AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380013966.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013966.01.T01 MTR_3g035600 89.302 215 20 2 1 214 770 982 6.16e-125 387
MsG0380013966.01.T01 MTR_3g035600 43.353 173 92 6 7 178 55 222 2.61e-32 125
MsG0380013966.01.T01 MTR_0002s0580 74.611 193 44 3 41 230 745 935 8.73e-82 267
MsG0380013966.01.T01 MTR_0002s0580 43.182 176 94 6 4 178 28 198 1.18e-31 123
MsG0380013966.01.T01 MTR_4g051390 98.701 77 1 0 184 260 46 122 4.71e-48 155
MsG0380013966.01.T01 MTR_1779s0020 88.312 77 9 0 184 260 46 122 3.43e-43 143
MsG0380013966.01.T01 MTR_2g087550 85.714 77 11 0 184 260 46 122 3.83e-39 135
MsG0380013966.01.T01 MTR_0002s0780 78.947 76 16 0 185 260 175 250 6.64e-35 125
MsG0380013966.01.T01 MTR_4g051177 43.353 173 92 6 7 178 39 206 2.59e-33 127
MsG0380013966.01.T01 MTR_4g116740 85.714 35 5 0 203 237 65 99 3.50e-13 65.5
MsG0380013966.01.T01 MTR_5g043610 38.889 72 43 1 42 113 13 83 2.28e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013966.01.T01 ATCG00340 86.512 215 26 2 1 214 1 213 7.60e-128 379
MsG0380013966.01.T01 ATCG00780 84.416 77 12 0 184 260 46 122 1.42e-41 139
MsG0380013966.01.T01 ATCG00350 42.775 173 93 6 7 178 31 198 9.83e-32 123

Find 62 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACCATTTGTCAGGACTATT+TGG 0.154845 3:-48529485 MsG0380013966.01.T01:CDS
GACCTATTGCTCATGCAATT+TGG 0.210794 3:-48529760 MsG0380013966.01.T01:CDS
GATCTTTCTAAAGATGAATT+TGG 0.231628 3:+48529458 None:intergenic
GCAATTTGGGATCCCCATTT+TGG 0.237526 3:-48529746 MsG0380013966.01.T01:CDS
CTACAGCCGGTTGACCAAAA+TGG 0.293427 3:+48529732 None:intergenic
ACCCCACTACTCGTCGTATT+TGG 0.302548 3:-48529970 MsG0380013966.01.T01:CDS
ACCTATTGCTCATGCAATTT+GGG 0.309464 3:-48529759 MsG0380013966.01.T01:CDS
TCGGTTTCCATTTCGGTTGT+AGG 0.314705 3:+48529546 None:intergenic
GAAACGCTCGGTTTCCATTT+CGG 0.344246 3:+48529539 None:intergenic
TACAGCCGGTTGACCAAAAT+GGG 0.365281 3:+48529733 None:intergenic
ACTAATGAAGATCTTTATAC+TGG 0.406905 3:-48529623 MsG0380013966.01.T01:CDS
CCAGTGAATATTGCCTATTC+CGG 0.407692 3:-48529680 MsG0380013966.01.T01:CDS
TAGAAAGATCTGAAGTGATC+AGG 0.408019 3:-48529445 MsG0380013966.01.T01:CDS
AATTTAACTGTCTCAATTCT+CGG 0.413515 3:+48529291 None:intergenic
CCACTGATAAACACCGGAAT+AGG 0.421078 3:+48529667 None:intergenic
ATGGTGATTGAGGCGGGATT+CGG 0.432997 3:+48529502 None:intergenic
ACTACTCGTCGTATTTGGTT+TGG 0.435182 3:-48529965 MsG0380013966.01.T01:CDS
GGTTACACCTACAACCGAAA+TGG 0.445234 3:-48529553 MsG0380013966.01.T01:CDS
CGCCTCAATCACCATTTGTC+AGG 0.446515 3:-48529494 MsG0380013966.01.T01:CDS
AATGGAAACCGAGCGTTTCG+TGG 0.459711 3:-48529535 MsG0380013966.01.T01:CDS
GTGTAACCAGCCCGCTAGTA+AGG 0.460249 3:+48529568 None:intergenic
ATTTAACTGTCTCAATTCTC+GGG 0.470566 3:+48529292 None:intergenic
TCCCAAATTGCATGAGCAAT+AGG 0.475816 3:+48529758 None:intergenic
CCGGAATAGGCAATATTCAC+TGG 0.475933 3:+48529680 None:intergenic
TATCAGTGGTGGTATACAAT+CGG 0.482304 3:-48529653 MsG0380013966.01.T01:CDS
AGCTACATGAAAGAGATTCC+CGG 0.495065 3:+48529829 None:intergenic
CTCCAAATAGTCCTGACAAA+TGG 0.498337 3:+48529483 None:intergenic
GGAATCTCTTTCATGTAGCT+TGG 0.499094 3:-48529826 MsG0380013966.01.T01:CDS
GCAATAGGTCTTACATGTAA+AGG 0.501093 3:+48529773 None:intergenic
CTCTTTCATGTAGCTTGGCA+AGG 0.515625 3:-48529821 MsG0380013966.01.T01:CDS
ATCTCGTATTATAATACCTC+GGG 0.516039 3:+48529245 None:intergenic
CGAGTAAAAGCTTCTACAGC+CGG 0.531988 3:+48529719 None:intergenic
TGACAAATGGTGATTGAGGC+GGG 0.533630 3:+48529496 None:intergenic
GATAAAGAAGGAAATCCAAA+AGG 0.534245 3:-48529338 MsG0380013966.01.T01:CDS
AACCAAATACGACGAGTAGT+GGG 0.542896 3:+48529968 None:intergenic
GTTTAGCCAAGGCTTAGCTC+AGG 0.546371 3:-48529993 MsG0380013966.01.T01:CDS
TCTCAATTCTCGGGCTATTG+CGG 0.549036 3:+48529301 None:intergenic
AGAAAGATCTGAAGTGATCA+GGG 0.551046 3:-48529444 MsG0380013966.01.T01:CDS
CCTATTCCGGTGTTTATCAG+TGG 0.553133 3:-48529667 MsG0380013966.01.T01:CDS
AAACCAAATACGACGAGTAG+TGG 0.553366 3:+48529967 None:intergenic
TCATATCCTTACTAGCGGGC+TGG 0.557424 3:-48529574 MsG0380013966.01.T01:CDS
TTCTGTCATATCCTTACTAG+CGG 0.558343 3:-48529579 MsG0380013966.01.T01:CDS
TGGGGTCCTGAGCTAAGCCT+TGG 0.558498 3:+48529987 None:intergenic
GCTAAGCCTTGGCTAAACCT+TGG 0.564991 3:+48529998 None:intergenic
TCTGTCATATCCTTACTAGC+GGG 0.565736 3:-48529578 MsG0380013966.01.T01:CDS
GCGGTTCTCATTGATAAAGA+AGG 0.571105 3:-48529350 MsG0380013966.01.T01:CDS
GTCCTGACAAATGGTGATTG+AGG 0.576587 3:+48529492 None:intergenic
CGGAATAGGCAATATTCACT+GGG 0.581389 3:+48529681 None:intergenic
ATTCCGGTGTTTATCAGTGG+TGG 0.584734 3:-48529664 MsG0380013966.01.T01:CDS
AAAGAACTAAAACGTAGTAA+TGG 0.588124 3:-48529401 MsG0380013966.01.T01:CDS
AGATTTCCAAGGTTTAGCCA+AGG 0.593899 3:-48530004 MsG0380013966.01.T01:CDS
TTATGGCATTAAGATTTCCA+AGG 0.595221 3:-48530015 MsG0380013966.01.T01:CDS
AATAGTTTCATTAGCACCCG+AGG 0.609986 3:-48529261 MsG0380013966.01.T01:CDS
CTGACAAATGGTGATTGAGG+CGG 0.618206 3:+48529495 None:intergenic
ACCAAATACGACGAGTAGTG+GGG 0.643391 3:+48529969 None:intergenic
GATCTCGTATTATAATACCT+CGG 0.645272 3:+48529244 None:intergenic
AATAAAGTATGATGATAATG+CGG 0.648055 3:-48529372 MsG0380013966.01.T01:CDS
AAAGTATGATGATAATGCGG+CGG 0.676057 3:-48529369 MsG0380013966.01.T01:CDS
ATACCACCACTGATAAACAC+CGG 0.693633 3:+48529661 None:intergenic
ATGACTTTCGAAGTCATGTG+CGG 0.710764 3:+48529934 None:intergenic
AAGTCATGATGATATTACTG+AGG 0.722651 3:-48529918 MsG0380013966.01.T01:CDS
ACAGCCGGTTGACCAAAATG+GGG 0.742556 3:+48529734 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATAAAGTATGATGATAATG+CGG - Chr3:48529894-48529913 MsG0380013966.01.T01:CDS 20.0%
!!! AATATTTTTGCTTCTCATTT+CGG - Chr3:48529385-48529404 MsG0380013966.01.T01:CDS 20.0%
!!! AATTAGCAATAATTTTTCTG+TGG - Chr3:48529410-48529429 MsG0380013966.01.T01:CDS 20.0%
! AAAGAACTAAAACGTAGTAA+TGG - Chr3:48529865-48529884 MsG0380013966.01.T01:CDS 25.0%
! AATTTAACTGTCTCAATTCT+CGG + Chr3:48529978-48529997 None:intergenic 25.0%
! ACTAATGAAGATCTTTATAC+TGG - Chr3:48529643-48529662 MsG0380013966.01.T01:CDS 25.0%
!! GATCTTTCTAAAGATGAATT+TGG + Chr3:48529811-48529830 None:intergenic 25.0%
AAGTCATGATGATATTACTG+AGG - Chr3:48529348-48529367 MsG0380013966.01.T01:CDS 30.0%
ATTTAACTGTCTCAATTCTC+GGG + Chr3:48529977-48529996 None:intergenic 30.0%
GATAAAGAAGGAAATCCAAA+AGG - Chr3:48529928-48529947 MsG0380013966.01.T01:CDS 30.0%
! ATAATTTTTCTGTGGACTTC+CGG - Chr3:48529418-48529437 MsG0380013966.01.T01:CDS 30.0%
!! GAAAAAATTCGAGTTCCTTT+TGG + Chr3:48529946-48529965 None:intergenic 30.0%
ACCTATTGCTCATGCAATTT+GGG - Chr3:48529507-48529526 MsG0380013966.01.T01:CDS 35.0%
GCAATAGGTCTTACATGTAA+AGG + Chr3:48529496-48529515 None:intergenic 35.0%
TATCAGTGGTGGTATACAAT+CGG - Chr3:48529613-48529632 MsG0380013966.01.T01:CDS 35.0%
TTCTGTCATATCCTTACTAG+CGG - Chr3:48529687-48529706 MsG0380013966.01.T01:CDS 35.0%
! AAAGTATGATGATAATGCGG+CGG - Chr3:48529897-48529916 MsG0380013966.01.T01:CDS 35.0%
! AGAAAGATCTGAAGTGATCA+GGG - Chr3:48529822-48529841 MsG0380013966.01.T01:CDS 35.0%
! TAATTTTTCTGTGGACTTCC+GGG - Chr3:48529419-48529438 MsG0380013966.01.T01:CDS 35.0%
! TAGAAAGATCTGAAGTGATC+AGG - Chr3:48529821-48529840 MsG0380013966.01.T01:CDS 35.0%
! TTTTTAAACCACGAAACGCT+CGG + Chr3:48529742-48529761 None:intergenic 35.0%
AAACCAAATACGACGAGTAG+TGG + Chr3:48529302-48529321 None:intergenic 40.0%
AACCAAATACGACGAGTAGT+GGG + Chr3:48529301-48529320 None:intergenic 40.0%
AATAGTTTCATTAGCACCCG+AGG - Chr3:48530005-48530024 MsG0380013966.01.T01:CDS 40.0%
ACTACTCGTCGTATTTGGTT+TGG - Chr3:48529301-48529320 MsG0380013966.01.T01:CDS 40.0%
AGATTTCCAAGGTTTAGCCA+AGG - Chr3:48529262-48529281 MsG0380013966.01.T01:CDS 40.0%
AGCTACATGAAAGAGATTCC+CGG + Chr3:48529440-48529459 None:intergenic 40.0%
ATACCACCACTGATAAACAC+CGG + Chr3:48529608-48529627 None:intergenic 40.0%
ATGACTTTCGAAGTCATGTG+CGG + Chr3:48529335-48529354 None:intergenic 40.0%
CACCATTTGTCAGGACTATT+TGG - Chr3:48529781-48529800 MsG0380013966.01.T01:CDS 40.0%
CCAGTGAATATTGCCTATTC+CGG - Chr3:48529586-48529605 MsG0380013966.01.T01:CDS 40.0%
CGGAATAGGCAATATTCACT+GGG + Chr3:48529588-48529607 None:intergenic 40.0%
CTCCAAATAGTCCTGACAAA+TGG + Chr3:48529786-48529805 None:intergenic 40.0%
GACCTATTGCTCATGCAATT+TGG - Chr3:48529506-48529525 MsG0380013966.01.T01:CDS 40.0%
GCGGTTCTCATTGATAAAGA+AGG - Chr3:48529916-48529935 MsG0380013966.01.T01:CDS 40.0%
GGAATCTCTTTCATGTAGCT+TGG - Chr3:48529440-48529459 MsG0380013966.01.T01:CDS 40.0%
TCCCAAATTGCATGAGCAAT+AGG + Chr3:48529511-48529530 None:intergenic 40.0%
TCTGTCATATCCTTACTAGC+GGG - Chr3:48529688-48529707 MsG0380013966.01.T01:CDS 40.0%
! AGCTTGGCAAGGAAATTTTG+AGG - Chr3:48529456-48529475 MsG0380013966.01.T01:CDS 40.0%
! CTGTAGAAGCTTTTACTCGA+GGG - Chr3:48529551-48529570 MsG0380013966.01.T01:CDS 40.0%
! TGTAGAAGCTTTTACTCGAG+GGG - Chr3:48529552-48529571 MsG0380013966.01.T01:CDS 40.0%
!!! GCAAGGAAATTTTGAGGCAT+GGG - Chr3:48529462-48529481 MsG0380013966.01.T01:CDS 40.0%
ACCAAATACGACGAGTAGTG+GGG + Chr3:48529300-48529319 None:intergenic 45.0%
ATTCCGGTGTTTATCAGTGG+TGG - Chr3:48529602-48529621 MsG0380013966.01.T01:CDS 45.0%
CCACTGATAAACACCGGAAT+AGG + Chr3:48529602-48529621 None:intergenic 45.0%
CCGGAATAGGCAATATTCAC+TGG + Chr3:48529589-48529608 None:intergenic 45.0%
CCTATTCCGGTGTTTATCAG+TGG - Chr3:48529599-48529618 MsG0380013966.01.T01:CDS 45.0%
CGAGTAAAAGCTTCTACAGC+CGG + Chr3:48529550-48529569 None:intergenic 45.0%
CTCTTTCATGTAGCTTGGCA+AGG - Chr3:48529445-48529464 MsG0380013966.01.T01:CDS 45.0%
CTGACAAATGGTGATTGAGG+CGG + Chr3:48529774-48529793 None:intergenic 45.0%
GAAACGCTCGGTTTCCATTT+CGG + Chr3:48529730-48529749 None:intergenic 45.0%
GGTTACACCTACAACCGAAA+TGG - Chr3:48529713-48529732 MsG0380013966.01.T01:CDS 45.0%
GTCCTGACAAATGGTGATTG+AGG + Chr3:48529777-48529796 None:intergenic 45.0%
TACAGCCGGTTGACCAAAAT+GGG + Chr3:48529536-48529555 None:intergenic 45.0%
TCGGTTTCCATTTCGGTTGT+AGG + Chr3:48529723-48529742 None:intergenic 45.0%
TCTCAATTCTCGGGCTATTG+CGG + Chr3:48529968-48529987 None:intergenic 45.0%
TGACAAATGGTGATTGAGGC+GGG + Chr3:48529773-48529792 None:intergenic 45.0%
! GCTGTAGAAGCTTTTACTCG+AGG - Chr3:48529550-48529569 MsG0380013966.01.T01:CDS 45.0%
! GTAGAAGCTTTTACTCGAGG+GGG - Chr3:48529553-48529572 MsG0380013966.01.T01:CDS 45.0%
!! GCAATTTGGGATCCCCATTT+TGG - Chr3:48529520-48529539 MsG0380013966.01.T01:CDS 45.0%
!!! GGCAAGGAAATTTTGAGGCA+TGG - Chr3:48529461-48529480 MsG0380013966.01.T01:CDS 45.0%
AATGGAAACCGAGCGTTTCG+TGG - Chr3:48529731-48529750 MsG0380013966.01.T01:CDS 50.0%
ACAGCCGGTTGACCAAAATG+GGG + Chr3:48529535-48529554 None:intergenic 50.0%
ACCCCACTACTCGTCGTATT+TGG - Chr3:48529296-48529315 MsG0380013966.01.T01:CDS 50.0%
ATGGTGATTGAGGCGGGATT+CGG + Chr3:48529767-48529786 None:intergenic 50.0%
CGCCTCAATCACCATTTGTC+AGG - Chr3:48529772-48529791 MsG0380013966.01.T01:CDS 50.0%
CTACAGCCGGTTGACCAAAA+TGG + Chr3:48529537-48529556 None:intergenic 50.0%
GCTAAGCCTTGGCTAAACCT+TGG + Chr3:48529271-48529290 None:intergenic 50.0%
GTTTAGCCAAGGCTTAGCTC+AGG - Chr3:48529273-48529292 MsG0380013966.01.T01:CDS 50.0%
! TCATATCCTTACTAGCGGGC+TGG - Chr3:48529692-48529711 MsG0380013966.01.T01:CDS 50.0%
!! GGATCCCCATTTTGGTCAAC+CGG - Chr3:48529528-48529547 MsG0380013966.01.T01:CDS 50.0%
GTGTAACCAGCCCGCTAGTA+AGG + Chr3:48529701-48529720 None:intergenic 55.0%
!! TTTACTCGAGGGGGTGCTCT+TGG - Chr3:48529562-48529581 MsG0380013966.01.T01:CDS 55.0%
TGGGGTCCTGAGCTAAGCCT+TGG + Chr3:48529282-48529301 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 48529253 48530035 48529253 ID=MsG0380013966.01;Name=MsG0380013966.01
Chr3 mRNA 48529253 48530035 48529253 ID=MsG0380013966.01.T01;Parent=MsG0380013966.01;Name=MsG0380013966.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|260
Chr3 exon 48529253 48530035 48529253 ID=MsG0380013966.01.T01:exon:9209;Parent=MsG0380013966.01.T01
Chr3 CDS 48529253 48530035 48529253 ID=MsG0380013966.01.T01:cds;Parent=MsG0380013966.01.T01
Gene Sequence

>MsG0380013966.01.T01

ATGGCATTAAGATTTCCAAGGTTTAGCCAAGGCTTAGCTCAGGACCCCACTACTCGTCGTATTTGGTTTGGTATTGCTACCGCACATGACTTCGAAAGTCATGATGATATTACTGAGGAACGTCTTTATCAGAATATTTTTGCTTCTCATTTCGGACAATTAGCAATAATTTTTCTGTGGACTTCCGGGAATCTCTTTCATGTAGCTTGGCAAGGAAATTTTGAGGCATGGGTACAAGATCCTTTACATGTAAGACCTATTGCTCATGCAATTTGGGATCCCCATTTTGGTCAACCGGCTGTAGAAGCTTTTACTCGAGGGGGTGCTCTTGGCCCAGTGAATATTGCCTATTCCGGTGTTTATCAGTGGTGGTATACAATCGGTTTACGTACTAATGAAGATCTTTATACTGGAGCTCTTTTTCTATTATTTCTTTCTGTCATATCCTTACTAGCGGGCTGGTTACACCTACAACCGAAATGGAAACCGAGCGTTTCGTGGTTTAAAAATGCCGAATCCCGCCTCAATCACCATTTGTCAGGACTATTTGGAGTACCAAATTCATCTTTAGAAAGATCTGAAGTGATCAGGGCTGTAATTGTACGTACTTGTAAAGAACTAAAACGTAGTAATGGTATAATAATAAAGTATGATGATAATGCGGCGGTTCTCATTGATAAAGAAGGAAATCCAAAAGGAACTCGAATTTTTTCCGCAATAGCCCGAGAATTGAGACAGTTAAATTTCACTAAAATAGTTTCATTAGCACCCGAGGTATTATAA

Protein sequence

>MsG0380013966.01.T01

MALRFPRFSQGLAQDPTTRRIWFGIATAHDFESHDDITEERLYQNIFASHFGQLAIIFLWTSGNLFHVAWQGNFEAWVQDPLHVRPIAHAIWDPHFGQPAVEAFTRGGALGPVNIAYSGVYQWWYTIGLRTNEDLYTGALFLLFLSVISLLAGWLHLQPKWKPSVSWFKNAESRLNHHLSGLFGVPNSSLERSEVIRAVIVRTCKELKRSNGIIIKYDDNAAVLIDKEGNPKGTRIFSAIARELRQLNFTKIVSLAPEVL*