AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580029905.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029905.01.T01 MTR_5g094440 97.037 270 8 0 1 270 1 270 0.0 545
MsG0580029905.01.T01 MTR_3g072920 32.536 209 126 5 74 269 243 449 1.57e-32 124
MsG0580029905.01.T01 MTR_1g024980 33.981 206 119 6 74 269 201 399 6.15e-30 116
MsG0580029905.01.T01 MTR_4g081420 34.783 207 121 5 74 268 230 434 1.01e-27 110
MsG0580029905.01.T01 MTR_3g463270 31.646 237 127 11 61 270 160 388 2.26e-24 100
MsG0580029905.01.T01 MTR_2g010870 29.018 224 112 6 79 269 145 354 2.32e-19 87.0
MsG0580029905.01.T01 MTR_2g010860 28.986 207 123 6 80 269 176 375 1.37e-17 82.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029905.01.T01 AT5G54630 36.574 216 112 8 74 268 258 469 3.82e-27 109
MsG0580029905.01.T01 AT4G27240 34.562 217 121 8 68 268 217 428 1.05e-25 105
MsG0580029905.01.T01 AT1G75710 31.169 231 120 8 74 269 231 457 2.54e-23 99.0
MsG0580029905.01.T01 AT4G27240 35.593 177 100 5 68 234 217 389 1.32e-22 96.7
MsG0580029905.01.T01 AT2G29660 29.596 223 126 8 74 269 153 371 1.05e-19 87.8
MsG0580029905.01.T01 AT1G11490 29.694 229 124 10 65 269 148 363 6.75e-16 77.0
MsG0580029905.01.T01 AT1G11490 29.694 229 124 10 65 269 148 363 6.75e-16 77.0

Find 43 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTACTCCCTTTGCCAAATTT+TGG 0.172903 5:-103808054 None:intergenic
TTTCCATCTACTGTACTTCT+TGG 0.258911 5:-103808882 None:intergenic
ATAAGGCAGCCACCAAAATT+TGG 0.275929 5:+103808042 MsG0580029905.01.T01:CDS
GGATTGTACATTCTTAAATA+TGG 0.289951 5:-103809351 None:intergenic
GGAAAGTTAGAACAGTTCTA+AGG 0.320437 5:+103808784 MsG0580029905.01.T01:CDS
ACAAACTCACTGATGTAATA+AGG 0.337481 5:+103808025 MsG0580029905.01.T01:CDS
AACTTTCCTCAGTGGCTTTG+AGG 0.349977 5:-103808769 None:intergenic
AGATCATGAACTTTCTTCAT+AGG 0.351902 5:-103808954 None:intergenic
ATAGTTTGCAGGATAATTGC+TGG 0.375937 5:+103809125 MsG0580029905.01.T01:CDS
TTTAACATAAAGAGCCTGTT+TGG 0.387233 5:+103809385 MsG0580029905.01.T01:three_prime_UTR
AGCCGAGCCTGTGTGTTGTT+TGG 0.410884 5:-103808171 None:intergenic
AGCCTGTGTGTTGTTTGGCT+TGG 0.421270 5:-103808166 None:intergenic
CATCCAAGAAGTACAGTAGA+TGG 0.426400 5:+103808879 MsG0580029905.01.T01:CDS
AGGAAGAAATGCAAGCCTTA+TGG 0.429141 5:+103807971 MsG0580029905.01.T01:exon
CTTTCTTCATAGGTTTCCCT+TGG 0.432529 5:-103808944 None:intergenic
TCGAATAAATAAATCCAAAC+AGG 0.433598 5:-103809399 None:intergenic
ACTGTACTTCTTGGATGCCT+TGG 0.453519 5:-103808873 None:intergenic
ACAAACACACACAAATTAAG+AGG 0.454752 5:+103807951 MsG0580029905.01.T01:five_prime_UTR
GAGTAGCTATGTTCTACAAA+AGG 0.501056 5:+103808071 MsG0580029905.01.T01:CDS
GTCTTTCAAAGACAACCATA+AGG 0.501827 5:-103807986 None:intergenic
AGCCACCAAAATTTGGCAAA+GGG 0.512723 5:+103808049 MsG0580029905.01.T01:CDS
AGATGATATTTCAGAAAGCA+TGG 0.538196 5:+103808739 MsG0580029905.01.T01:CDS
GAAAGTTAGAACAGTTCTAA+GGG 0.550047 5:+103808785 MsG0580029905.01.T01:CDS
CAGCCACCAAAATTTGGCAA+AGG 0.555527 5:+103808048 MsG0580029905.01.T01:CDS
TTGAAAGACAATGTCAAATG+TGG 0.555657 5:+103808000 MsG0580029905.01.T01:CDS
AAGTGAAGAAACAGTATCCA+AGG 0.559280 5:+103808856 MsG0580029905.01.T01:CDS
GTTCTGAGTGTGACTCAACT+AGG 0.563240 5:+103809186 MsG0580029905.01.T01:CDS
GAGTGTGACTCAACTAGGCT+AGG 0.568204 5:+103809191 MsG0580029905.01.T01:CDS
AGCCAAACAACACACAGGCT+CGG 0.581716 5:+103808169 MsG0580029905.01.T01:CDS
TTGAAAATTATGACAAAACA+AGG 0.601697 5:-103809269 None:intergenic
ACTGCAGTGAATGAAGTTGA+TGG 0.605466 5:+103809149 MsG0580029905.01.T01:CDS
TAGCTGGAATTTCCATGAGG+GGG 0.606181 5:-103808131 None:intergenic
ACTACAATGAGATGTTTCCA+AGG 0.610196 5:+103808927 MsG0580029905.01.T01:CDS
AAACAAGGAAGAATAGAACT+AGG 0.612460 5:-103809254 None:intergenic
TCTAGCTGGAATTTCCATGA+GGG 0.619119 5:-103808133 None:intergenic
TTCCAAGCCAAACAACACAC+AGG 0.628310 5:+103808164 MsG0580029905.01.T01:CDS
ACTGTTCTAACTTTCCTCAG+TGG 0.641903 5:-103808777 None:intergenic
AGCTGGAATTTCCATGAGGG+GGG 0.644140 5:-103808130 None:intergenic
CTAGCTGGAATTTCCATGAG+GGG 0.652167 5:-103808132 None:intergenic
ACTTGACAAAATCGACACGA+TGG 0.658301 5:-103808987 None:intergenic
CTACAATGAGATGTTTCCAA+GGG 0.668592 5:+103808928 MsG0580029905.01.T01:CDS
GTCTAGCTGGAATTTCCATG+AGG 0.668741 5:-103808134 None:intergenic
TGAACACCTCAAAGCCACTG+AGG 0.730072 5:+103808763 MsG0580029905.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATAAATGTAATTTAAAAG+AGG - Chr5:103808217-103808236 None:intergenic 10.0%
!! TCTTTATGTTAAAAAATTCA+AGG - Chr5:103809378-103809397 None:intergenic 15.0%
!! TTCACATTTATTACATATAT+CGG + Chr5:103808544-103808563 MsG0580029905.01.T01:intron 15.0%
!!! ATTTACTATTGATTTTATGT+AGG + Chr5:103808634-103808653 MsG0580029905.01.T01:intron 15.0%
!! TTATGTTAAAAAATTCAAGG+AGG - Chr5:103809375-103809394 None:intergenic 20.0%
!! TTGAAAATTATGACAAAACA+AGG - Chr5:103809272-103809291 None:intergenic 20.0%
!!! AAAAAGTTTTAATAGTTTGC+AGG + Chr5:103809114-103809133 MsG0580029905.01.T01:CDS 20.0%
! ACAACATAACATATACTGAT+AGG + Chr5:103808320-103808339 MsG0580029905.01.T01:intron 25.0%
! GGATTGTACATTCTTAAATA+TGG - Chr5:103809354-103809373 None:intergenic 25.0%
! TTGAAATGTAACAAGAGTTA+TGG + Chr5:103808351-103808370 MsG0580029905.01.T01:intron 25.0%
!! AAAGTGCTTATAAATAGTGA+CGG - Chr5:103808525-103808544 None:intergenic 25.0%
!! ATCTCAACAATTTTTCTTGA+AGG - Chr5:103808723-103808742 None:intergenic 25.0%
!! TCCTCTACATTGTTAAATTT+TGG + Chr5:103808677-103808696 MsG0580029905.01.T01:intron 25.0%
!! TCTCAACAATTTTTCTTGAA+GGG - Chr5:103808722-103808741 None:intergenic 25.0%
!!! AAATAGTTTGCTACATTATG+TGG - Chr5:103808389-103808408 None:intergenic 25.0%
!!! TCACTATTCGTTTTTATCTT+TGG + Chr5:103809318-103809337 MsG0580029905.01.T01:three_prime_UTR 25.0%
AAACAAGGAAGAATAGAACT+AGG - Chr5:103809257-103809276 None:intergenic 30.0%
ACAAACACACACAAATTAAG+AGG + Chr5:103807951-103807970 MsG0580029905.01.T01:five_prime_UTR 30.0%
ACAAACTCACTGATGTAATA+AGG + Chr5:103808025-103808044 MsG0580029905.01.T01:CDS 30.0%
AGATCATGAACTTTCTTCAT+AGG - Chr5:103808957-103808976 None:intergenic 30.0%
AGATGATATTTCAGAAAGCA+TGG + Chr5:103808739-103808758 MsG0580029905.01.T01:CDS 30.0%
CATCAAAAACTTGACATCTA+CGG - Chr5:103808460-103808479 None:intergenic 30.0%
GCCAAAATTTAACAATGTAG+AGG - Chr5:103808681-103808700 None:intergenic 30.0%
TATGTTGTGTTCATGCATAT+AGG - Chr5:103808308-103808327 None:intergenic 30.0%
TTGAAAGACAATGTCAAATG+TGG + Chr5:103808000-103808019 MsG0580029905.01.T01:CDS 30.0%
TTTAACATAAAGAGCCTGTT+TGG + Chr5:103809385-103809404 MsG0580029905.01.T01:three_prime_UTR 30.0%
! GAAAGTTAGAACAGTTCTAA+GGG + Chr5:103808785-103808804 MsG0580029905.01.T01:CDS 30.0%
! TTTCAACTGACATGTTTTGT+AGG + Chr5:103809286-103809305 MsG0580029905.01.T01:exon 30.0%
AAGTGAAGAAACAGTATCCA+AGG + Chr5:103808856-103808875 MsG0580029905.01.T01:CDS 35.0%
ACTACAATGAGATGTTTCCA+AGG + Chr5:103808927-103808946 MsG0580029905.01.T01:CDS 35.0%
CTACAATGAGATGTTTCCAA+GGG + Chr5:103808928-103808947 MsG0580029905.01.T01:CDS 35.0%
GAGTAGCTATGTTCTACAAA+AGG + Chr5:103808071-103808090 MsG0580029905.01.T01:CDS 35.0%
GGAAAGTTAGAACAGTTCTA+AGG + Chr5:103808784-103808803 MsG0580029905.01.T01:CDS 35.0%
GTCTTTCAAAGACAACCATA+AGG - Chr5:103807989-103808008 None:intergenic 35.0%
TTCTTACTACTGAACTCCTT+TGG + Chr5:103808267-103808286 MsG0580029905.01.T01:intron 35.0%
TTTCCATCTACTGTACTTCT+TGG - Chr5:103808885-103808904 None:intergenic 35.0%
! ATAGTTTGCAGGATAATTGC+TGG + Chr5:103809125-103809144 MsG0580029905.01.T01:CDS 35.0%
! TTGGAAAAAACTAGTCTAGC+TGG - Chr5:103808150-103808169 None:intergenic 35.0%
!! TGTTAAATTTTGGCAGAGCT+TGG + Chr5:103808687-103808706 MsG0580029905.01.T01:intron 35.0%
AATCGCGGTCTAATTCAATG+TGG - Chr5:103808492-103808511 None:intergenic 40.0%
ACTGCAGTGAATGAAGTTGA+TGG + Chr5:103809149-103809168 MsG0580029905.01.T01:CDS 40.0%
ACTGTTCTAACTTTCCTCAG+TGG - Chr5:103808780-103808799 None:intergenic 40.0%
ACTTGACAAAATCGACACGA+TGG - Chr5:103808990-103809009 None:intergenic 40.0%
AGCCACCAAAATTTGGCAAA+GGG + Chr5:103808049-103808068 MsG0580029905.01.T01:CDS 40.0%
AGGAAGAAATGCAAGCCTTA+TGG + Chr5:103807971-103807990 MsG0580029905.01.T01:exon 40.0%
ATAAGGCAGCCACCAAAATT+TGG + Chr5:103808042-103808061 MsG0580029905.01.T01:CDS 40.0%
CTTTCTTCATAGGTTTCCCT+TGG - Chr5:103808947-103808966 None:intergenic 40.0%
GAGCAACAAACTCTTTCCAA+AGG - Chr5:103808286-103808305 None:intergenic 40.0%
GTGCTTATAAATAGTGACGG+AGG - Chr5:103808522-103808541 None:intergenic 40.0%
TCTAGCTGGAATTTCCATGA+GGG - Chr5:103808136-103808155 None:intergenic 40.0%
! CATCCAAGAAGTACAGTAGA+TGG + Chr5:103808879-103808898 MsG0580029905.01.T01:CDS 40.0%
! CTACTCCCTTTGCCAAATTT+TGG - Chr5:103808057-103808076 None:intergenic 40.0%
!! ATTTTGGCAGAGCTTGGTAT+TGG + Chr5:103808693-103808712 MsG0580029905.01.T01:intron 40.0%
ACTGTACTTCTTGGATGCCT+TGG - Chr5:103808876-103808895 None:intergenic 45.0%
AGAAGATAATACCCCCCTCA+TGG + Chr5:103808119-103808138 MsG0580029905.01.T01:CDS 45.0%
CAGCCACCAAAATTTGGCAA+AGG + Chr5:103808048-103808067 MsG0580029905.01.T01:CDS 45.0%
CTAGCTGGAATTTCCATGAG+GGG - Chr5:103808135-103808154 None:intergenic 45.0%
GACGGAGGAGAAAAAAATCG+CGG - Chr5:103808507-103808526 None:intergenic 45.0%
GTCTAGCTGGAATTTCCATG+AGG - Chr5:103808137-103808156 None:intergenic 45.0%
TAGCTGGAATTTCCATGAGG+GGG - Chr5:103808134-103808153 None:intergenic 45.0%
TTCCAAGCCAAACAACACAC+AGG + Chr5:103808164-103808183 MsG0580029905.01.T01:CDS 45.0%
! AACTTTCCTCAGTGGCTTTG+AGG - Chr5:103808772-103808791 None:intergenic 45.0%
! CTCCCTTTGCCAAATTTTGG+TGG - Chr5:103808054-103808073 None:intergenic 45.0%
! GTTCTGAGTGTGACTCAACT+AGG + Chr5:103809186-103809205 MsG0580029905.01.T01:CDS 45.0%
!! CAATTTTGACGCGAAACACG+CGG + Chr5:103809019-103809038 MsG0580029905.01.T01:CDS 45.0%
AGCCAAACAACACACAGGCT+CGG + Chr5:103808169-103808188 MsG0580029905.01.T01:CDS 50.0%
AGCTGGAATTTCCATGAGGG+GGG - Chr5:103808133-103808152 None:intergenic 50.0%
GAGTGTGACTCAACTAGGCT+AGG + Chr5:103809191-103809210 MsG0580029905.01.T01:CDS 50.0%
TGAACACCTCAAAGCCACTG+AGG + Chr5:103808763-103808782 MsG0580029905.01.T01:CDS 50.0%
! AACACACAGGCTCGGCTTTT+CGG + Chr5:103808177-103808196 MsG0580029905.01.T01:CDS 50.0%
!! AGCCTGTGTGTTGTTTGGCT+TGG - Chr5:103808169-103808188 None:intergenic 50.0%
! AGCCGAGCCTGTGTGTTGTT+TGG - Chr5:103808174-103808193 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 103807947 103809417 103807947 ID=MsG0580029905.01;Name=MsG0580029905.01
Chr5 mRNA 103807947 103809417 103807947 ID=MsG0580029905.01.T01;Parent=MsG0580029905.01;Name=MsG0580029905.01.T01;_AED=0.42;_eAED=0.42;_QI=32|1|1|1|1|1|2|122|270
Chr5 exon 103807947 103808198 103807947 ID=MsG0580029905.01.T01:exon:35262;Parent=MsG0580029905.01.T01
Chr5 exon 103808703 103809417 103808703 ID=MsG0580029905.01.T01:exon:35263;Parent=MsG0580029905.01.T01
Chr5 five_prime_UTR 103807947 103807978 103807947 ID=MsG0580029905.01.T01:five_prime_utr;Parent=MsG0580029905.01.T01
Chr5 CDS 103807979 103808198 103807979 ID=MsG0580029905.01.T01:cds;Parent=MsG0580029905.01.T01
Chr5 CDS 103808703 103809295 103808703 ID=MsG0580029905.01.T01:cds;Parent=MsG0580029905.01.T01
Chr5 three_prime_UTR 103809296 103809417 103809296 ID=MsG0580029905.01.T01:three_prime_utr;Parent=MsG0580029905.01.T01
Gene Sequence

>MsG0580029905.01.T01

ATGCAAGCCTTATGGTTGTCTTTGAAAGACAATGTCAAATGTGGAAACAAACTCACTGATGTAATAAGGCAGCCACCAAAATTTGGCAAAGGGAGTAGCTATGTTCTACAAAAGGAGAATAAAATGAACAAAGAAGATGAAGAAGATAATACCCCCCTCATGGAAATTCCAGCTAGACTAGTTTTTTCCAAGCCAAACAACACACAGGCTCGGCTTTTCGAGCTTGGTATTGGAGACCCTTCAAGAAAAATTGTTGAGATGATATTTCAGAAAGCATGGATGAACACCTCAAAGCCACTGAGGAAAGTTAGAACAGTTCTAAGGGTGAGATACTCAGAAGAAGTTCTTGAAAGATTTGAGAAGTATAGAGAAAAAGTGAAGAAACAGTATCCAAGGCATCCAAGAAGTACAGTAGATGGAAATGAATTGTTGAGATTCTATGTCACTACAATGAGATGTTTCCAAGGGAAACCTATGAAGAAAGTTCATGATCTTTGTAAAGATCCATCGTGTCGATTTTGTCAAGTAATTCAATTCAATTTTGACGCGAAACACGCGGAGACTCTGTTGAATACATGTGAGAAAGATTTTAGTAACAGAAAAAGTGTCAATGCAAGAGTGAAGAATGTGAAAAAAGTTTTAATAGTTTGCAGGATAATTGCTGGAACTGCAGTGAATGAAGTTGATGGTAACTACGAAGAATGTTCTGAGTGTGACTCAACTAGGCTAGGAGAAATGCAATTTAGCTTAGAAAGATTTGTAGTGAAAAATCCTAGTTCTATTCTTCCTTGTTTTGTCATAATTTTCAACTGA

Protein sequence

>MsG0580029905.01.T01

MQALWLSLKDNVKCGNKLTDVIRQPPKFGKGSSYVLQKENKMNKEDEEDNTPLMEIPARLVFSKPNNTQARLFELGIGDPSRKIVEMIFQKAWMNTSKPLRKVRTVLRVRYSEEVLERFEKYREKVKKQYPRHPRSTVDGNELLRFYVTTMRCFQGKPMKKVHDLCKDPSCRFCQVIQFNFDAKHAETLLNTCEKDFSNRKSVNARVKNVKKVLIVCRIIAGTAVNEVDGNYEECSECDSTRLGEMQFSLERFVVKNPSSILPCFVIIFN*