AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780041035.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041035.01.T01 MTR_4g092690 99.320 147 1 0 1 147 113 259 7.69e-102 296
MsG0780041035.01.T01 MTR_5g014710 89.116 147 16 0 1 147 115 261 7.60e-92 271
MsG0780041035.01.T01 MTR_8g463760 69.655 145 44 0 2 146 100 244 1.39e-65 203
MsG0780041035.01.T01 MTR_8g463760 76.471 119 28 0 2 120 100 218 4.43e-59 184
MsG0780041035.01.T01 MTR_2g021700 90.323 62 6 0 90 151 43 104 3.06e-33 115
MsG0780041035.01.T01 MTR_2g045010 90.323 62 6 0 90 151 43 104 3.06e-33 115
MsG0780041035.01.T01 MTR_4g033285 96.296 54 2 0 90 143 43 96 1.12e-30 106
MsG0780041035.01.T01 MTR_4g121520 66.667 60 5 1 90 149 3 47 5.04e-16 74.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041035.01.T01 AT5G09660 92.517 147 11 0 1 147 90 236 3.57e-97 283
MsG0780041035.01.T01 AT5G09660 92.517 147 11 0 1 147 90 236 4.75e-97 283
MsG0780041035.01.T01 AT5G09660 92.517 147 11 0 1 147 111 257 5.89e-97 283
MsG0780041035.01.T01 AT5G09660 92.517 147 11 0 1 147 111 257 8.15e-97 283
MsG0780041035.01.T01 AT5G09660 91.837 147 11 1 1 147 111 256 1.13e-94 278
MsG0780041035.01.T01 AT2G22780 87.075 147 19 0 1 147 111 257 3.18e-89 264
MsG0780041035.01.T01 AT3G47520 69.388 147 45 0 1 147 151 297 5.68e-68 211
MsG0780041035.01.T01 AT1G53240 69.178 146 45 0 2 147 99 244 3.16e-67 207
MsG0780041035.01.T01 AT3G15020 69.863 146 44 0 2 147 99 244 5.90e-67 206
MsG0780041035.01.T01 AT3G15020 69.863 146 44 0 2 147 99 244 1.41e-66 206

Find 41 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGGTCATTCCAGGTTTCCT+TGG 0.341674 7:-85727111 None:intergenic
CTGACAAATCGCATTCAAAA+TGG 0.343591 7:+85727668 MsG0780041035.01.T01:CDS
AATGCGATTTGTCAGGTATT+CGG 0.372408 7:-85727660 None:intergenic
AAGTCGTCCCTGGTCATTCC+AGG 0.386910 7:-85727120 None:intergenic
ATCAAGTTGACAATCGCATT+GGG 0.397138 7:-85727201 None:intergenic
TCTTCTGCAGTGAAGCTACT+AGG 0.411408 7:-85727635 None:intergenic
TTGAAGACCTCAGCAGCAAT+TGG 0.432472 7:-85727249 None:intergenic
ACTGGAACATCAACTTCTCT+TGG 0.450403 7:-85727466 None:intergenic
CACTGTGCCAATTGCTGCTG+AGG 0.465597 7:+85727242 MsG0780041035.01.T01:CDS
GCTGGTGTGCCAAGGAAACC+TGG 0.468289 7:+85727102 MsG0780041035.01.T01:CDS
GTAACTCCTAAAAGTCGCTT+TGG 0.469912 7:-85727291 None:intergenic
CTCTTGCAGGCAGAGGTACT+CGG 0.472355 7:+85727436 MsG0780041035.01.T01:intron
GGTTTCCTTGGCACACCAGC+AGG 0.501896 7:-85727099 None:intergenic
AATCGCATTGGGGCAACACT+TGG 0.507819 7:-85727190 None:intergenic
GACTTATTTAAGATAAATGC+AGG 0.520231 7:+85727138 MsG0780041035.01.T01:CDS
ATTGGCACAGTGGAATTCAC+TGG 0.525284 7:-85727231 None:intergenic
TACAAAACCTGTGATAAAAG+AGG 0.525888 7:-85727520 None:intergenic
AATCAAGTTGACAATCGCAT+TGG 0.528249 7:-85727202 None:intergenic
GAAGTTGATGTTCCAGTGGT+AGG 0.529113 7:+85727472 MsG0780041035.01.T01:CDS
GCTGAGGTCTTCAAGAAAGC+TGG 0.540699 7:+85727258 MsG0780041035.01.T01:CDS
TGCACTCACAGGCATGGACT+TGG 0.548590 7:+85727068 None:intergenic
CAAGGAAACCTGGAATGACC+AGG 0.549218 7:+85727112 MsG0780041035.01.T01:CDS
CCAGTGGTAGGAGGTCATGC+AGG 0.559555 7:+85727484 MsG0780041035.01.T01:CDS
TATCTTAAATAAGTCGTCCC+TGG 0.559911 7:-85727130 None:intergenic
TGGTGGAACAGAAGTTGTTG+AGG 0.567512 7:+85727688 MsG0780041035.01.T01:CDS
CCTGCATGACCTCCTACCAC+TGG 0.567638 7:-85727484 None:intergenic
GACTTGGTAGTTATACCTGC+TGG 0.591481 7:+85727084 MsG0780041035.01.T01:CDS
TTATACCTGCTGGTGTGCCA+AGG 0.602158 7:+85727094 MsG0780041035.01.T01:CDS
ACAAATCGCATTCAAAATGG+TGG 0.604111 7:+85727671 MsG0780041035.01.T01:CDS
AGATAAATGCAGGAATTGTG+AGG 0.613726 7:+85727148 MsG0780041035.01.T01:CDS
TACAGCCCTCGATGTTGTGA+GGG 0.615329 7:+85727311 MsG0780041035.01.T01:CDS
TTACAGCCCTCGATGTTGTG+AGG 0.618220 7:+85727310 MsG0780041035.01.T01:CDS
GTTGATGTTCCAGTGGTAGG+AGG 0.622398 7:+85727475 MsG0780041035.01.T01:CDS
ATTGTGAGGACTCTTTGTGA+AGG 0.622699 7:+85727162 MsG0780041035.01.T01:CDS
CTCAGCAGCAATTGGCACAG+TGG 0.644156 7:-85727241 None:intergenic
ATTTGCCCTCACAACATCGA+GGG 0.656414 7:-85727316 None:intergenic
AAGAGAAGTTGATGTTCCAG+TGG 0.657736 7:+85727468 MsG0780041035.01.T01:CDS
TCAAGTTGACAATCGCATTG+GGG 0.678396 7:-85727200 None:intergenic
AAGGAAACCTGGAATGACCA+GGG 0.681756 7:+85727113 MsG0780041035.01.T01:CDS
TCTGCAGTGAAGCTACTAGG+AGG 0.696329 7:-85727632 None:intergenic
TATTTGCCCTCACAACATCG+AGG 0.709081 7:-85727317 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GATGTCATAAATTTTAAGTA+AGG - Chr7:85727563-85727582 None:intergenic 20.0%
!!! TTATTTTATTTTTCTCTTGC+AGG + Chr7:85727423-85727442 MsG0780041035.01.T01:intron 20.0%
! TTAAAAACCAAGTTTGAAGA+AGG - Chr7:85727604-85727623 None:intergenic 25.0%
!! GACTTATTTAAGATAAATGC+AGG + Chr7:85727138-85727157 MsG0780041035.01.T01:CDS 25.0%
!!! TCTTCAAACTTGGTTTTTAA+AGG + Chr7:85727604-85727623 MsG0780041035.01.T01:intron 25.0%
!!! TTTTATCACAGGTTTTGTAA+AGG + Chr7:85727524-85727543 MsG0780041035.01.T01:intron 25.0%
ACTATTGTATGAGTATATGC+TGG + Chr7:85727394-85727413 MsG0780041035.01.T01:intron 30.0%
ATACTCATACAATAGTAGGA+AGG - Chr7:85727390-85727409 None:intergenic 30.0%
ATTCAATTACGAGATAGAAG+AGG - Chr7:85727365-85727384 None:intergenic 30.0%
GCATATACTCATACAATAGT+AGG - Chr7:85727394-85727413 None:intergenic 30.0%
TACAAAACCTGTGATAAAAG+AGG - Chr7:85727523-85727542 None:intergenic 30.0%
! AATATTGCCTCTTTTATCAC+AGG + Chr7:85727513-85727532 MsG0780041035.01.T01:CDS 30.0%
AATGCGATTTGTCAGGTATT+CGG - Chr7:85727663-85727682 None:intergenic 35.0%
ACAAATCGCATTCAAAATGG+TGG + Chr7:85727671-85727690 MsG0780041035.01.T01:CDS 35.0%
AGATAAATGCAGGAATTGTG+AGG + Chr7:85727148-85727167 MsG0780041035.01.T01:CDS 35.0%
CACTAAACCTTCTTCAAACT+TGG + Chr7:85727594-85727613 MsG0780041035.01.T01:intron 35.0%
CTGACAAATCGCATTCAAAA+TGG + Chr7:85727668-85727687 MsG0780041035.01.T01:CDS 35.0%
TATCTTAAATAAGTCGTCCC+TGG - Chr7:85727133-85727152 None:intergenic 35.0%
! CATTTTGAATGCGATTTGTC+AGG - Chr7:85727670-85727689 None:intergenic 35.0%
! TATGATCCAAAGCGACTTTT+AGG + Chr7:85727285-85727304 MsG0780041035.01.T01:CDS 35.0%
!! AATCAAGTTGACAATCGCAT+TGG - Chr7:85727205-85727224 None:intergenic 35.0%
!! ATCAAGTTGACAATCGCATT+GGG - Chr7:85727204-85727223 None:intergenic 35.0%
ACTGGAACATCAACTTCTCT+TGG - Chr7:85727469-85727488 None:intergenic 40.0%
ATTGTGAGGACTCTTTGTGA+AGG + Chr7:85727162-85727181 MsG0780041035.01.T01:CDS 40.0%
GTAACTCCTAAAAGTCGCTT+TGG - Chr7:85727294-85727313 None:intergenic 40.0%
! TATTTTTCTCTTGCAGGCAG+AGG + Chr7:85727429-85727448 MsG0780041035.01.T01:intron 40.0%
! TGTGAGGGCAAATACTTTTG+TGG + Chr7:85727326-85727345 MsG0780041035.01.T01:CDS 40.0%
!! AAGAGAAGTTGATGTTCCAG+TGG + Chr7:85727468-85727487 MsG0780041035.01.T01:CDS 40.0%
!! TCAAGTTGACAATCGCATTG+GGG - Chr7:85727203-85727222 None:intergenic 40.0%
AAGGAAACCTGGAATGACCA+GGG + Chr7:85727113-85727132 MsG0780041035.01.T01:CDS 45.0%
ATTGGCACAGTGGAATTCAC+TGG - Chr7:85727234-85727253 None:intergenic 45.0%
ATTTGCCCTCACAACATCGA+GGG - Chr7:85727319-85727338 None:intergenic 45.0%
TATTTGCCCTCACAACATCG+AGG - Chr7:85727320-85727339 None:intergenic 45.0%
TCTTCTGCAGTGAAGCTACT+AGG - Chr7:85727638-85727657 None:intergenic 45.0%
TGGTGGAACAGAAGTTGTTG+AGG + Chr7:85727688-85727707 MsG0780041035.01.T01:CDS 45.0%
TTGAAGACCTCAGCAGCAAT+TGG - Chr7:85727252-85727271 None:intergenic 45.0%
! GACTTGGTAGTTATACCTGC+TGG + Chr7:85727084-85727103 MsG0780041035.01.T01:CDS 45.0%
!! GAAGTTGATGTTCCAGTGGT+AGG + Chr7:85727472-85727491 MsG0780041035.01.T01:CDS 45.0%
AATCGCATTGGGGCAACACT+TGG - Chr7:85727193-85727212 None:intergenic 50.0%
CAAGGAAACCTGGAATGACC+AGG + Chr7:85727112-85727131 MsG0780041035.01.T01:CDS 50.0%
CTGGTCATTCCAGGTTTCCT+TGG - Chr7:85727114-85727133 None:intergenic 50.0%
GCTGAGGTCTTCAAGAAAGC+TGG + Chr7:85727258-85727277 MsG0780041035.01.T01:CDS 50.0%
GTTGATGTTCCAGTGGTAGG+AGG + Chr7:85727475-85727494 MsG0780041035.01.T01:CDS 50.0%
TACAGCCCTCGATGTTGTGA+GGG + Chr7:85727311-85727330 MsG0780041035.01.T01:CDS 50.0%
TCTGCAGTGAAGCTACTAGG+AGG - Chr7:85727635-85727654 None:intergenic 50.0%
TTACAGCCCTCGATGTTGTG+AGG + Chr7:85727310-85727329 MsG0780041035.01.T01:CDS 50.0%
TTATACCTGCTGGTGTGCCA+AGG + Chr7:85727094-85727113 MsG0780041035.01.T01:CDS 50.0%
AAGTCGTCCCTGGTCATTCC+AGG - Chr7:85727123-85727142 None:intergenic 55.0%
CACTGTGCCAATTGCTGCTG+AGG + Chr7:85727242-85727261 MsG0780041035.01.T01:CDS 55.0%
CTCAGCAGCAATTGGCACAG+TGG - Chr7:85727244-85727263 None:intergenic 55.0%
!! CTCTTGCAGGCAGAGGTACT+CGG + Chr7:85727436-85727455 MsG0780041035.01.T01:intron 55.0%
CCAGTGGTAGGAGGTCATGC+AGG + Chr7:85727484-85727503 MsG0780041035.01.T01:CDS 60.0%
CCTGCATGACCTCCTACCAC+TGG - Chr7:85727487-85727506 None:intergenic 60.0%
GCTGGTGTGCCAAGGAAACC+TGG + Chr7:85727102-85727121 MsG0780041035.01.T01:CDS 60.0%
GGTTTCCTTGGCACACCAGC+AGG - Chr7:85727102-85727121 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr7 gene 85727081 85727724 85727081 ID=MsG0780041035.01;Name=MsG0780041035.01
Chr7 mRNA 85727081 85727724 85727081 ID=MsG0780041035.01.T01;Parent=MsG0780041035.01;Name=MsG0780041035.01.T01;_AED=0.21;_eAED=0.23;_QI=0|0|0|1|1|0.66|3|0|151
Chr7 exon 85727081 85727347 85727081 ID=MsG0780041035.01.T01:exon:19333;Parent=MsG0780041035.01.T01
Chr7 exon 85727445 85727534 85727445 ID=MsG0780041035.01.T01:exon:19334;Parent=MsG0780041035.01.T01
Chr7 exon 85727626 85727724 85727626 ID=MsG0780041035.01.T01:exon:19335;Parent=MsG0780041035.01.T01
Chr7 CDS 85727081 85727347 85727081 ID=MsG0780041035.01.T01:cds;Parent=MsG0780041035.01.T01
Chr7 CDS 85727445 85727534 85727445 ID=MsG0780041035.01.T01:cds;Parent=MsG0780041035.01.T01
Chr7 CDS 85727626 85727724 85727626 ID=MsG0780041035.01.T01:cds;Parent=MsG0780041035.01.T01
Gene Sequence

>MsG0780041035.01.T01

ATGGACTTGGTAGTTATACCTGCTGGTGTGCCAAGGAAACCTGGAATGACCAGGGACGACTTATTTAAGATAAATGCAGGAATTGTGAGGACTCTTTGTGAAGGAATTGCCAAGTGTTGCCCCAATGCGATTGTCAACTTGATTAGCAATCCAGTGAATTCCACTGTGCCAATTGCTGCTGAGGTCTTCAAGAAAGCTGGTACATATGATCCAAAGCGACTTTTAGGAGTTACAGCCCTCGATGTTGTGAGGGCAAATACTTTTGTGGCAGAGGTACTCGGTGTTGATCCAAGAGAAGTTGATGTTCCAGTGGTAGGAGGTCATGCAGGAGTCACAATATTGCCTCTTTTATCACAGGTTAAGCCTCCTAGTAGCTTCACTGCAGAAGAAACCGAATACCTGACAAATCGCATTCAAAATGGTGGAACAGAAGTTGTTGAGGTAATGTTCATATAA

Protein sequence

>MsG0780041035.01.T01

MDLVVIPAGVPRKPGMTRDDLFKINAGIVRTLCEGIAKCCPNAIVNLISNPVNSTVPIAAEVFKKAGTYDPKRLLGVTALDVVRANTFVAEVLGVDPREVDVPVVGGHAGVTILPLLSQVKPPSSFTAEETEYLTNRIQNGGTEVVEVMFI*