATGG+GGG - Chr1:35957328-35957347 None:intergenic 45.0%
! GACTGTTGTTTAAGGGGCAA+AGG - Chr1:35957495-35957514 None:intergenic 45.0%
! GAGTAACTGGATTGGGAATG+GGG - Chr1:35957329-35957348 None:intergenic 45.0%
! GAGTCACTGACTGTTAACCA+AGG + Chr1:35957396-35957415 MsG0180002266.01.T01:CDS 45.0%
! GCAACATTTTCCCGAAGATG+TGG + Chr1:35957581-35957600 MsG0180002266.01.T01:CDS 45.0%
!! GTTGCTGATGTTCTGGTTCT+TGG - Chr1:35957551-35957570 None:intergenic 45.0%
ACTGACTGTTAACCAAGGGC+TGG + Chr1:35957401-35957420 MsG0180002266.01.T01:CDS 50.0%
AGAACATCAGCAACAGGAGC+AGG + Chr1:35957557-35957576 MsG0180002266.01.T01:CDS 50.0%
CATTCCACTGTAGAGTTGGG+TGG - Chr1:35957671-35957690 None:intergenic 50.0%
CTGACTGTTAACCAAGGGCT+GGG + Chr1:35957402-35957421 MsG0180002266.01.T01:CDS 50.0%
CTTGGCATGACTGTTGAGAC+AGG - Chr1:35957533-35957552 None:intergenic 50.0%
GATAAGCAAACTGCTCTGCC+TGG - Chr1:35957645-35957664 None:intergenic 50.0%
GGAATGGGGGAATCAAATGG+TGG - Chr1:35957315-35957334 None:intergenic 50.0%
GTTGTTTAAGGGGCAAAGGC+TGG - Chr1:35957491-35957510 None:intergenic 50.0%
TGCTCCTGTTGCTGATGTTC+TGG - Chr1:35957558-35957577 None:intergenic 50.0%
CCACTGTAGAGTTGGGTGGA+CGG - Chr1:35957667-35957686 None:intergenic 55.0%
!! CACATAACTCTGGGGCACAG+CGG + Chr1:35957460-35957479 MsG0180002266.01.T01:CDS 55.0%
CCGTCCACCCAACTCTACAG+TGG + Chr1:35957664-35957683 MsG0180002266.01.T01:CDS 60.0%
ACTGTTGTGGGCCCAGCCCT+TGG - Chr1:35957416-35957435 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr1 gene 35957159 35957701 35957159 ID=MsG0180002266.01;Name=MsG0180002266.01
Chr1 mRNA 35957159 35957701 35957159 ID=MsG0180002266.01.T01;Parent=MsG0180002266.01;Name=MsG0180002266.01.T01;_AED=0.45;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|180
Chr1 exon 35957159 35957701 35957159 ID=MsG0180002266.01.T01:exon:3076;Parent=MsG0180002266.01.T01
Chr1 CDS 35957159 35957701 35957159 ID=MsG0180002266.01.T01:cds;Parent=MsG0180002266.01.T01
Gene Sequence

>MsG0180002266.01.T01

ATGTCTCAATCAGATTCACTCAAAATTGATCAACAGCCTGGAAATAGTGCTTCTCAAGTCAGTACAAGCACTTCAATGTCTCAGGGTTCCATGGATTCAGCTAGTTTATTAGCAGTTGCTCCTACTGTGTCTTCTCAGCAGAAAACTTCAGAACCACCATTTGATTCCCCCATTCCCAATCCAGTTACTCAAGTGAGCACTTTGGAGAGCACAGCTGTTGAAAATTCAGCTGCAACTGAGTCACTGACTGTTAACCAAGGGCTGGGCCCACAACAGTTATCAGCTAACTTGGCGTCTCATTCACATAACTCTGGGGCACAGCGGCAACACCAGCCTTTGCCCCTTAAACAACAGTCTACGTTGAAACCAAACCTGTCTCAACAGTCATGCCAAGAACCAGAACATCAGCAACAGGAGCAGGAGCAACATTTTCCCGAAGATGTGGCTTTGCAACATCAACCTCAACATGTACAAAATCTACAACCAGGCAGAGCAGTTTGCTTATCCGTCCACCCAACTCTACAGTGGAATGATGACTTCTGA
Protein sequence

>MsG0180002266.01.T01

MSQSDSLKIDQQPGNSASQVSTSTSMSQGSMDSASLLAVAPTVSSQQKTSEPPFDSPIPNPVTQVSTLESTAVENSAATESLTVNQGLGPQQLSANLASHSHNSGAQRQHQPLPLKQQSTLKPNLSQQSCQEPEHQQQEQEQHFPEDVALQHQPQHVQNLQPGRAVCLSVHPTLQWNDDF*