AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380012540.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012540.01.T01 MTR_3g026290 87.349 166 21 0 1 166 195 360 5.30e-74 226
MsG0380012540.01.T01 MTR_3g026290 68.862 167 42 5 1 159 57 221 2.48e-46 155
MsG0380012540.01.T01 MTR_3g026290 66.871 163 50 2 1 159 103 265 6.00e-42 143
MsG0380012540.01.T01 MTR_3g026290 63.014 146 42 5 21 160 37 176 1.39e-32 119
MsG0380012540.01.T01 MTR_3g026290 55.556 126 36 4 51 159 29 151 1.37e-19 84.3
MsG0380012540.01.T01 MTR_3g026330 83.133 166 17 1 1 166 190 344 9.73e-68 209
MsG0380012540.01.T01 MTR_3g026330 66.871 163 50 2 1 159 98 260 1.29e-42 145
MsG0380012540.01.T01 MTR_3g026330 67.500 160 39 3 4 159 66 216 4.32e-42 143
MsG0380012540.01.T01 MTR_3g026330 63.194 144 40 5 21 160 37 171 9.54e-32 116
MsG0380012540.01.T01 MTR_3g026330 55.556 126 31 4 51 159 29 146 3.93e-17 77.4
MsG0380012540.01.T01 MTR_3g026230 58.738 206 43 4 1 166 49 252 2.36e-44 147
MsG0380012540.01.T01 MTR_3g026230 68.323 161 46 3 4 159 39 199 5.15e-43 143
MsG0380012540.01.T01 MTR_3g026230 59.821 112 33 5 51 159 29 131 5.21e-17 75.9
MsG0380012540.01.T01 MTR_3g026160 69.799 149 35 4 28 166 36 184 2.29e-39 132
MsG0380012540.01.T01 MTR_3g026160 64.103 117 31 4 51 159 29 142 8.13e-22 87.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012540.01.T01 AT5G09530 63.750 160 55 1 4 160 49 208 3.99e-42 144
MsG0380012540.01.T01 AT5G09530 57.692 182 52 3 1 159 117 296 1.07e-38 135
MsG0380012540.01.T01 AT5G09530 53.266 199 52 3 1 160 73 269 2.22e-37 132
MsG0380012540.01.T01 AT5G09530 63.190 163 47 3 3 159 185 340 2.63e-36 129
MsG0380012540.01.T01 AT5G09530 62.069 145 55 0 13 157 39 183 2.64e-35 126
MsG0380012540.01.T01 AT5G09530 54.945 182 57 3 1 159 150 329 2.66e-33 121
MsG0380012540.01.T01 AT5G09530 59.627 161 52 4 3 158 218 370 7.89e-32 117
MsG0380012540.01.T01 AT5G09530 64.220 109 39 0 51 159 33 141 4.18e-26 102
MsG0380012540.01.T01 AT5G09530 59.829 117 41 2 46 159 39 152 1.07e-22 92.8
MsG0380012540.01.T01 AT5G09520 53.333 105 44 1 51 155 31 130 3.12e-19 79.0
MsG0380012540.01.T01 AT5G09520 52.427 103 42 2 32 133 34 130 1.25e-16 72.4
MsG0380012540.01.T01 AT5G09520 58.974 78 27 1 82 159 40 112 2.21e-15 68.9
MsG0380012540.01.T01 AT5G09520 55.208 96 36 2 2 97 39 127 1.19e-14 67.0
MsG0380012540.01.T01 AT5G09520 50.515 97 43 1 15 111 39 130 1.65e-14 66.6

Find 53 sgRNAs with CRISPR-Local

Find 69 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTAGGTAACTCTGGTATTT+TGG 0.089603 3:-19451725 None:intergenic
CTCGGGGACTTTAGGGAGTT+TGG 0.229602 3:-19451650 None:intergenic
TTAGGTAACTCGGGGACTTT+AGG 0.244084 3:-19451658 None:intergenic
TTTGGAGTTTCTGGGACTTT+AGG 0.275111 3:-19451790 None:intergenic
TTAGGGAATTCAGGGGCTTT+AGG 0.299732 3:-19451394 None:intergenic
AGCTCGGGTTTCGGCAGTTC+AGG 0.300108 3:-19451370 None:intergenic
TTAGGTAATTCAGGAACTTT+AGG 0.308829 3:-19451592 None:intergenic
ACTTTAGGTAGCTCAGGTTT+TGG 0.309843 3:-19451775 None:intergenic
ACATCCGACTTAGGGAATTC+AGG 0.330532 3:-19451403 None:intergenic
ACCTGAACCAGGGCTATCTA+AGG 0.350632 3:+19451477 MsG0380012540.01.T01:CDS
TAGGTAACTCGGGGACTTTA+GGG 0.367520 3:-19451657 None:intergenic
AACTCAGGTTTAGGTAATTC+AGG 0.368433 3:-19451601 None:intergenic
ACGTTAAACTTAGGTAGTTC+AGG 0.370780 3:-19451346 None:intergenic
AACTTAGGTAGTTCAGGCTT+TGG 0.376104 3:-19451340 None:intergenic
TCGGGGACTTTAGGGAGTTT+GGG 0.388929 3:-19451649 None:intergenic
GCTTTAGGAAGCTCGTGTTT+TGG 0.389220 3:-19451445 None:intergenic
ACCTTAGGCTGCTCTAGTTT+AGG 0.391315 3:-19451676 None:intergenic
ACCTTAGATAGCCCTGGTTC+AGG 0.405930 3:-19451478 None:intergenic
ATCCTAGGCAACTCAGGTTT+AGG 0.411901 3:-19451610 None:intergenic
GCTTTAGGAAGCTCGGGTTT+CGG 0.416557 3:-19451379 None:intergenic
GTGGTGGTTGGAACGACTTT+TGG 0.422489 3:-19451808 None:intergenic
TTTGGAAGTTCATGAACCTT+AGG 0.426831 3:-19451427 None:intergenic
TTTGTCAATTCAGGAACCTT+AGG 0.435005 3:-19451691 None:intergenic
TCTGGGACTTTAGGTAGCTC+AGG 0.441189 3:-19451781 None:intergenic
TTCAGGGGCTTTAGGAAGCT+CGG 0.447743 3:-19451386 None:intergenic
TTTGGAAATTCAGGAACCTT+AGG 0.453696 3:-19451757 None:intergenic
CATCCGACTTAGGGAATTCA+GGG 0.455443 3:-19451402 None:intergenic
ACCTTAGGCAATTCTAGCTT+AGG 0.455532 3:-19451742 None:intergenic
CTGCTCTAGTTTAGGTAACT+CGG 0.471107 3:-19451668 None:intergenic
TGCTCTAGTTTAGGTAACTC+GGG 0.474750 3:-19451667 None:intergenic
CCCTAAGTCGGATGTTCCTA+AGG 0.483588 3:+19451411 MsG0380012540.01.T01:CDS
CCTTAGGAACATCCGACTTA+GGG 0.486371 3:-19451411 None:intergenic
ACCTTAGGAACATCCGACTT+AGG 0.501084 3:-19451412 None:intergenic
TCAGGGGCTTTAGGAAGCTC+GGG 0.506602 3:-19451385 None:intergenic
AGTTCAGGAACGTTAAACTT+AGG 0.511063 3:-19451355 None:intergenic
TCAGGAACTTTAGGCAACTC+AGG 0.512033 3:-19451583 None:intergenic
AGCCCTGGTTCAGGTAACTC+GGG 0.516644 3:-19451469 None:intergenic
ATTGTGGCTTAGGTAACTCA+TGG 0.531955 3:-19451534 None:intergenic
AATTCTAGCTTAGGTAACTC+TGG 0.533128 3:-19451733 None:intergenic
CCAACTTAAGGCGTGGTGGT+TGG 0.535712 3:-19451820 None:intergenic
TAGCCCTGGTTCAGGTAACT+CGG 0.537836 3:-19451470 None:intergenic
TCGGAAATCCTAGGCAACTC+AGG 0.539174 3:-19451616 None:intergenic
TCAGAAACCTTAGATAGCCC+TGG 0.540598 3:-19451484 None:intergenic
TACCTAAACCTGAGTTGCCT+AGG 0.549181 3:+19451608 MsG0380012540.01.T01:CDS
GCCCTGGTTCAGGTAACTCG+GGG 0.570420 3:-19451468 None:intergenic
ACCTAAGCTAGAATTGCCTA+AGG 0.583284 3:+19451741 MsG0380012540.01.T01:CDS
AGCCCCTGAATTCCCTAAGT+CGG 0.589665 3:+19451399 MsG0380012540.01.T01:CDS
CCAAGTTCCAACTTAAGGCG+TGG 0.615492 3:-19451827 None:intergenic
ACCTAAACTAGAGCAGCCTA+AGG 0.623761 3:+19451675 MsG0380012540.01.T01:CDS
GCTCTAGTTTAGGTAACTCG+GGG 0.677089 3:-19451666 None:intergenic
AGTTCCAACTTAAGGCGTGG+TGG 0.679624 3:-19451824 None:intergenic
ATCCGACTTAGGGAATTCAG+GGG 0.692397 3:-19451401 None:intergenic
CCCTGGTTCAGGTAACTCGG+GGG 0.701958 3:-19451467 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTAGGTAATTCAGGAACTTT+AGG - Chr3:19451595-19451614 None:intergenic 30.0%
! TTAGGTAACTCATGGATTTT+AGG - Chr3:19451529-19451548 None:intergenic 30.0%
! TTAGGTAACTCTGGTATTTT+GGG - Chr3:19451727-19451746 None:intergenic 30.0%
! TTTCTCAATTCAGGAGTTTT+AGG - Chr3:19451562-19451581 None:intergenic 30.0%
! TTTTTCATTTCGGAAATCCT+AGG - Chr3:19451628-19451647 None:intergenic 30.0%
!! ATTTTAGGCAATTCAGGTTT+TGG - Chr3:19451514-19451533 None:intergenic 30.0%
!!! GAGTTTGGGTTTTTTCATTT+CGG - Chr3:19451638-19451657 None:intergenic 30.0%
AACTCAGGTTTAGGTAATTC+AGG - Chr3:19451604-19451623 None:intergenic 35.0%
ACGTTAAACTTAGGTAGTTC+AGG - Chr3:19451349-19451368 None:intergenic 35.0%
AGTTCAGGAACGTTAAACTT+AGG - Chr3:19451358-19451377 None:intergenic 35.0%
TTTGGAAATTCAGGAACCTT+AGG - Chr3:19451760-19451779 None:intergenic 35.0%
TTTGGAAGTTCATGAACCTT+AGG - Chr3:19451430-19451449 None:intergenic 35.0%
TTTGTCAATTCAGGAACCTT+AGG - Chr3:19451694-19451713 None:intergenic 35.0%
! AACTCAGGTTTTCTCAATTC+AGG - Chr3:19451571-19451590 None:intergenic 35.0%
! CTTAGGTAACTCTGGTATTT+TGG - Chr3:19451728-19451747 None:intergenic 35.0%
! TCATGGATTTTAGGCAATTC+AGG - Chr3:19451520-19451539 None:intergenic 35.0%
!! AATTCTAGCTTAGGTAACTC+TGG - Chr3:19451736-19451755 None:intergenic 35.0%
AACTTAGGTAGTTCAGGCTT+TGG - Chr3:19451343-19451362 None:intergenic 40.0%
ACCTAAGCTAGAATTGCCTA+AGG + Chr3:19451741-19451760 MsG0380012540.01.T01:CDS 40.0%
ATTGTGGCTTAGGTAACTCA+TGG - Chr3:19451537-19451556 None:intergenic 40.0%
! ACTTTAGGTAGCTCAGGTTT+TGG - Chr3:19451778-19451797 None:intergenic 40.0%
! CTGCTCTAGTTTAGGTAACT+CGG - Chr3:19451671-19451690 None:intergenic 40.0%
! TGCTCTAGTTTAGGTAACTC+GGG - Chr3:19451670-19451689 None:intergenic 40.0%
!! ACCTTAGGCAATTCTAGCTT+AGG - Chr3:19451745-19451764 None:intergenic 40.0%
!! ATCTCGGGTTTTGTCAATTC+AGG - Chr3:19451703-19451722 None:intergenic 40.0%
!! CTCTGGTATTTTGGGAATCT+CGG - Chr3:19451719-19451738 None:intergenic 40.0%
!! GTTTTAGGCAATTGTGGCTT+AGG - Chr3:19451547-19451566 None:intergenic 40.0%
!! TCTGGTATTTTGGGAATCTC+GGG - Chr3:19451718-19451737 None:intergenic 40.0%
!! TTTGGAGTTTCTGGGACTTT+AGG - Chr3:19451793-19451812 None:intergenic 40.0%
!!! AGCTCAGGTTTTGGAAATTC+AGG - Chr3:19451769-19451788 None:intergenic 40.0%
!!! GAACGACTTTTGGAGTTTCT+GGG - Chr3:19451801-19451820 None:intergenic 40.0%
!!! TCAGGAGTTTTAGGCAATTG+TGG - Chr3:19451553-19451572 None:intergenic 40.0%
ACATCCGACTTAGGGAATTC+AGG - Chr3:19451406-19451425 None:intergenic 45.0%
ACCTAAACTAGAGCAGCCTA+AGG + Chr3:19451675-19451694 MsG0380012540.01.T01:CDS 45.0%
ACCTTAGGAACATCCGACTT+AGG - Chr3:19451415-19451434 None:intergenic 45.0%
ATCCGACTTAGGGAATTCAG+GGG - Chr3:19451404-19451423 None:intergenic 45.0%
ATCCTAGGCAACTCAGGTTT+AGG - Chr3:19451613-19451632 None:intergenic 45.0%
CATCCGACTTAGGGAATTCA+GGG - Chr3:19451405-19451424 None:intergenic 45.0%
CCTTAGGAACATCCGACTTA+GGG - Chr3:19451414-19451433 None:intergenic 45.0%
TACCTAAACCTGAGTTGCCT+AGG + Chr3:19451608-19451627 MsG0380012540.01.T01:CDS 45.0%
TAGGTAACTCGGGGACTTTA+GGG - Chr3:19451660-19451679 None:intergenic 45.0%
TCAGAAACCTTAGATAGCCC+TGG - Chr3:19451487-19451506 None:intergenic 45.0%
TCAGGAACTTTAGGCAACTC+AGG - Chr3:19451586-19451605 None:intergenic 45.0%
TTAGGGAATTCAGGGGCTTT+AGG - Chr3:19451397-19451416 None:intergenic 45.0%
TTAGGTAACTCGGGGACTTT+AGG - Chr3:19451661-19451680 None:intergenic 45.0%
! ACCTTAGGCTGCTCTAGTTT+AGG - Chr3:19451679-19451698 None:intergenic 45.0%
! GCTCTAGTTTAGGTAACTCG+GGG - Chr3:19451669-19451688 None:intergenic 45.0%
!!! GCTTTAGGAAGCTCGTGTTT+TGG - Chr3:19451448-19451467 None:intergenic 45.0%
!!! GGAACGACTTTTGGAGTTTC+TGG - Chr3:19451802-19451821 None:intergenic 45.0%
ACCTGAACCAGGGCTATCTA+AGG + Chr3:19451477-19451496 MsG0380012540.01.T01:CDS 50.0%
ACCTTAGATAGCCCTGGTTC+AGG - Chr3:19451481-19451500 None:intergenic 50.0%
AGCCCCTGAATTCCCTAAGT+CGG + Chr3:19451399-19451418 MsG0380012540.01.T01:CDS 50.0%
CCCTAAGTCGGATGTTCCTA+AGG + Chr3:19451411-19451430 MsG0380012540.01.T01:CDS 50.0%
TAGCCCTGGTTCAGGTAACT+CGG - Chr3:19451473-19451492 None:intergenic 50.0%
TCGGAAATCCTAGGCAACTC+AGG - Chr3:19451619-19451638 None:intergenic 50.0%
! GTGGTGGTTGGAACGACTTT+TGG - Chr3:19451811-19451830 None:intergenic 50.0%
! TCGGGGACTTTAGGGAGTTT+GGG - Chr3:19451652-19451671 None:intergenic 50.0%
! TCTGGGACTTTAGGTAGCTC+AGG - Chr3:19451784-19451803 None:intergenic 50.0%
!! GCTTTAGGAAGCTCGGGTTT+CGG - Chr3:19451382-19451401 None:intergenic 50.0%
!! TTCAGGGGCTTTAGGAAGCT+CGG - Chr3:19451389-19451408 None:intergenic 50.0%
AGCCCTGGTTCAGGTAACTC+GGG - Chr3:19451472-19451491 None:intergenic 55.0%
TCAGGTAACTCGGGGGCTTT+AGG - Chr3:19451463-19451482 None:intergenic 55.0%
! CTCGGGGACTTTAGGGAGTT+TGG - Chr3:19451653-19451672 None:intergenic 55.0%
!! TCAGGGGCTTTAGGAAGCTC+GGG - Chr3:19451388-19451407 None:intergenic 55.0%
AGCTCGGGTTTCGGCAGTTC+AGG - Chr3:19451373-19451392 None:intergenic 60.0%
CCCCCGAGTTACCTGAACCA+GGG + Chr3:19451467-19451486 MsG0380012540.01.T01:CDS 60.0%
CCCTGGTTCAGGTAACTCGG+GGG - Chr3:19451470-19451489 None:intergenic 60.0%
GCCCTGGTTCAGGTAACTCG+GGG - Chr3:19451471-19451490 None:intergenic 60.0%
GCCCCCGAGTTACCTGAACC+AGG + Chr3:19451466-19451485 MsG0380012540.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr3 gene 19451337 19451837 19451337 ID=MsG0380012540.01;Name=MsG0380012540.01
Chr3 mRNA 19451337 19451837 19451337 ID=MsG0380012540.01.T01;Parent=MsG0380012540.01;Name=MsG0380012540.01.T01;_AED=0.38;_eAED=0.38;_QI=0|-1|0|1|-1|1|1|0|166
Chr3 exon 19451337 19451837 19451337 ID=MsG0380012540.01.T01:exon:3894;Parent=MsG0380012540.01.T01
Chr3 CDS 19451337 19451837 19451337 ID=MsG0380012540.01.T01:cds;Parent=MsG0380012540.01.T01
Gene Sequence

>MsG0380012540.01.T01

ATGCCAAAGCCTGAACTACCTAAGTTTAACGTTCCTGAACTGCCGAAACCCGAGCTTCCTAAAGCCCCTGAATTCCCTAAGTCGGATGTTCCTAAGGTTCATGAACTTCCAAAACACGAGCTTCCTAAAGCCCCCGAGTTACCTGAACCAGGGCTATCTAAGGTTTCTGAATTGCCAAAACCTGAATTGCCTAAAATCCATGAGTTACCTAAGCCACAATTGCCTAAAACTCCTGAATTGAGAAAACCTGAGTTGCCTAAAGTTCCTGAATTACCTAAACCTGAGTTGCCTAGGATTTCCGAAATGAAAAAACCCAAACTCCCTAAAGTCCCCGAGTTACCTAAACTAGAGCAGCCTAAGGTTCCTGAATTGACAAAACCCGAGATTCCCAAAATACCAGAGTTACCTAAGCTAGAATTGCCTAAGGTTCCTGAATTTCCAAAACCTGAGCTACCTAAAGTCCCAGAAACTCCAAAAGTCGTTCCAACCACCACGCCTTAA

Protein sequence

>MsG0380012540.01.T01

MPKPELPKFNVPELPKPELPKAPEFPKSDVPKVHELPKHELPKAPELPEPGLSKVSELPKPELPKIHELPKPQLPKTPELRKPELPKVPELPKPELPRISEMKKPKLPKVPELPKLEQPKVPELTKPEIPKIPELPKLELPKVPEFPKPELPKVPETPKVVPTTTP*