AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780038606.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038606.01.T01 MTR_7g058550 55.906 127 23 2 1 98 347 469 2.48e-35 130
MsG0780038606.01.T01 MTR_7g058550 47.015 134 37 3 60 166 667 793 1.03e-26 105
MsG0780038606.01.T01 MTR_7g058550 100.000 33 0 0 74 106 558 590 3.35e-16 75.5
MsG0780038606.01.T01 MTR_7g058530 46.269 134 38 3 60 166 668 794 1.15e-26 105
MsG0780038606.01.T01 MTR_7g058530 41.667 120 37 2 3 93 350 465 3.68e-21 89.7
MsG0780038606.01.T01 MTR_7g058530 100.000 33 0 0 74 106 559 591 2.87e-16 75.5
MsG0780038606.01.T01 MTR_7g058830 38.393 112 36 2 5 87 352 459 5.39e-17 77.8
MsG0780038606.01.T01 MTR_7g058830 96.970 33 1 0 74 106 559 591 1.27e-15 73.9
MsG0780038606.01.T01 MTR_7g053050 41.053 95 27 1 5 70 351 445 7.46e-16 74.3
MsG0780038606.01.T01 MTR_7g053050 93.939 33 2 0 74 106 558 590 3.04e-15 72.8
MsG0780038606.01.T01 MTR_3g031500 84.211 38 6 0 69 106 467 504 5.15e-15 72.0
MsG0780038606.01.T01 MTR_3g031580 93.939 33 2 0 74 106 551 583 7.13e-15 71.6
MsG0780038606.01.T01 MTR_3g031490 90.909 33 3 0 74 106 556 588 2.39e-14 70.1
MsG0780038606.01.T01 MTR_3g031470 90.909 33 3 0 74 106 572 604 4.00e-14 69.3
MsG0780038606.01.T01 MTR_3g102450 84.375 32 5 0 75 106 97 128 7.86e-14 68.2
MsG0780038606.01.T01 MTR_3g031510 84.848 33 5 0 74 106 113 145 1.28e-13 67.8
MsG0780038606.01.T01 MTR_3g031480 90.909 33 3 0 74 106 567 599 1.49e-13 67.8
MsG0780038606.01.T01 MTR_3g031600 84.848 33 5 0 74 106 561 593 2.00e-13 67.4
MsG0780038606.01.T01 MTR_3g031610 84.848 33 5 0 74 106 558 590 2.14e-13 67.4
MsG0780038606.01.T01 MTR_4g094858 87.500 32 4 0 74 105 558 589 3.12e-13 67.0
MsG0780038606.01.T01 MTR_7g058860 84.848 33 5 0 74 106 558 590 5.13e-13 66.2
MsG0780038606.01.T01 MTR_3g030840 81.250 32 6 0 75 106 40 71 3.39e-12 60.5
MsG0780038606.01.T01 MTR_3g102400 81.250 32 6 0 75 106 568 599 5.88e-12 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 33 sgRNAs with CRISPR-Local

Find 102 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGAGGCAGTAACATTTAT+TGG 0.200573 7:-49711410 MsG0780038606.01.T01:intron
ACAGGTTTCAAAATTGTAAA+TGG 0.227613 7:-49711476 MsG0780038606.01.T01:CDS
CTTAGAAGATTGTAATTGTA+AGG 0.352286 7:-49712485 MsG0780038606.01.T01:CDS
TTAGAGAAGTTATTACCTTT+AGG 0.356668 7:+49712353 None:intergenic
CTAGCTGAAGTAGGAATCAT+TGG 0.398282 7:-49711953 MsG0780038606.01.T01:intron
GTGATGGGAGGTTGGTTACA+TGG 0.430138 7:-49711442 MsG0780038606.01.T01:CDS
AGAGGAAAGTGATGGGAGGT+TGG 0.454476 7:-49711450 MsG0780038606.01.T01:CDS
CGAGGGAAAATATAGACTAT+TGG 0.465086 7:-49711885 MsG0780038606.01.T01:CDS
CAAGAACTATAGTTACTCAT+AGG 0.473525 7:+49712520 None:intergenic
GTTTATGAGTACATGGAAAA+CGG 0.474442 7:-49711863 MsG0780038606.01.T01:intron
CATGAATTTGATTGAAATGT+GGG 0.487234 7:-49711918 MsG0780038606.01.T01:CDS
CAAAATTGTAAATGGAGAAG+AGG 0.519170 7:-49711468 MsG0780038606.01.T01:CDS
TGATGGGAGGTTGGTTACAT+GGG 0.524398 7:-49711441 MsG0780038606.01.T01:CDS
ATGGAGAAGAGGAAAGTGAT+GGG 0.533003 7:-49711457 MsG0780038606.01.T01:CDS
ACTATTGGTTTATGAGTACA+TGG 0.533050 7:-49711870 MsG0780038606.01.T01:CDS
AATGGAGAAGAGGAAAGTGA+TGG 0.537007 7:-49711458 MsG0780038606.01.T01:CDS
ACAAGACAAACATGGTCACT+TGG 0.562803 7:+49712314 None:intergenic
ACATGAATTTGATTGAAATG+TGG 0.563052 7:-49711919 MsG0780038606.01.T01:CDS
CATCTCAACTACTTTACTCA+TGG 0.564707 7:+49711275 None:intergenic
ACAAACATGGTCACTTGGAG+TGG 0.566207 7:+49712319 None:intergenic
ATCACTAAACATCACTTCCA+TGG 0.590200 7:+49711244 None:intergenic
ACCTACTTGAGATTGCCTAA+AGG 0.591016 7:-49712368 MsG0780038606.01.T01:CDS
ACCTTTAGGCAATCTCAAGT+AGG 0.591777 7:+49712367 None:intergenic
CTGAAGTAGGAATCATTGGA+AGG 0.604753 7:-49711949 MsG0780038606.01.T01:intron
AGTTGCTTTAGATTGTGTTG+TGG 0.624067 7:-49711319 MsG0780038606.01.T01:intron
GTTGAGATGCTTCAATACCA+TGG 0.625645 7:-49711261 MsG0780038606.01.T01:CDS
TTGTGGATGAAAGAGATTCA+AGG 0.625791 7:-49711302 MsG0780038606.01.T01:CDS
GAGAAGAGGAAAGTGATGGG+AGG 0.625993 7:-49711454 MsG0780038606.01.T01:CDS
GAAGTTTCACAAGACAAACA+TGG 0.628455 7:+49712306 None:intergenic
TCAACTACTTTACTCATGGT+AGG 0.647578 7:+49711279 None:intergenic
ATGAATTTGATTGAAATGTG+GGG 0.666306 7:-49711917 MsG0780038606.01.T01:CDS
ATGTGGGGATATTGTGCCGA+GGG 0.678196 7:-49711902 MsG0780038606.01.T01:CDS
AATGTGGGGATATTGTGCCG+AGG 0.770919 7:-49711903 MsG0780038606.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTATGATAGAAGTAAAA+TGG - Chr7:49712455-49712474 MsG0780038606.01.T01:intron 15.0%
!! ATAGAAAAAAATTGACATAA+TGG + Chr7:49711558-49711577 None:intergenic 15.0%
!!! ATTATGTCAATTTTTTTCTA+TGG - Chr7:49711557-49711576 MsG0780038606.01.T01:intron 15.0%
!! CATAATTTAATCCAATTTGA+GGG + Chr7:49712443-49712462 None:intergenic 20.0%
!! GTTTAGAAAATTTAGTTACT+TGG - Chr7:49711698-49711717 MsG0780038606.01.T01:intron 20.0%
!! TCATAATTTAATCCAATTTG+AGG + Chr7:49712444-49712463 None:intergenic 20.0%
! ACAGGTTTCAAAATTGTAAA+TGG - Chr7:49712334-49712353 MsG0780038606.01.T01:CDS 25.0%
! ACATGAATTTGATTGAAATG+TGG - Chr7:49711891-49711910 MsG0780038606.01.T01:CDS 25.0%
! AGTTAAAGAAAGCAACAAAA+GGG - Chr7:49711721-49711740 MsG0780038606.01.T01:intron 25.0%
! ATAAACTTGATTGGAGTAAA+AGG - Chr7:49711996-49712015 MsG0780038606.01.T01:intron 25.0%
! ATGAATTTGATTGAAATGTG+GGG - Chr7:49711893-49711912 MsG0780038606.01.T01:CDS 25.0%
! ATTGAGATGCATGAATATTA+AGG + Chr7:49712185-49712204 None:intergenic 25.0%
! CATGAATTTGATTGAAATGT+GGG - Chr7:49711892-49711911 MsG0780038606.01.T01:CDS 25.0%
! CTTAGAAGATTGTAATTGTA+AGG - Chr7:49711325-49711344 MsG0780038606.01.T01:intron 25.0%
! TAATTGTAAGGATTTCAGTA+CGG - Chr7:49711337-49711356 MsG0780038606.01.T01:intron 25.0%
! TTAGAGAAGTTATTACCTTT+AGG + Chr7:49711460-49711479 None:intergenic 25.0%
!! ATGGTAAATGTTGAGTTTTA+TGG - Chr7:49711248-49711267 MsG0780038606.01.T01:CDS 25.0%
!! TAGAAGTAAAATGGAGATTT+TGG - Chr7:49712464-49712483 MsG0780038606.01.T01:intron 25.0%
!! TTTATTAGCCAACAAGTTTT+CGG + Chr7:49711981-49712000 None:intergenic 25.0%
AAACTTTACAATGCTCAACA+AGG - Chr7:49711821-49711840 MsG0780038606.01.T01:intron 30.0%
AAAGAGGCAGTAACATTTAT+TGG - Chr7:49712400-49712419 MsG0780038606.01.T01:intron 30.0%
AAGGTGGATGTTTATAGTTA+TGG - Chr7:49712271-49712290 MsG0780038606.01.T01:intron 30.0%
AATCCAAAATCAGCTAACTT+GGG + Chr7:49712138-49712157 None:intergenic 30.0%
CAAAATTGTAAATGGAGAAG+AGG - Chr7:49712342-49712361 MsG0780038606.01.T01:CDS 30.0%
CAAATTGAAAATCCATTCAG+GGG + Chr7:49712234-49712253 None:intergenic 30.0%
CAAGAACTATAGTTACTCAT+AGG + Chr7:49711293-49711312 None:intergenic 30.0%
CAATTACATCTAATCTAAGG+TGG - Chr7:49712255-49712274 MsG0780038606.01.T01:intron 30.0%
CACCTTAGATTAGATGTAAT+TGG + Chr7:49712257-49712276 None:intergenic 30.0%
GAGTTAAAGAAAGCAACAAA+AGG - Chr7:49711720-49711739 MsG0780038606.01.T01:intron 30.0%
GCAAATTGAAAATCCATTCA+GGG + Chr7:49712235-49712254 None:intergenic 30.0%
GTTTATGAGTACATGGAAAA+CGG - Chr7:49711947-49711966 MsG0780038606.01.T01:intron 30.0%
TAGTTATGGAATAGTTGTGT+TGG - Chr7:49712285-49712304 MsG0780038606.01.T01:CDS 30.0%
TGCCAATTACATCTAATCTA+AGG - Chr7:49712252-49712271 MsG0780038606.01.T01:intron 30.0%
! CAATAGTCTATATTTTCCCT+CGG + Chr7:49711927-49711946 None:intergenic 30.0%
! CAGTAACATTTATTGGTTAG+AGG - Chr7:49712407-49712426 MsG0780038606.01.T01:intron 30.0%
! TGTTGGCTAATAAACTTGAT+TGG - Chr7:49711987-49712006 MsG0780038606.01.T01:intron 30.0%
!! ACTATTGGTTTATGAGTACA+TGG - Chr7:49711940-49711959 MsG0780038606.01.T01:CDS 30.0%
!! GAATCAAGAAGTATGTTTTG+TGG + Chr7:49712105-49712124 None:intergenic 30.0%
!!! ACAATTTTGAAACCTGTAGT+TGG + Chr7:49712331-49712350 None:intergenic 30.0%
AAACACAATTGCGAAATGGA+AGG - Chr7:49711395-49711414 MsG0780038606.01.T01:intron 35.0%
CAATCCAAAATCAGCTAACT+TGG + Chr7:49712139-49712158 None:intergenic 35.0%
CATCTCAACTACTTTACTCA+TGG + Chr7:49712538-49712557 None:intergenic 35.0%
CGAGGGAAAATATAGACTAT+TGG - Chr7:49711925-49711944 MsG0780038606.01.T01:CDS 35.0%
CTACATGAAGAATGTTTGAG+TGG - Chr7:49712058-49712077 MsG0780038606.01.T01:intron 35.0%
GAAATTGTTGACCCTCAAAT+TGG - Chr7:49712429-49712448 MsG0780038606.01.T01:intron 35.0%
GAAGTTTCACAAGACAAACA+TGG + Chr7:49711507-49711526 None:intergenic 35.0%
GGCAAATTGAAAATCCATTC+AGG + Chr7:49712236-49712255 None:intergenic 35.0%
GTTGTGTTGGAAATGATAAC+AGG - Chr7:49712298-49712317 MsG0780038606.01.T01:CDS 35.0%
TACGAAACACAATTGCGAAA+TGG - Chr7:49711391-49711410 MsG0780038606.01.T01:intron 35.0%
TAGAGGAACAAGAGGATATA+TGG - Chr7:49712208-49712227 MsG0780038606.01.T01:intron 35.0%
TAGGTTGTTCCTACAAAGAA+CGG + Chr7:49711427-49711446 None:intergenic 35.0%
TCAACTACTTTACTCATGGT+AGG + Chr7:49712534-49712553 None:intergenic 35.0%
TCAATGATTAGAGGAACAAG+AGG - Chr7:49712200-49712219 MsG0780038606.01.T01:intron 35.0%
TCATGCATCTCAATGATTAG+AGG - Chr7:49712191-49712210 MsG0780038606.01.T01:intron 35.0%
TTCTTTAGCCGAAAACTTGT+TGG - Chr7:49711970-49711989 MsG0780038606.01.T01:intron 35.0%
TTGACATAATGGTTCTCACT+TGG + Chr7:49711547-49711566 None:intergenic 35.0%
TTGTGGATGAAAGAGATTCA+AGG - Chr7:49712508-49712527 MsG0780038606.01.T01:CDS 35.0%
! AAGGATTTCAGTACGGTTTT+GGG - Chr7:49711344-49711363 MsG0780038606.01.T01:intron 35.0%
! AGTTGCTTTAGATTGTGTTG+TGG - Chr7:49712491-49712510 MsG0780038606.01.T01:CDS 35.0%
! TAAGGATTTCAGTACGGTTT+TGG - Chr7:49711343-49711362 MsG0780038606.01.T01:intron 35.0%
!!! TGTCTTTTGGTTCCTGAATA+AGG + Chr7:49711638-49711657 None:intergenic 35.0%
AAAGGGTTCAGTCAAGAGAT+TGG - Chr7:49711738-49711757 MsG0780038606.01.T01:intron 40.0%
AAGACAAATGCAGACCAACA+CGG - Chr7:49711652-49711671 MsG0780038606.01.T01:intron 40.0%
AATGGAGAAGAGGAAAGTGA+TGG - Chr7:49712352-49712371 MsG0780038606.01.T01:CDS 40.0%
ACAAGACAAACATGGTCACT+TGG + Chr7:49711499-49711518 None:intergenic 40.0%
ACAGGAAAAAGTCCAACTAC+AGG - Chr7:49712316-49712335 MsG0780038606.01.T01:CDS 40.0%
ACCTACTTGAGATTGCCTAA+AGG - Chr7:49711442-49711461 MsG0780038606.01.T01:CDS 40.0%
ACCTTTAGGCAATCTCAAGT+AGG + Chr7:49711446-49711465 None:intergenic 40.0%
ATGGAGAAGAGGAAAGTGAT+GGG - Chr7:49712353-49712372 MsG0780038606.01.T01:CDS 40.0%
CTAGCTGAAGTAGGAATCAT+TGG - Chr7:49711857-49711876 MsG0780038606.01.T01:intron 40.0%
CTGAAGTAGGAATCATTGGA+AGG - Chr7:49711861-49711880 MsG0780038606.01.T01:intron 40.0%
GATTGTCTAAGCTGCAAAAC+AGG - Chr7:49712154-49712173 MsG0780038606.01.T01:intron 40.0%
GTTGAGATGCTTCAATACCA+TGG - Chr7:49712549-49712568 MsG0780038606.01.T01:CDS 40.0%
TACAATGCTCAACAAGGAGA+AGG - Chr7:49711827-49711846 MsG0780038606.01.T01:intron 40.0%
TACATGGGTGAGAGAAAAAG+AGG - Chr7:49712384-49712403 MsG0780038606.01.T01:intron 40.0%
TTCAGTCAAGAGATTGGAAG+AGG - Chr7:49711744-49711763 MsG0780038606.01.T01:intron 40.0%
! CAGTCTGCATTTTCATCGTT+TGG - Chr7:49711608-49711627 MsG0780038606.01.T01:intron 40.0%
!! GGTGAATTTCTAGCTGAAGT+AGG - Chr7:49711848-49711867 MsG0780038606.01.T01:intron 40.0%
!! GTTGGTCTGCATTTGTCTTT+TGG + Chr7:49711651-49711670 None:intergenic 40.0%
!! TCGTTTGGTGTTCCTTATTC+AGG - Chr7:49711623-49711642 MsG0780038606.01.T01:intron 40.0%
ACAAACATGGTCACTTGGAG+TGG + Chr7:49711494-49711513 None:intergenic 45.0%
AGTCAAGAGATTGGAAGAGG+TGG - Chr7:49711747-49711766 MsG0780038606.01.T01:intron 45.0%
CAAAATCAGCTAACTTGGGC+TGG + Chr7:49712134-49712153 None:intergenic 45.0%
CTAAACCTATTGCTGCGAGT+TGG + Chr7:49711684-49711703 None:intergenic 45.0%
GTCAAGAGATTGGAAGAGGT+GGG - Chr7:49711748-49711767 MsG0780038606.01.T01:intron 45.0%
TCAAGAGATTGGAAGAGGTG+GGG - Chr7:49711749-49711768 MsG0780038606.01.T01:intron 45.0%
TTCAAAAGCTCCGATTGCAG+CGG + Chr7:49711587-49711606 None:intergenic 45.0%
! TGATGGGAGGTTGGTTACAT+GGG - Chr7:49712369-49712388 MsG0780038606.01.T01:CDS 45.0%
!! CAGCCCAAGTTAGCTGATTT+TGG - Chr7:49712132-49712151 MsG0780038606.01.T01:intron 45.0%
AATGTGGGGATATTGTGCCG+AGG - Chr7:49711907-49711926 MsG0780038606.01.T01:CDS 50.0%
AGGCATTCGCCGTTCTTTGT+AGG - Chr7:49711415-49711434 MsG0780038606.01.T01:CDS 50.0%
ATGTGGGGATATTGTGCCGA+GGG - Chr7:49711908-49711927 MsG0780038606.01.T01:CDS 50.0%
GAGGATATATGGCCCCTGAA+TGG - Chr7:49712219-49712238 MsG0780038606.01.T01:intron 50.0%
TACCACCAACTCGCAGCAAT+AGG - Chr7:49711676-49711695 MsG0780038606.01.T01:intron 50.0%
! AACCTATTGCTGCGAGTTGG+TGG + Chr7:49711681-49711700 None:intergenic 50.0%
! AGAGGAAAGTGATGGGAGGT+TGG - Chr7:49712360-49712379 MsG0780038606.01.T01:CDS 50.0%
! CTATGGTTTGCCGCTGCAAT+CGG - Chr7:49711574-49711593 MsG0780038606.01.T01:intron 50.0%
! GAGAAGAGGAAAGTGATGGG+AGG - Chr7:49712356-49712375 MsG0780038606.01.T01:CDS 50.0%
! GTGATGGGAGGTTGGTTACA+TGG - Chr7:49712368-49712387 MsG0780038606.01.T01:CDS 50.0%
!! TGGGGAGGTATCGTGTACAA+AGG - Chr7:49711767-49711786 MsG0780038606.01.T01:intron 50.0%
AGAGATTGGAAGAGGTGGGG+AGG - Chr7:49711752-49711771 MsG0780038606.01.T01:intron 55.0%
!! CGAGTTGGTGGTATCCGTGT+TGG + Chr7:49711669-49711688 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 49711248 49712584 49711248 ID=MsG0780038606.01;Name=MsG0780038606.01
Chr7 mRNA 49711248 49712584 49711248 ID=MsG0780038606.01.T01;Parent=MsG0780038606.01;Name=MsG0780038606.01.T01;_AED=0.48;_eAED=0.48;_QI=0|0|0|1|1|1|5|0|166
Chr7 exon 49712479 49712584 49712479 ID=MsG0780038606.01.T01:exon:5470;Parent=MsG0780038606.01.T01
Chr7 exon 49712285 49712395 49712285 ID=MsG0780038606.01.T01:exon:5469;Parent=MsG0780038606.01.T01
Chr7 exon 49711864 49711962 49711864 ID=MsG0780038606.01.T01:exon:5468;Parent=MsG0780038606.01.T01
Chr7 exon 49711411 49711512 49711411 ID=MsG0780038606.01.T01:exon:5467;Parent=MsG0780038606.01.T01
Chr7 exon 49711248 49711330 49711248 ID=MsG0780038606.01.T01:exon:5466;Parent=MsG0780038606.01.T01
Chr7 CDS 49712479 49712584 49712479 ID=MsG0780038606.01.T01:cds;Parent=MsG0780038606.01.T01
Chr7 CDS 49712285 49712395 49712285 ID=MsG0780038606.01.T01:cds;Parent=MsG0780038606.01.T01
Chr7 CDS 49711864 49711962 49711864 ID=MsG0780038606.01.T01:cds;Parent=MsG0780038606.01.T01
Chr7 CDS 49711411 49711512 49711411 ID=MsG0780038606.01.T01:cds;Parent=MsG0780038606.01.T01
Chr7 CDS 49711248 49711330 49711248 ID=MsG0780038606.01.T01:cds;Parent=MsG0780038606.01.T01
Gene Sequence

>MsG0780038606.01.T01

ATGGTAAATGTTGAGTTTTATGGCTATGACATTCATTATGTTCCTATGAGTAACTATAGTTCTTGTGAGAAATTGTGCTTAGAAGATTGTAATTGTAAGGATTTCAGAACAACCTACTTGAGATTGCCTAAAGGTAATAACTTCTCTAAAGAAGAATCTTCCACTCCAAGTGACCATGTTTGTCTTGTGAAACTTCAAAGAAATTTTGTTAGACCAAGAATCATTGGAAGGCTTAATCACATGAATTTGATTGAAATGTGGGGATATTGTGCCGAGGGAAAATATAGACTATTGGTTTATGAGTACATGGAAAACGGAAAAAGTCCAACTACAGGTTTCAAAATTGTAAATGGAGAAGAGGAAAGTGATGGGAGGTTGGTTACATGGGTGAGAGAAAAAGAGGCAGTAACATTTATTGATTGTGTTGTGGATGAAAGAGATTCAAGGCCTACCATGAGTAAAGTAGTTGAGATGCTTCAATACCATGGAAGTGATGTTTAG
Protein sequence

>MsG0780038606.01.T01

MVNVEFYGYDIHYVPMSNYSSCEKLCLEDCNCKDFRTTYLRLPKGNNFSKEESSTPSDHVCLVKLQRNFVRPRIIGRLNHMNLIEMWGYCAEGKYRLLVYEYMENGKSPTTGFKIVNGEEESDGRLVTWVREKEAVTFIDCVVDERDSRPTMSKVVEMLQYHGSDV*