AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780038496.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038496.01.T01 MTR_7g056413 94.220 173 10 0 3 175 32 204 1.60e-79 235
MsG0780038496.01.T01 MTR_2g026670 39.462 223 83 9 3 176 32 251 1.65e-28 106
MsG0780038496.01.T01 MTR_4g133900 79.545 44 9 0 3 46 36 79 4.72e-17 76.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038496.01.T01 AT4G16380 66.667 45 15 0 3 47 15 59 1.87e-15 71.6
MsG0780038496.01.T01 AT4G16380 64.444 45 16 0 3 47 36 80 6.48e-15 70.9
MsG0780038496.01.T01 AT4G16380 64.444 45 16 0 3 47 43 87 6.82e-15 70.9
MsG0780038496.01.T01 AT1G49420 54.167 48 22 0 3 50 37 84 2.26e-12 62.8

Find 66 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTCTTCTCATCATATATT+TGG 0.199717 7:-47684233 None:intergenic
GTTCCTTATGGGCATGTTTA+TGG 0.209138 7:+47684588 MsG0780038496.01.T01:CDS
CCTTCGCCAGTTGTTCCTTA+TGG 0.209497 7:+47684576 MsG0780038496.01.T01:CDS
CTTCGCCAGTTGTTCCTTAT+GGG 0.271859 7:+47684577 MsG0780038496.01.T01:CDS
AACTATTTCTATGCTCTTGA+TGG 0.278008 7:-47684331 None:intergenic
CACAAGGACCCTTCAAATTA+TGG 0.285976 7:-47684736 None:intergenic
ATATTGTCTCTTACCTTCTC+TGG 0.310383 7:-47684288 None:intergenic
GCCGGAGCTGGTGCCGGAGC+TGG 0.340628 7:-47684471 None:intergenic
ATCGGCTTTGCCTCGGCCAC+GGG 0.356925 7:-47684408 None:intergenic
TCATGTGCTGGCTTAGGCTT+TGG 0.357337 7:-47684360 None:intergenic
CCATCCATAACTATCATATA+CGG 0.359961 7:-47684649 None:intergenic
GCCGGAGCTGGAGCTGGACT+TGG 0.364027 7:-47684459 None:intergenic
GGCGGGCCAGGTTGTGCAAT+CGG 0.376262 7:-47684426 None:intergenic
GCTGGTGCCGGAGCTGGAGC+TGG 0.380110 7:-47684465 None:intergenic
GCTGCAGCACACCACTCTTA+TGG 0.386416 7:-47684265 None:intergenic
TGGGTCATCACCACGATTGC+TGG 0.388653 7:+47684688 MsG0780038496.01.T01:CDS
GCCGGTGCCTGAGCCGGAGC+TGG 0.401075 7:-47684483 None:intergenic
AATCGGCTTTGCCTCGGCCA+CGG 0.401999 7:-47684409 None:intergenic
TCTTTGGGCTTCTCATGTGC+TGG 0.402264 7:-47684372 None:intergenic
GCCTGAGCCGGAGCTGGTGC+CGG 0.417776 7:-47684477 None:intergenic
TCCAGCTCCGGCACCAGCTC+CGG 0.434194 7:+47684470 MsG0780038496.01.T01:CDS
TCCGGCACCAGCTCCGGCTC+AGG 0.434564 7:+47684476 MsG0780038496.01.T01:CDS
ACATGCCCATAAGGAACAAC+TGG 0.446939 7:-47684582 None:intergenic
GGTGCAGCGGCAGAAGGAAG+TGG 0.451538 7:-47684507 None:intergenic
TATTGTCTCTTACCTTCTCT+GGG 0.459846 7:-47684287 None:intergenic
GGCTTCTCATGTGCTGGCTT+AGG 0.467240 7:-47684366 None:intergenic
TGTGCTGGCTTAGGCTTTGG+TGG 0.473606 7:-47684357 None:intergenic
AGTGGAGCCGGTGCCTGAGC+CGG 0.473677 7:-47684489 None:intergenic
GCACCATAAACATGCCCATA+AGG 0.479031 7:-47684591 None:intergenic
GAGACAATATTTGTTGTCAA+GGG 0.480293 7:+47684301 MsG0780038496.01.T01:CDS
ACCAGCTCCGGCTCAGGCAC+CGG 0.483282 7:+47684482 MsG0780038496.01.T01:CDS
TTGTGCAATCGGCTTTGCCT+CGG 0.490744 7:-47684415 None:intergenic
GCGGCAGAAGGAAGTGGAGC+CGG 0.495842 7:-47684501 None:intergenic
CGACATGTACCATAATTTGA+AGG 0.496633 7:+47684727 MsG0780038496.01.T01:CDS
CTTCTTCGCGCCAGCAATCG+TGG 0.498790 7:-47684698 None:intergenic
TCCAAGTCCAGCTCCAGCTC+CGG 0.508493 7:+47684458 MsG0780038496.01.T01:CDS
GCAAAGCCGATTGCACAACC+TGG 0.511042 7:+47684420 MsG0780038496.01.T01:CDS
AGAGACAATATTTGTTGTCA+AGG 0.511179 7:+47684300 MsG0780038496.01.T01:CDS
CGATTGCTGGCGCGAAGAAG+AGG 0.521477 7:+47684701 MsG0780038496.01.T01:CDS
CAAATATATGATGAGAAGAA+TGG 0.524975 7:+47684234 MsG0780038496.01.T01:CDS
CATGTTTATGGTGCTTGTCA+AGG 0.539807 7:+47684600 MsG0780038496.01.T01:CDS
AGGCCCGTATATGATAGTTA+TGG 0.539945 7:+47684645 MsG0780038496.01.T01:CDS
TGGTGATGACCCACGTAACA+AGG 0.557049 7:-47684678 None:intergenic
ACAGCTGGTGCAGCGGCAGA+AGG 0.557551 7:-47684513 None:intergenic
CATCCATAACTATCATATAC+GGG 0.559099 7:-47684648 None:intergenic
GTTTATGGTGCTTGTCAAGG+TGG 0.563579 7:+47684603 MsG0780038496.01.T01:CDS
TGGCGAAGGATATGCAAGAA+TGG 0.564765 7:-47684562 None:intergenic
ATGGAGTGGGCCTTGTTACG+TGG 0.565179 7:+47684668 MsG0780038496.01.T01:CDS
ATGATAGTTATGGATGGAGT+GGG 0.567519 7:+47684655 MsG0780038496.01.T01:CDS
GGCCTCCCATAAAACTGTGG+GGG 0.585436 7:-47684627 None:intergenic
GGTGTGCTGCAGCCCAGAGA+AGG 0.588814 7:+47684275 MsG0780038496.01.T01:CDS
CGGGCCTCCCATAAAACTGT+GGG 0.590176 7:-47684629 None:intergenic
TATGATAGTTATGGATGGAG+TGG 0.593289 7:+47684654 MsG0780038496.01.T01:CDS
AGACAATATTTGTTGTCAAG+GGG 0.594817 7:+47684302 MsG0780038496.01.T01:CDS
GTGTGAGGATACATTACAGC+TGG 0.610753 7:-47684528 None:intergenic
TGGAGTGGGCCTTGTTACGT+GGG 0.611082 7:+47684669 MsG0780038496.01.T01:CDS
GCCTCCCATAAAACTGTGGG+GGG 0.618515 7:-47684626 None:intergenic
CCATAAGGAACAACTGGCGA+AGG 0.625985 7:-47684576 None:intergenic
GACAATATTTGTTGTCAAGG+GGG 0.632032 7:+47684303 MsG0780038496.01.T01:CDS
CCGTATATGATAGTTATGGA+TGG 0.637657 7:+47684649 MsG0780038496.01.T01:CDS
GGATATGCAAGAATGGACAT+TGG 0.650120 7:-47684555 None:intergenic
ACGGGCCTCCCATAAAACTG+TGG 0.651201 7:-47684630 None:intergenic
ATACATTACAGCTGGTGCAG+CGG 0.653594 7:-47684520 None:intergenic
ATGGACATTGGCGTTGTGTG+AGG 0.663282 7:-47684543 None:intergenic
TGGTATTGTGACCATAAGAG+TGG 0.707513 7:+47684254 MsG0780038496.01.T01:CDS
GGGCCTCCCATAAAACTGTG+GGG 0.723372 7:-47684628 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CAAATATATGATGAGAAGAA+TGG + Chr7:47684234-47684253 MsG0780038496.01.T01:CDS 25.0%
! CATTCTTCTCATCATATATT+TGG - Chr7:47684236-47684255 None:intergenic 25.0%
CATCCATAACTATCATATAC+GGG - Chr7:47684651-47684670 None:intergenic 30.0%
CCATCCATAACTATCATATA+CGG - Chr7:47684652-47684671 None:intergenic 30.0%
!! AACTATTTCTATGCTCTTGA+TGG - Chr7:47684334-47684353 None:intergenic 30.0%
!! AGACAATATTTGTTGTCAAG+GGG + Chr7:47684302-47684321 MsG0780038496.01.T01:CDS 30.0%
!! AGAGACAATATTTGTTGTCA+AGG + Chr7:47684300-47684319 MsG0780038496.01.T01:CDS 30.0%
!! GAGACAATATTTGTTGTCAA+GGG + Chr7:47684301-47684320 MsG0780038496.01.T01:CDS 30.0%
ATATTGTCTCTTACCTTCTC+TGG - Chr7:47684291-47684310 None:intergenic 35.0%
ATGATAGTTATGGATGGAGT+GGG + Chr7:47684655-47684674 MsG0780038496.01.T01:CDS 35.0%
CCGTATATGATAGTTATGGA+TGG + Chr7:47684649-47684668 MsG0780038496.01.T01:CDS 35.0%
TATGATAGTTATGGATGGAG+TGG + Chr7:47684654-47684673 MsG0780038496.01.T01:CDS 35.0%
TATTGTCTCTTACCTTCTCT+GGG - Chr7:47684290-47684309 None:intergenic 35.0%
!! GACAATATTTGTTGTCAAGG+GGG + Chr7:47684303-47684322 MsG0780038496.01.T01:CDS 35.0%
!!! GGCTTTTTTTCTTGCTCTTT+GGG - Chr7:47684390-47684409 None:intergenic 35.0%
AGGCCCGTATATGATAGTTA+TGG + Chr7:47684645-47684664 MsG0780038496.01.T01:CDS 40.0%
CATGTTTATGGTGCTTGTCA+AGG + Chr7:47684600-47684619 MsG0780038496.01.T01:CDS 40.0%
GGATATGCAAGAATGGACAT+TGG - Chr7:47684558-47684577 None:intergenic 40.0%
GTTCCTTATGGGCATGTTTA+TGG + Chr7:47684588-47684607 MsG0780038496.01.T01:CDS 40.0%
TGGTATTGTGACCATAAGAG+TGG + Chr7:47684254-47684273 MsG0780038496.01.T01:CDS 40.0%
!! AATATTTGTTGTCAAGGGGG+TGG + Chr7:47684306-47684325 MsG0780038496.01.T01:CDS 40.0%
!! GACTTGGATTTTGTTTAGGC+GGG - Chr7:47684446-47684465 None:intergenic 40.0%
!! GCTGGACTTGGATTTTGTTT+AGG - Chr7:47684450-47684469 None:intergenic 40.0%
!! GGACTTGGATTTTGTTTAGG+CGG - Chr7:47684447-47684466 None:intergenic 40.0%
!!! GGGCTTTTTTTCTTGCTCTT+TGG - Chr7:47684391-47684410 None:intergenic 40.0%
ACATGCCCATAAGGAACAAC+TGG - Chr7:47684585-47684604 None:intergenic 45.0%
AGAGCAAGAAAAAAAGCCCG+TGG + Chr7:47684392-47684411 MsG0780038496.01.T01:CDS 45.0%
ATACATTACAGCTGGTGCAG+CGG - Chr7:47684523-47684542 None:intergenic 45.0%
CTTCGCCAGTTGTTCCTTAT+GGG + Chr7:47684577-47684596 MsG0780038496.01.T01:CDS 45.0%
GCACCATAAACATGCCCATA+AGG - Chr7:47684594-47684613 None:intergenic 45.0%
GTGTGAGGATACATTACAGC+TGG - Chr7:47684531-47684550 None:intergenic 45.0%
GTTTATGGTGCTTGTCAAGG+TGG + Chr7:47684603-47684622 MsG0780038496.01.T01:CDS 45.0%
TGGCGAAGGATATGCAAGAA+TGG - Chr7:47684565-47684584 None:intergenic 45.0%
ATGGACATTGGCGTTGTGTG+AGG - Chr7:47684546-47684565 None:intergenic 50.0%
CCATAAGGAACAACTGGCGA+AGG - Chr7:47684579-47684598 None:intergenic 50.0%
CCTTCGCCAGTTGTTCCTTA+TGG + Chr7:47684576-47684595 MsG0780038496.01.T01:CDS 50.0%
TCTTTGGGCTTCTCATGTGC+TGG - Chr7:47684375-47684394 None:intergenic 50.0%
! TGGTGATGACCCACGTAACA+AGG - Chr7:47684681-47684700 None:intergenic 50.0%
! TTGTGCAATCGGCTTTGCCT+CGG - Chr7:47684418-47684437 None:intergenic 50.0%
!! TCATGTGCTGGCTTAGGCTT+TGG - Chr7:47684363-47684382 None:intergenic 50.0%
ACGGGCCTCCCATAAAACTG+TGG - Chr7:47684633-47684652 None:intergenic 55.0%
AGAAAAAAAGCCCGTGGCCG+AGG + Chr7:47684398-47684417 MsG0780038496.01.T01:CDS 55.0%
CGGGCCTCCCATAAAACTGT+GGG - Chr7:47684632-47684651 None:intergenic 55.0%
GCAAAGCCGATTGCACAACC+TGG + Chr7:47684420-47684439 MsG0780038496.01.T01:CDS 55.0%
GCCTCCCATAAAACTGTGGG+GGG - Chr7:47684629-47684648 None:intergenic 55.0%
GCTGCAGCACACCACTCTTA+TGG - Chr7:47684268-47684287 None:intergenic 55.0%
GGCCTCCCATAAAACTGTGG+GGG - Chr7:47684630-47684649 None:intergenic 55.0%
GGGCCTCCCATAAAACTGTG+GGG - Chr7:47684631-47684650 None:intergenic 55.0%
TGGGTCATCACCACGATTGC+TGG + Chr7:47684688-47684707 MsG0780038496.01.T01:CDS 55.0%
!! ATGGAGTGGGCCTTGTTACG+TGG + Chr7:47684668-47684687 MsG0780038496.01.T01:CDS 55.0%
!! GGATTTTGTTTAGGCGGGCC+AGG - Chr7:47684441-47684460 None:intergenic 55.0%
!! GGCTTCTCATGTGCTGGCTT+AGG - Chr7:47684369-47684388 None:intergenic 55.0%
!! GTGGCCCCCCACAGTTTTAT+GGG + Chr7:47684622-47684641 MsG0780038496.01.T01:CDS 55.0%
!! TGGAGTGGGCCTTGTTACGT+GGG + Chr7:47684669-47684688 MsG0780038496.01.T01:CDS 55.0%
!! TGTGCTGGCTTAGGCTTTGG+TGG - Chr7:47684360-47684379 None:intergenic 55.0%
CGATTGCTGGCGCGAAGAAG+AGG + Chr7:47684701-47684720 MsG0780038496.01.T01:CDS 60.0%
CTTCTTCGCGCCAGCAATCG+TGG - Chr7:47684701-47684720 None:intergenic 60.0%
TCCAAGTCCAGCTCCAGCTC+CGG + Chr7:47684458-47684477 MsG0780038496.01.T01:CDS 60.0%
! AATCGGCTTTGCCTCGGCCA+CGG - Chr7:47684412-47684431 None:intergenic 60.0%
! GGTGGCCCCCCACAGTTTTA+TGG + Chr7:47684621-47684640 MsG0780038496.01.T01:CDS 60.0%
!! GCCCCCCACAGTTTTATGGG+AGG + Chr7:47684625-47684644 MsG0780038496.01.T01:CDS 60.0%
ACAGCTGGTGCAGCGGCAGA+AGG - Chr7:47684516-47684535 None:intergenic 65.0%
GCGGCAGAAGGAAGTGGAGC+CGG - Chr7:47684504-47684523 None:intergenic 65.0%
GGCGGGCCAGGTTGTGCAAT+CGG - Chr7:47684429-47684448 None:intergenic 65.0%
GGTGCAGCGGCAGAAGGAAG+TGG - Chr7:47684510-47684529 None:intergenic 65.0%
GGTGTGCTGCAGCCCAGAGA+AGG + Chr7:47684275-47684294 MsG0780038496.01.T01:CDS 65.0%
! ATCGGCTTTGCCTCGGCCAC+GGG - Chr7:47684411-47684430 None:intergenic 65.0%
ACCAGCTCCGGCTCAGGCAC+CGG + Chr7:47684482-47684501 MsG0780038496.01.T01:CDS 70.0%
AGTGGAGCCGGTGCCTGAGC+CGG - Chr7:47684492-47684511 None:intergenic 70.0%
GCCGGAGCTGGAGCTGGACT+TGG - Chr7:47684462-47684481 None:intergenic 70.0%
TCCAGCTCCGGCACCAGCTC+CGG + Chr7:47684470-47684489 MsG0780038496.01.T01:CDS 70.0%
GCCTGAGCCGGAGCTGGTGC+CGG - Chr7:47684480-47684499 None:intergenic 75.0%
TCCGGCACCAGCTCCGGCTC+AGG + Chr7:47684476-47684495 MsG0780038496.01.T01:CDS 75.0%
! GCTGGTGCCGGAGCTGGAGC+TGG - Chr7:47684468-47684487 None:intergenic 75.0%
! GCCGGTGCCTGAGCCGGAGC+TGG - Chr7:47684486-47684505 None:intergenic 80.0%
!! GCCGGAGCTGGTGCCGGAGC+TGG - Chr7:47684474-47684493 None:intergenic 80.0%
Chromosome Type Strat End Strand Name
Chr7 gene 47684216 47684746 47684216 ID=MsG0780038496.01;Name=MsG0780038496.01
Chr7 mRNA 47684216 47684746 47684216 ID=MsG0780038496.01.T01;Parent=MsG0780038496.01;Name=MsG0780038496.01.T01;_AED=0.35;_eAED=0.35;_QI=0|-1|0|1|-1|1|1|0|176
Chr7 exon 47684216 47684746 47684216 ID=MsG0780038496.01.T01:exon:6117;Parent=MsG0780038496.01.T01
Chr7 CDS 47684216 47684746 47684216 ID=MsG0780038496.01.T01:cds;Parent=MsG0780038496.01.T01
Gene Sequence

>MsG0780038496.01.T01

ATGAAAGAAATTCGAGACCAAATATATGATGAGAAGAATGGTATTGTGACCATAAGAGTGGTGTGCTGCAGCCCAGAGAAGGTAAGAGACAATATTTGTTGTCAAGGGGGTGGTACCATCAAGAGCATAGAAATAGTTGAACCACCAAAGCCTAAGCCAGCACATGAGAAGCCCAAAGAGCAAGAAAAAAAGCCCGTGGCCGAGGCAAAGCCGATTGCACAACCTGGCCCGCCTAAACAAAATCCAAGTCCAGCTCCAGCTCCGGCACCAGCTCCGGCTCAGGCACCGGCTCCACTTCCTTCTGCCGCTGCACCAGCTGTAATGTATCCTCACACAACGCCAATGTCCATTCTTGCATATCCTTCGCCAGTTGTTCCTTATGGGCATGTTTATGGTGCTTGTCAAGGTGGCCCCCCACAGTTTTATGGGAGGCCCGTATATGATAGTTATGGATGGAGTGGGCCTTGTTACGTGGGTCATCACCACGATTGCTGGCGCGAAGAAGAGGCGTCGACATGTACCATAATTTGA

Protein sequence

>MsG0780038496.01.T01

MKEIRDQIYDEKNGIVTIRVVCCSPEKVRDNICCQGGGTIKSIEIVEPPKPKPAHEKPKEQEKKPVAEAKPIAQPGPPKQNPSPAPAPAPAPAQAPAPLPSAAAPAVMYPHTTPMSILAYPSPVVPYGHVYGACQGGPPQFYGRPVYDSYGWSGPCYVGHHHDCWREEEASTCTII*