AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280006321.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006321.01.T01 MTR_2g005950 86.000 200 25 2 1 199 272 469 9.53e-121 351
MsG0280006321.01.T01 MTR_2g005950 86.000 200 25 2 1 199 272 469 9.84e-121 350
MsG0280006321.01.T01 MTR_2g005950 86.000 200 25 2 1 199 272 469 1.02e-120 350
MsG0280006321.01.T01 MTR_2g005905 84.302 172 26 1 1 172 226 396 2.46e-102 301
MsG0280006321.01.T01 MTR_3g082160 39.189 74 44 1 128 200 71 144 2.81e-13 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006321.01.T01 AT1G14770 41.250 80 47 0 118 197 336 415 6.46e-17 78.6
MsG0280006321.01.T01 AT1G14770 41.250 80 47 0 118 197 336 415 6.46e-17 78.6

Find 35 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAAATGTTGCATCTTTAAA+TGG 0.160567 2:+431788 MsG0280006321.01.T01:CDS
GCGTGAGAATATTTACAAAA+TGG 0.241191 2:-432130 None:intergenic
CCTCTTGGCTTAGTCATTGC+TGG 0.292197 2:-431974 None:intergenic
CTGAGCTCCCAGCACGCTTT+TGG 0.294479 2:+431941 MsG0280006321.01.T01:CDS
CAATGAAGCTGGCCAGTTAC+TGG 0.321566 2:+432018 MsG0280006321.01.T01:CDS
TTTCATCGATTAATTTATTA+CGG 0.349579 2:-431667 None:intergenic
CCATTTAAAGATGCAACATT+TGG 0.375280 2:-431788 None:intergenic
TTACCACCATTTGTTGGAAT+GGG 0.398451 2:-431713 None:intergenic
TTTACCACCATTTGTTGGAA+TGG 0.407256 2:-431714 None:intergenic
CGTGAGAATATTTACAAAAT+GGG 0.418935 2:-432129 None:intergenic
AAAGCTTTATCACTAGCAAT+TGG 0.419019 2:-431821 None:intergenic
AGCCAAGAAAATATCTTCTT+CGG 0.429208 2:+432171 MsG0280006321.01.T01:CDS
TCTGCTTTACCACCATTTGT+TGG 0.437216 2:-431719 None:intergenic
CAAAAGCGTGCTGGGAGCTC+AGG 0.444723 2:-431940 None:intergenic
ATTTATCCTCAGCATACATC+TGG 0.446080 2:+431632 MsG0280006321.01.T01:CDS
AGATTGATCTTACAGACAAA+AGG 0.451474 2:+431909 MsG0280006321.01.T01:CDS
GTTGATACTGTCTTTGATTG+TGG 0.451790 2:+431845 MsG0280006321.01.T01:CDS
AATCTTGACCAAAAGCGTGC+TGG 0.461361 2:-431949 None:intergenic
CCTGGGTGATTCTGCTCGGT+TGG 0.462731 2:+432084 MsG0280006321.01.T01:CDS
ATCTTGACCAAAAGCGTGCT+GGG 0.473796 2:-431948 None:intergenic
TTCTGCTCGGTTGGACGCAA+AGG 0.477891 2:+432093 MsG0280006321.01.T01:CDS
TGCACTAAGTGCAATGAAGC+TGG 0.487683 2:+432007 MsG0280006321.01.T01:CDS
TGAATCTCAACCCAAACAAA+AGG 0.497868 2:+431763 MsG0280006321.01.T01:CDS
GTTGAGCCCATTCCAACAAA+TGG 0.505965 2:+431707 MsG0280006321.01.T01:CDS
GATTGATCTTACAGACAAAA+GGG 0.518601 2:+431910 MsG0280006321.01.T01:CDS
CTTCATTGCACTTAGTGCAA+AGG 0.529545 2:-432003 None:intergenic
AACTACTACTTGCACATCGA+TGG 0.538531 2:+432048 MsG0280006321.01.T01:CDS
TCGATTAATTTATTACGGCA+AGG 0.541079 2:-431662 None:intergenic
TCTGCTCGGTTGGACGCAAA+GGG 0.549409 2:+432094 MsG0280006321.01.T01:CDS
AGAAAATATCTTCTTCGGCA+AGG 0.566575 2:+432176 MsG0280006321.01.T01:CDS
ACTGCCTGGGTGATTCTGCT+CGG 0.625042 2:+432080 MsG0280006321.01.T01:CDS
GAGCCCATTCCAACAAATGG+TGG 0.646732 2:+431710 MsG0280006321.01.T01:CDS
CCAACCGAGCAGAATCACCC+AGG 0.663211 2:-432084 None:intergenic
TCAACTCCAGATGTATGCTG+AGG 0.682290 2:-431638 None:intergenic
CCAGCAATGACTAAGCCAAG+AGG 0.707456 2:+431974 MsG0280006321.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTCATCGATTAATTTATTA+CGG - Chr2:431670-431689 None:intergenic 15.0%
! CGTGAGAATATTTACAAAAT+GGG - Chr2:432132-432151 None:intergenic 25.0%
AGATTGATCTTACAGACAAA+AGG + Chr2:431909-431928 MsG0280006321.01.T01:CDS 30.0%
AGCCAAGAAAATATCTTCTT+CGG + Chr2:432171-432190 MsG0280006321.01.T01:CDS 30.0%
CCAAATGTTGCATCTTTAAA+TGG + Chr2:431788-431807 MsG0280006321.01.T01:CDS 30.0%
CCATTTAAAGATGCAACATT+TGG - Chr2:431791-431810 None:intergenic 30.0%
GATTGATCTTACAGACAAAA+GGG + Chr2:431910-431929 MsG0280006321.01.T01:CDS 30.0%
GCGTGAGAATATTTACAAAA+TGG - Chr2:432133-432152 None:intergenic 30.0%
TCGATTAATTTATTACGGCA+AGG - Chr2:431665-431684 None:intergenic 30.0%
! AAAGCTTTATCACTAGCAAT+TGG - Chr2:431824-431843 None:intergenic 30.0%
!! AACATTTGGTTCCTTTTGTT+TGG - Chr2:431777-431796 None:intergenic 30.0%
!! ACATTTGGTTCCTTTTGTTT+GGG - Chr2:431776-431795 None:intergenic 30.0%
!! TAGTTTTACAAACCAGTAAC+TGG - Chr2:432033-432052 None:intergenic 30.0%
AGAAAATATCTTCTTCGGCA+AGG + Chr2:432176-432195 MsG0280006321.01.T01:CDS 35.0%
ATTTATCCTCAGCATACATC+TGG + Chr2:431632-431651 MsG0280006321.01.T01:CDS 35.0%
GTTGATACTGTCTTTGATTG+TGG + Chr2:431845-431864 MsG0280006321.01.T01:CDS 35.0%
TGAATCTCAACCCAAACAAA+AGG + Chr2:431763-431782 MsG0280006321.01.T01:CDS 35.0%
! TGCCGAAGAAGATATTTTCT+TGG - Chr2:432176-432195 None:intergenic 35.0%
! TTACCACCATTTGTTGGAAT+GGG - Chr2:431716-431735 None:intergenic 35.0%
! TTTACCACCATTTGTTGGAA+TGG - Chr2:431717-431736 None:intergenic 35.0%
AACTACTACTTGCACATCGA+TGG + Chr2:432048-432067 MsG0280006321.01.T01:CDS 40.0%
ATGGTGCATAAAAACTGCCT+GGG + Chr2:432067-432086 MsG0280006321.01.T01:CDS 40.0%
CTTCATTGCACTTAGTGCAA+AGG - Chr2:432006-432025 None:intergenic 40.0%
TCTGCTTTACCACCATTTGT+TGG - Chr2:431722-431741 None:intergenic 40.0%
GATGGTGCATAAAAACTGCC+TGG + Chr2:432066-432085 MsG0280006321.01.T01:CDS 45.0%
GTTGAGCCCATTCCAACAAA+TGG + Chr2:431707-431726 MsG0280006321.01.T01:CDS 45.0%
TCAACTCCAGATGTATGCTG+AGG - Chr2:431641-431660 None:intergenic 45.0%
TGCACTAAGTGCAATGAAGC+TGG + Chr2:432007-432026 MsG0280006321.01.T01:CDS 45.0%
! AATCTTGACCAAAAGCGTGC+TGG - Chr2:431952-431971 None:intergenic 45.0%
! ATCTTGACCAAAAGCGTGCT+GGG - Chr2:431951-431970 None:intergenic 45.0%
!! GTGCAAAGGTTTTGTCCTCT+TGG - Chr2:431992-432011 None:intergenic 45.0%
CAATGAAGCTGGCCAGTTAC+TGG + Chr2:432018-432037 MsG0280006321.01.T01:CDS 50.0%
CCAGCAATGACTAAGCCAAG+AGG + Chr2:431974-431993 MsG0280006321.01.T01:CDS 50.0%
CCTCTTGGCTTAGTCATTGC+TGG - Chr2:431977-431996 None:intergenic 50.0%
GAGCCCATTCCAACAAATGG+TGG + Chr2:431710-431729 MsG0280006321.01.T01:CDS 50.0%
ACTGCCTGGGTGATTCTGCT+CGG + Chr2:432080-432099 MsG0280006321.01.T01:CDS 55.0%
TCTGCTCGGTTGGACGCAAA+GGG + Chr2:432094-432113 MsG0280006321.01.T01:CDS 55.0%
TTCTGCTCGGTTGGACGCAA+AGG + Chr2:432093-432112 MsG0280006321.01.T01:CDS 55.0%
CCAACCGAGCAGAATCACCC+AGG - Chr2:432087-432106 None:intergenic 60.0%
CCTGGGTGATTCTGCTCGGT+TGG + Chr2:432084-432103 MsG0280006321.01.T01:CDS 60.0%
! CAAAAGCGTGCTGGGAGCTC+AGG - Chr2:431943-431962 None:intergenic 60.0%
! CTGAGCTCCCAGCACGCTTT+TGG + Chr2:431941-431960 MsG0280006321.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 431620 432225 431620 ID=MsG0280006321.01;Name=MsG0280006321.01
Chr2 mRNA 431620 432225 431620 ID=MsG0280006321.01.T01;Parent=MsG0280006321.01;Name=MsG0280006321.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|201
Chr2 exon 431620 432225 431620 ID=MsG0280006321.01.T01:exon:633;Parent=MsG0280006321.01.T01
Chr2 CDS 431620 432225 431620 ID=MsG0280006321.01.T01:cds;Parent=MsG0280006321.01.T01
Gene Sequence

>MsG0280006321.01.T01

ATGAAGACTAACATTTATCCTCAGCATACATCTGGAGTTGAGCCTTGCCGTAATAAATTAATCGATGAAACTAATGAAACTGTACATGTTGAGCCCATTCCAACAAATGGTGGTAAAGCAGATAAAGTTCAACATATGACTAATGAATCTCAACCCAAACAAAAGGAACCAAATGTTGCATCTTTAAATGGCTTGCAAAAGCCAATTGCTAGTGATAAAGCTTTAGTTGATACTGTCTTTGATTGTGGAGCAGAGTTATCAAGTGATAGTGATGTGTATTACAATGAAAAGATTGATCTTACAGACAAAAGGGATGAATTCCTGAGCTCCCAGCACGCTTTTGGTCAAGATTTACCAGCAATGACTAAGCCAAGAGGACAAAACCTTTGCACTAAGTGCAATGAAGCTGGCCAGTTACTGGTTTGTAAAACTACTACTTGCACATCGATGGTGCATAAAAACTGCCTGGGTGATTCTGCTCGGTTGGACGCAAAGGGAAACTTTCTCTGCCCATTTTGTAAATATTCTCACGCTATTTCAGAATATCTTGAAGCCAAGAAAATATCTTCTTCGGCAAGGAAAGAATTAGCTATCTTCATTACATAA
Protein sequence

>MsG0280006321.01.T01

MKTNIYPQHTSGVEPCRNKLIDETNETVHVEPIPTNGGKADKVQHMTNESQPKQKEPNVASLNGLQKPIASDKALVDTVFDCGAELSSDSDVYYNEKIDLTDKRDEFLSSQHAFGQDLPAMTKPRGQNLCTKCNEAGQLLVCKTTTCTSMVHKNCLGDSARLDAKGNFLCPFCKYSHAISEYLEAKKISSSARKELAIFIT*