AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480018201.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018201.01.T01 MTR_4g007190 99.000 100 1 0 19 118 104 203 1.40e-64 200
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018201.01.T01 AT1G73060 82.000 100 18 0 19 118 83 182 9.93e-45 149

Find 22 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCAACATTTCTTCATATA+AGG 0.266428 4:+1527497 MsG0480018201.01.T01:CDS
TTACTTTGTTTCAAGGTTGA+TGG 0.310777 4:+1528399 MsG0480018201.01.T01:intron
GTTCCTGGGGTTATGTATGC+AGG 0.396399 4:+1527466 MsG0480018201.01.T01:CDS
AAGGTTGATGGCCTTACTAT+AGG 0.409941 4:+1528411 MsG0480018201.01.T01:intron
TCCTGCAGGGATATCATCTA+AGG 0.428313 4:-1528436 None:intergenic
CTTATATGAAGAAATGTTGC+TGG 0.430887 4:-1527496 None:intergenic
TGCCAACATTCAACTTGTCT+TGG 0.448124 4:+1527984 MsG0480018201.01.T01:CDS
TCAGTTGTTCAAAGCAGCTC+TGG 0.458399 4:+1528202 MsG0480018201.01.T01:CDS
CATCTTCAAAGTCAAAATCA+AGG 0.471831 4:-1528494 None:intergenic
AATGAAGCCACAGGTCCTGC+AGG 0.472666 4:-1528450 None:intergenic
GACTTTGAAGATGAGAATGA+AGG 0.486387 4:+1528504 MsG0480018201.01.T01:CDS
TGAAGAAATGTTGCTGGGCA+AGG 0.493271 4:-1527490 None:intergenic
TCCTTAGATGATATCCCTGC+AGG 0.518676 4:+1528435 MsG0480018201.01.T01:CDS
CATCTAAGGAGCCTATAGTA+AGG 0.549669 4:-1528422 None:intergenic
GAAGAAATGTTGCTGGGCAA+GGG 0.561828 4:-1527489 None:intergenic
AGCCAAGACAAGTTGAATGT+TGG 0.570943 4:-1527986 None:intergenic
TTATATGAAGAAATGTTGCT+GGG 0.572669 4:-1527495 None:intergenic
ATCTTCAAAGTCAAAATCAA+GGG 0.605002 4:-1528493 None:intergenic
TGATATCCCTGCAGGACCTG+TGG 0.610302 4:+1528443 MsG0480018201.01.T01:CDS
GGGCCTGCATACATAACCCC+AGG 0.623139 4:-1527469 None:intergenic
ATGAAGCCACAGGTCCTGCA+GGG 0.630187 4:-1528449 None:intergenic
AGCTGCTTTGAACAACTGAG+AGG 0.692149 4:-1528198 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTTAACAAATTTTCATTA+TGG + Chr4:1527718-1527737 MsG0480018201.01.T01:intron 10.0%
!! TAATTTATCCTACTAATATT+TGG - Chr4:1527648-1527667 None:intergenic 15.0%
!! CAAATTCCTAAATATTTCAA+GGG + Chr4:1527940-1527959 MsG0480018201.01.T01:intron 20.0%
!! TATGATATCTTCATTCTTTA+TGG - Chr4:1528342-1528361 None:intergenic 20.0%
!! TCAAATTCCTAAATATTTCA+AGG + Chr4:1527939-1527958 MsG0480018201.01.T01:intron 20.0%
!!! GAATATTCTTATTTACTATG+AGG + Chr4:1528249-1528268 MsG0480018201.01.T01:intron 20.0%
!!! TGAAAATTTGTTAAAATCCA+TGG - Chr4:1527715-1527734 None:intergenic 20.0%
!!! TGAATTATTTGTTTCAGTTT+TGG + Chr4:1527562-1527581 MsG0480018201.01.T01:intron 20.0%
! ATCTTCAAAGTCAAAATCAA+GGG - Chr4:1528496-1528515 None:intergenic 25.0%
! TTAAAATCCATGGTAAACAA+AGG - Chr4:1527705-1527724 None:intergenic 25.0%
! TTATATGAAGAAATGTTGCT+GGG - Chr4:1527498-1527517 None:intergenic 25.0%
!! ATATTTTGCTAATCAGAAGT+AGG - Chr4:1527769-1527788 None:intergenic 25.0%
!! TGTATATAGGTCTATGTTTT+TGG + Chr4:1527593-1527612 MsG0480018201.01.T01:intron 25.0%
!! TTCATCTTTACTTTGTTTCA+AGG + Chr4:1528392-1528411 MsG0480018201.01.T01:intron 25.0%
!!! TTTGGTTCTTCATTGTATAT+AGG + Chr4:1527580-1527599 MsG0480018201.01.T01:intron 25.0%
ACGAAGTTCCAAATATTAGT+AGG + Chr4:1527637-1527656 MsG0480018201.01.T01:intron 30.0%
CAGCAACATTTCTTCATATA+AGG + Chr4:1527497-1527516 MsG0480018201.01.T01:CDS 30.0%
CATCTTCAAAGTCAAAATCA+AGG - Chr4:1528497-1528516 None:intergenic 30.0%
CCATAAAATGATCACACTAT+TGG + Chr4:1528289-1528308 MsG0480018201.01.T01:intron 30.0%
CTTATATGAAGAAATGTTGC+TGG - Chr4:1527499-1527518 None:intergenic 30.0%
GAAGATCCCTTGAAATATTT+AGG - Chr4:1527949-1527968 None:intergenic 30.0%
TGTAGCTAAGCTAATATGAT+GGG + Chr4:1527818-1527837 MsG0480018201.01.T01:intron 30.0%
TTGTAGCTAAGCTAATATGA+TGG + Chr4:1527817-1527836 MsG0480018201.01.T01:intron 30.0%
! CCAATAGTGTGATCATTTTA+TGG - Chr4:1528292-1528311 None:intergenic 30.0%
! TTACTTTGTTTCAAGGTTGA+TGG + Chr4:1528399-1528418 MsG0480018201.01.T01:intron 30.0%
!! AAGTACTTGTTGCTTTGAAA+GGG - Chr4:1528083-1528102 None:intergenic 30.0%
!!! TAGATTTGGGACTTTTTTGT+AGG + Chr4:1528145-1528164 MsG0480018201.01.T01:intron 30.0%
GGAACAAAAAAGATCAGGAA+TGG - Chr4:1527451-1527470 None:intergenic 35.0%
! ATTGACAGTTGACGTTTTTG+AGG + Chr4:1527881-1527900 MsG0480018201.01.T01:intron 35.0%
! GACTTTGAAGATGAGAATGA+AGG + Chr4:1528504-1528523 MsG0480018201.01.T01:CDS 35.0%
! TAAGGTACTATTCTTTGCTC+TGG + Chr4:1527515-1527534 MsG0480018201.01.T01:intron 35.0%
! TTTTCTTACTATGCAAGCTC+TGG - Chr4:1528043-1528062 None:intergenic 35.0%
!! GAAGTACTTGTTGCTTTGAA+AGG - Chr4:1528084-1528103 None:intergenic 35.0%
!!! GAAGCTTTTCTGGTTTATCA+GGG - Chr4:1528175-1528194 None:intergenic 35.0%
!!! TCCTGATCTTTTTTGTTCCT+GGG + Chr4:1527452-1527471 MsG0480018201.01.T01:CDS 35.0%
!!! TTCCTGATCTTTTTTGTTCC+TGG + Chr4:1527451-1527470 MsG0480018201.01.T01:CDS 35.0%
CATCTAAGGAGCCTATAGTA+AGG - Chr4:1528425-1528444 None:intergenic 40.0%
GATCTGAAAAATGAAGCCAC+AGG - Chr4:1528462-1528481 None:intergenic 40.0%
GGCTGTTGTAAAAAAGCTAC+AGG + Chr4:1528005-1528024 MsG0480018201.01.T01:CDS 40.0%
TCCCAAATCTAGTGACATCT+CGG - Chr4:1528136-1528155 None:intergenic 40.0%
TCCGAGATGTCACTAGATTT+GGG + Chr4:1528132-1528151 MsG0480018201.01.T01:intron 40.0%
TGCCAACATTCAACTTGTCT+TGG + Chr4:1527984-1528003 MsG0480018201.01.T01:CDS 40.0%
! AGCCAAGACAAGTTGAATGT+TGG - Chr4:1527989-1528008 None:intergenic 40.0%
!! AAGGTTGATGGCCTTACTAT+AGG + Chr4:1528411-1528430 MsG0480018201.01.T01:intron 40.0%
!!! CCTGATCTTTTTTGTTCCTG+GGG + Chr4:1527453-1527472 MsG0480018201.01.T01:CDS 40.0%
!!! CGAAGCTTTTCTGGTTTATC+AGG - Chr4:1528176-1528195 None:intergenic 40.0%
AAGTAGGCAGAGATGAACTG+AGG - Chr4:1527753-1527772 None:intergenic 45.0%
CCCCAGGAACAAAAAAGATC+AGG - Chr4:1527456-1527475 None:intergenic 45.0%
CTCCGAGATGTCACTAGATT+TGG + Chr4:1528131-1528150 MsG0480018201.01.T01:intron 45.0%
GAAGAAATGTTGCTGGGCAA+GGG - Chr4:1527492-1527511 None:intergenic 45.0%
TCAGTTGTTCAAAGCAGCTC+TGG + Chr4:1528202-1528221 MsG0480018201.01.T01:CDS 45.0%
TCCTGCAGGGATATCATCTA+AGG - Chr4:1528439-1528458 None:intergenic 45.0%
TCCTTAGATGATATCCCTGC+AGG + Chr4:1528435-1528454 MsG0480018201.01.T01:CDS 45.0%
TGAAGAAATGTTGCTGGGCA+AGG - Chr4:1527493-1527512 None:intergenic 45.0%
! AGCTGCTTTGAACAACTGAG+AGG - Chr4:1528201-1528220 None:intergenic 45.0%
! TCGCATGCCTTTGTTTACCA+TGG + Chr4:1527695-1527714 MsG0480018201.01.T01:intron 45.0%
GTTCCTGGGGTTATGTATGC+AGG + Chr4:1527466-1527485 MsG0480018201.01.T01:CDS 50.0%
! TGAGAGGCTCGAAGCTTTTC+TGG - Chr4:1528185-1528204 None:intergenic 50.0%
AATGAAGCCACAGGTCCTGC+AGG - Chr4:1528453-1528472 None:intergenic 55.0%
ATGAAGCCACAGGTCCTGCA+GGG - Chr4:1528452-1528471 None:intergenic 55.0%
TGATATCCCTGCAGGACCTG+TGG + Chr4:1528443-1528462 MsG0480018201.01.T01:CDS 55.0%
GGGCCTGCATACATAACCCC+AGG - Chr4:1527472-1527491 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr4 gene 1527435 1528530 1527435 ID=MsG0480018201.01;Name=MsG0480018201.01
Chr4 mRNA 1527435 1528530 1527435 ID=MsG0480018201.01.T01;Parent=MsG0480018201.01;Name=MsG0480018201.01.T01;_AED=0.47;_eAED=0.55;_QI=0|1|0.5|1|0.66|0.5|4|0|118
Chr4 exon 1527435 1527518 1527435 ID=MsG0480018201.01.T01:exon:934;Parent=MsG0480018201.01.T01
Chr4 exon 1527961 1528053 1527961 ID=MsG0480018201.01.T01:exon:935;Parent=MsG0480018201.01.T01
Chr4 exon 1528167 1528229 1528167 ID=MsG0480018201.01.T01:exon:936;Parent=MsG0480018201.01.T01
Chr4 exon 1528414 1528530 1528414 ID=MsG0480018201.01.T01:exon:937;Parent=MsG0480018201.01.T01
Chr4 CDS 1527435 1527518 1527435 ID=MsG0480018201.01.T01:cds;Parent=MsG0480018201.01.T01
Chr4 CDS 1527961 1528053 1527961 ID=MsG0480018201.01.T01:cds;Parent=MsG0480018201.01.T01
Chr4 CDS 1528167 1528229 1528167 ID=MsG0480018201.01.T01:cds;Parent=MsG0480018201.01.T01
Chr4 CDS 1528414 1528530 1528414 ID=MsG0480018201.01.T01:cds;Parent=MsG0480018201.01.T01
Gene Sequence

>MsG0480018201.01.T01

ATGTGCTGGGATTCCATTCCTGATCTTTTTTGTTCCTGGGGTTATGTATGCAGGCCCTTGCCCAGCAACATTTCTTCATATAAGGGATCTTCAGATGATTTCATCGATGCCAACATTCAACTTGTCTTGGCTGTTGTAAAAAAGCTACAGGAGAAAAAAGAGACCAGAGCTTGCATAGTATTCCCTGATAAACCAGAAAAGCTTCGAGCCTCTCAGTTGTTCAAAGCAGCTCTGGATTCAGTTGATGGCCTTACTATAGGCTCCTTAGATGATATCCCTGCAGGACCTGTGGCTTCATTTTTCAGATCTGTTAGAAACACCCTTGATTTTGACTTTGAAGATGAGAATGAAGGTTAG

Protein sequence

>MsG0480018201.01.T01

MCWDSIPDLFCSWGYVCRPLPSNISSYKGSSDDFIDANIQLVLAVVKKLQEKKETRACIVFPDKPEKLRASQLFKAALDSVDGLTIGSLDDIPAGPVASFFRSVRNTLDFDFEDENEG*