AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380012933.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012933.01.T01 MTR_4g073100 43.627 204 88 6 1 184 1 197 3.10e-48 158
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012933.01.T01 AT3G51960 49.112 169 75 5 4 163 10 176 2.17e-47 155
MsG0380012933.01.T01 AT3G51960 49.405 168 75 5 4 163 10 175 2.83e-47 154
MsG0380012933.01.T01 AT3G51960 55.039 129 51 2 41 163 10 137 4.18e-47 153
MsG0380012933.01.T01 AT2G16770 50.327 153 62 6 30 170 19 169 4.71e-43 144
MsG0380012933.01.T01 AT2G16770 50.327 153 62 6 30 170 19 169 4.71e-43 144
MsG0380012933.01.T01 AT4G35040 45.902 183 76 7 1 166 1 177 2.11e-42 143
MsG0380012933.01.T01 AT4G35040 45.902 183 76 7 1 166 1 177 2.11e-42 143
MsG0380012933.01.T01 AT4G35040 45.902 183 76 7 1 166 1 177 2.11e-42 143
MsG0380012933.01.T01 AT4G35040 45.902 183 76 7 1 166 1 177 2.11e-42 143

Find 20 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGGCACAAACAGCTTATT+TGG 0.157417 3:+27176555 MsG0380012933.01.T01:CDS
TGAAAATTGCTACATGATTC+TGG 0.186480 3:-27176310 None:intergenic
GTAGTTTCCTCAAAAGTTGT+TGG 0.363239 3:-27176609 None:intergenic
AAAGTATAGGGAGAAGAAAA+AGG 0.378833 3:+27176537 MsG0380012933.01.T01:CDS
AAGCTGAATTGTCAAGGTTA+AGG 0.395629 3:+27176650 MsG0380012933.01.T01:CDS
ACACAAATTCAAGGCCAAAA+AGG 0.410549 3:+27176488 MsG0380012933.01.T01:CDS
ACATGCAGGATCATCATCTA+AGG 0.417339 3:+27176759 MsG0380012933.01.T01:CDS
GTCCTTTAGTATTACTCATG+TGG 0.475676 3:-27176805 None:intergenic
AAGAAAGAAAATATGGAAGA+TGG 0.479572 3:+27176238 None:intergenic
GGAAAAGTTGACAGTGAAGT+AGG 0.486625 3:+27176694 MsG0380012933.01.T01:CDS
CTGAAGATGACACAAATTCA+AGG 0.502147 3:+27176479 MsG0380012933.01.T01:CDS
CCATGTTTGCATCCACATGC+AGG 0.525489 3:+27176745 MsG0380012933.01.T01:CDS
TTTGAGGAAACTACAAGGGC+AGG 0.536327 3:+27176618 MsG0380012933.01.T01:CDS
CCTGCATGTGGATGCAAACA+TGG 0.553344 3:-27176745 None:intergenic
TGTGTGTGATAAGCATCATC+AGG 0.565504 3:-27176421 None:intergenic
TACTTGAAGCTGAATTGTCA+AGG 0.575730 3:+27176644 MsG0380012933.01.T01:CDS
TGATAAGCATCATCAGGACC+AGG 0.614933 3:-27176415 None:intergenic
TTAGATGATGATCCTGCATG+TGG 0.661059 3:-27176757 None:intergenic
ACTCACACTTGTAATCCACC+TGG 0.661329 3:+27176397 MsG0380012933.01.T01:CDS
TAAGCATCATCAGGACCAGG+TGG 0.696090 3:-27176412 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACATTTTTGTACAGCTTAA+GGG + Chr3:27176673-27176692 MsG0380012933.01.T01:CDS 25.0%
!! AGAAGCTGTTAAAAAGTATA+GGG + Chr3:27176525-27176544 MsG0380012933.01.T01:CDS 25.0%
AAAGTATAGGGAGAAGAAAA+AGG + Chr3:27176537-27176556 MsG0380012933.01.T01:CDS 30.0%
TGAAAATTGCTACATGATTC+TGG - Chr3:27176313-27176332 None:intergenic 30.0%
! GAACATTTTTGTACAGCTTA+AGG + Chr3:27176672-27176691 MsG0380012933.01.T01:CDS 30.0%
! GAGAAGCTGTTAAAAAGTAT+AGG + Chr3:27176524-27176543 MsG0380012933.01.T01:CDS 30.0%
!! AACTTTTGAGGAAACTACAA+GGG + Chr3:27176614-27176633 MsG0380012933.01.T01:CDS 30.0%
AAGCTGAATTGTCAAGGTTA+AGG + Chr3:27176650-27176669 MsG0380012933.01.T01:CDS 35.0%
ACACAAATTCAAGGCCAAAA+AGG + Chr3:27176488-27176507 MsG0380012933.01.T01:CDS 35.0%
CTGAAGATGACACAAATTCA+AGG + Chr3:27176479-27176498 MsG0380012933.01.T01:CDS 35.0%
GTAGTTTCCTCAAAAGTTGT+TGG - Chr3:27176612-27176631 None:intergenic 35.0%
TACTTGAAGCTGAATTGTCA+AGG + Chr3:27176644-27176663 MsG0380012933.01.T01:CDS 35.0%
! AAAGGCACAAACAGCTTATT+TGG + Chr3:27176555-27176574 MsG0380012933.01.T01:CDS 35.0%
! ATGTGAACCAACAACTTTTG+AGG + Chr3:27176602-27176621 MsG0380012933.01.T01:CDS 35.0%
!! AGTGTGAATGCATGTTTTTG+TGG - Chr3:27176380-27176399 None:intergenic 35.0%
!! CAACTTTTGAGGAAACTACA+AGG + Chr3:27176613-27176632 MsG0380012933.01.T01:CDS 35.0%
ACATGCAGGATCATCATCTA+AGG + Chr3:27176759-27176778 MsG0380012933.01.T01:CDS 40.0%
GGAAAAGTTGACAGTGAAGT+AGG + Chr3:27176694-27176713 MsG0380012933.01.T01:CDS 40.0%
TGTGTGTGATAAGCATCATC+AGG - Chr3:27176424-27176443 None:intergenic 40.0%
TTAGATGATGATCCTGCATG+TGG - Chr3:27176760-27176779 None:intergenic 40.0%
! CTATTGCCAGAAGTCCTTTT+TGG - Chr3:27176505-27176524 None:intergenic 40.0%
ACTCACACTTGTAATCCACC+TGG + Chr3:27176397-27176416 MsG0380012933.01.T01:CDS 45.0%
TCAAGGCCAAAAAGGACTTC+TGG + Chr3:27176496-27176515 MsG0380012933.01.T01:CDS 45.0%
TGATAAGCATCATCAGGACC+AGG - Chr3:27176418-27176437 None:intergenic 45.0%
TTTGAGGAAACTACAAGGGC+AGG + Chr3:27176618-27176637 MsG0380012933.01.T01:CDS 45.0%
CCATGTTTGCATCCACATGC+AGG + Chr3:27176745-27176764 MsG0380012933.01.T01:CDS 50.0%
CCTGCATGTGGATGCAAACA+TGG - Chr3:27176748-27176767 None:intergenic 50.0%
TAAGCATCATCAGGACCAGG+TGG - Chr3:27176415-27176434 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr3 gene 27176250 27176816 27176250 ID=MsG0380012933.01;Name=MsG0380012933.01
Chr3 mRNA 27176250 27176816 27176250 ID=MsG0380012933.01.T01;Parent=MsG0380012933.01;Name=MsG0380012933.01.T01;_AED=0.37;_eAED=0.37;_QI=0|-1|0|1|-1|1|1|0|188
Chr3 exon 27176250 27176816 27176250 ID=MsG0380012933.01.T01:exon:14270;Parent=MsG0380012933.01.T01
Chr3 CDS 27176250 27176816 27176250 ID=MsG0380012933.01.T01:cds;Parent=MsG0380012933.01.T01
Gene Sequence

>MsG0380012933.01.T01

ATGGAAGATGGAAATTCTGAAGTTTCTGATAAACTTTCAGATAATGTTATATTTTCAAATCCAGAATCATGTAGCAATTTTCAAGCTTCAACATCTATGAACACAGTTACTGAATTGTCTAATAGCACCACAAAAACATGCATTCACACTCACACTTGTAATCCACCTGGTCCTGATGATGCTTATCACACACACACATGTTTTCACACACATACTCAAGTTTTTGCATCTGAAGATGACACAAATTCAAGGCCAAAAAGGACTTCTGGCAATAGAGAAGCTGTTAAAAAGTATAGGGAGAAGAAAAAGGCACAAACAGCTTATTTGGAAGAAGAAGTTAGAAAATTGAAACATGTGAACCAACAACTTTTGAGGAAACTACAAGGGCAGGCACTACTTGAAGCTGAATTGTCAAGGTTAAGGAACATTTTTGTACAGCTTAAGGGAAAAGTTGACAGTGAAGTAGGTTGTTCTTTCACTTTTGAGAAAAATCTGCCATGTTTGCATCCACATGCAGGATCATCATCTAAGGTTAACACTTGTGCATATTGCAAACCACATGAGTAA
Protein sequence

>MsG0380012933.01.T01

MEDGNSEVSDKLSDNVIFSNPESCSNFQASTSMNTVTELSNSTTKTCIHTHTCNPPGPDDAYHTHTCFHTHTQVFASEDDTNSRPKRTSGNREAVKKYREKKKAQTAYLEEEVRKLKHVNQQLLRKLQGQALLEAELSRLRNIFVQLKGKVDSEVGCSFTFEKNLPCLHPHAGSSSKVNTCAYCKPHE*