AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880047402.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880047402.01.T01 MTR_4g126260 98.101 158 3 0 4 161 3 160 3.28e-107 318
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880047402.01.T01 AT5G56900 74.051 158 39 2 4 161 3 158 2.28e-76 239
MsG0880047402.01.T01 AT5G56900 77.273 66 14 1 96 161 1 65 4.75e-26 103

Find 60 sgRNAs with CRISPR-Local

Find 104 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGTCCATCAAAATTTATTA+TGG 0.254586 8:+85771150 MsG0880047402.01.T01:exon
CGATTTCCTACCAGATAAAT+AGG 0.267336 8:-85772152 None:intergenic
TTATCTGTCACCTATTTATC+TGG 0.324136 8:+85772142 MsG0880047402.01.T01:CDS
TCAAGCAGGTCCGGTGAGTC+AGG 0.342078 8:-85771390 None:intergenic
GTTTCAAGATGGACGGGTTA+AGG 0.343522 8:+85771538 MsG0880047402.01.T01:CDS
GTAATCGGTACTATTTGATT+TGG 0.356288 8:-85771091 None:intergenic
GGGTTTGCGATAATTTGTTT+TGG 0.385893 8:+85771559 MsG0880047402.01.T01:CDS
CGTGCAATAGCTGAGGAATC+TGG 0.388152 8:+85772226 MsG0880047402.01.T01:CDS
TCGTCAACTGGTCAGCAGTT+TGG 0.416686 8:+85772172 MsG0880047402.01.T01:CDS
ACTTACTTCATCGGCGATTA+CGG 0.416754 8:+85771462 MsG0880047402.01.T01:CDS
TTTCAAGATGGACGGGTTAA+GGG 0.427040 8:+85771539 MsG0880047402.01.T01:CDS
CCTCGTCACACTAGTGTAAT+CGG 0.434067 8:-85771106 None:intergenic
CGCATAAGAGTGCGTCGAAT+GGG 0.442769 8:-85771353 None:intergenic
AGTAAGTAGGGAGGGGAATG+TGG 0.451811 8:-85771446 None:intergenic
CCCCTCCCTACTTACTTCAT+CGG 0.458170 8:+85771453 MsG0880047402.01.T01:CDS
GAGTTCACGGCTTACATTGA+AGG 0.462415 8:+85771414 MsG0880047402.01.T01:CDS
CCGGTGAGTCAGGGAAGAAC+TGG 0.463578 8:-85771380 None:intergenic
CATCTTGAAACCGCTGTTGA+CGG 0.474782 8:-85771526 None:intergenic
CTACTCTGCGGCGACGTTAA+CGG 0.475821 8:+85771187 MsG0880047402.01.T01:CDS
GTAAGTAGGGAGGGGAATGT+GGG 0.480101 8:-85771445 None:intergenic
ATGAGACGCGCTTGAAGAGC+TGG 0.494827 8:-85771219 None:intergenic
AGTGGAAAATTCAACCTCTT+CGG 0.504983 8:+85771591 MsG0880047402.01.T01:CDS
GCTCTTCAAGCGCGTCTCAT+CGG 0.510049 8:+85771222 MsG0880047402.01.T01:CDS
CCAGTTCTTCCCTGACTCAC+CGG 0.510995 8:+85771380 MsG0880047402.01.T01:CDS
TCTGGTAGGAAATCGTCAAC+TGG 0.514162 8:+85772160 MsG0880047402.01.T01:CDS
GTGAACTCATCAAGCAGGTC+CGG 0.519767 8:-85771399 None:intergenic
ACGGCTTACATTGAAGGTGG+TGG 0.534088 8:+85771420 MsG0880047402.01.T01:CDS
TCGCCGCAGAGTAGGATTCT+CGG 0.534297 8:-85771178 None:intergenic
TAATCGCCGATGAAGTAAGT+AGG 0.538799 8:-85771459 None:intergenic
AGTGTGACGAGGGACTAATT+CGG 0.539186 8:+85771117 MsG0880047402.01.T01:five_prime_UTR
ACTAATTCGGTGACAGTCAA+AGG 0.542521 8:+85771130 MsG0880047402.01.T01:five_prime_UTR
GGACCTGCTTGATGAGTTCA+CGG 0.546806 8:+85771401 MsG0880047402.01.T01:CDS
CTGTCACCTATTTATCTGGT+AGG 0.553962 8:+85772146 MsG0880047402.01.T01:CDS
CGCAGAGTAGGATTCTCGGA+GGG 0.555090 8:-85771174 None:intergenic
ACAGCGGTTTCAAGATGGAC+GGG 0.557262 8:+85771532 MsG0880047402.01.T01:CDS
GCCGATGAAGTAAGTAGGGA+GGG 0.558974 8:-85771454 None:intergenic
TTCGACGCACTCTTATGCGT+TGG 0.562364 8:+85771357 MsG0880047402.01.T01:CDS
CGTCAACAGCGGTTTCAAGA+TGG 0.571560 8:+85771527 MsG0880047402.01.T01:CDS
ACGCATAAGAGTGCGTCGAA+TGG 0.573788 8:-85771354 None:intergenic
AATCGCCGATGAAGTAAGTA+GGG 0.583435 8:-85771458 None:intergenic
CGTTAACGTCGCCGCAGAGT+AGG 0.588177 8:-85771186 None:intergenic
AAGCCGTGAACTCATCAAGC+AGG 0.589514 8:-85771404 None:intergenic
GCTTGAAGAGCTGGTTAAGA+CGG 0.596724 8:-85771210 None:intergenic
AACAGCGGTTTCAAGATGGA+CGG 0.602058 8:+85771531 MsG0880047402.01.T01:CDS
ATTTAGGTGAACAAATCCGC+GGG 0.602633 8:+85771330 MsG0880047402.01.T01:intron
CGCCGATGAAGTAAGTAGGG+AGG 0.605300 8:-85771455 None:intergenic
CAAGCAGGTCCGGTGAGTCA+GGG 0.605903 8:-85771389 None:intergenic
GAGTGCGTCGAATGGGCCCG+CGG 0.623479 8:-85771346 None:intergenic
CCGATGAAGTAAGTAGGGAG+GGG 0.635190 8:-85771453 None:intergenic
TTCACGGCTTACATTGAAGG+TGG 0.635670 8:+85771417 MsG0880047402.01.T01:CDS
GCAGAGTAGGATTCTCGGAG+GGG 0.645174 8:-85771173 None:intergenic
CCGATTACACTAGTGTGACG+AGG 0.652558 8:+85771106 MsG0880047402.01.T01:five_prime_UTR
TGCTTTGCGTGCAATAGCTG+AGG 0.655152 8:+85772219 MsG0880047402.01.T01:CDS
AATTTAGGTGAACAAATCCG+CGG 0.661953 8:+85771329 MsG0880047402.01.T01:intron
TCTAAAGACTCCGTCAACAG+CGG 0.667979 8:+85771516 MsG0880047402.01.T01:CDS
AATTAATTCACATCAACACA+AGG 0.675286 8:-85772274 None:intergenic
GAAGCAAAAGCATACCGAAG+AGG 0.685233 8:-85771605 None:intergenic
CCGCAGAGTAGGATTCTCGG+AGG 0.686774 8:-85771175 None:intergenic
CGATTACACTAGTGTGACGA+GGG 0.688276 8:+85771107 MsG0880047402.01.T01:five_prime_UTR
CCTCCGAGAATCCTACTCTG+CGG 0.758957 8:+85771175 MsG0880047402.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACATATAATTACAAAAGATA+AGG - Chr8:85772118-85772137 None:intergenic 15.0%
!! ATTTAGAAATTACATGATTT+AGG + Chr8:85771998-85772017 MsG0880047402.01.T01:intron 15.0%
!! TTTAGAAATTACATGATTTA+GGG + Chr8:85771999-85772018 MsG0880047402.01.T01:intron 15.0%
!!! ATCTTTTGTAATTATATGTA+GGG + Chr8:85772119-85772138 MsG0880047402.01.T01:intron 15.0%
!!! TATCTTTTGTAATTATATGT+AGG + Chr8:85772118-85772137 MsG0880047402.01.T01:intron 15.0%
!! TGTGAAATAGAATTTAATAC+AGG - Chr8:85771630-85771649 None:intergenic 20.0%
! AATTCCCAATAAGTATTTCA+AGG - Chr8:85772085-85772104 None:intergenic 25.0%
! AGGTCCATCAAAATTTATTA+TGG + Chr8:85771150-85771169 MsG0880047402.01.T01:exon 25.0%
! ATTGCGTGAATATCTAATTA+TGG + Chr8:85771662-85771681 MsG0880047402.01.T01:intron 25.0%
! ATTTGTTCACCTAAATTGAA+AGG - Chr8:85771326-85771345 None:intergenic 25.0%
! GTGAATATCTAATTATGGAT+TGG + Chr8:85771667-85771686 MsG0880047402.01.T01:intron 25.0%
! TACTTATTGGGAATTGAATT+TGG + Chr8:85772090-85772109 MsG0880047402.01.T01:intron 25.0%
!! ATTAAGTTGTTTATCCAAAC+AGG - Chr8:85771715-85771734 None:intergenic 25.0%
!!! GATAATTTGTTTTGGTTGAA+AGG + Chr8:85771567-85771586 MsG0880047402.01.T01:CDS 25.0%
ATCAGCCTTGAAATACTTAT+TGG + Chr8:85772077-85772096 MsG0880047402.01.T01:intron 30.0%
CTATTGTATGTGATTGGTAA+TGG + Chr8:85772039-85772058 MsG0880047402.01.T01:intron 30.0%
GAATAAGCTGAAAACAACTT+TGG + Chr8:85771811-85771830 MsG0880047402.01.T01:intron 30.0%
GGAATCATAATCGACAAATA+AGG - Chr8:85771928-85771947 None:intergenic 30.0%
GTAATCGGTACTATTTGATT+TGG - Chr8:85771094-85771113 None:intergenic 30.0%
TCACTGAATCCTTTCAATTT+AGG + Chr8:85771314-85771333 MsG0880047402.01.T01:intron 30.0%
TCAGCCTTGAAATACTTATT+GGG + Chr8:85772078-85772097 MsG0880047402.01.T01:intron 30.0%
TCGACAAATAAGGATCTATT+TGG - Chr8:85771918-85771937 None:intergenic 30.0%
TGATCACTATTGTATGTGAT+TGG + Chr8:85772033-85772052 MsG0880047402.01.T01:intron 30.0%
TTATCTGTCACCTATTTATC+TGG + Chr8:85772142-85772161 MsG0880047402.01.T01:CDS 30.0%
! AAGCTATCATTTAGAGCTAA+GGG + Chr8:85771788-85771807 MsG0880047402.01.T01:intron 30.0%
! TAAGCTATCATTTAGAGCTA+AGG + Chr8:85771787-85771806 MsG0880047402.01.T01:intron 30.0%
!!! CATGATTTAGGGATTAGTTT+TGG + Chr8:85772010-85772029 MsG0880047402.01.T01:intron 30.0%
AAGTACTTGTGAGACTATTG+AGG - Chr8:85771865-85771884 None:intergenic 35.0%
AATTTAGGTGAACAAATCCG+CGG + Chr8:85771329-85771348 MsG0880047402.01.T01:intron 35.0%
AGTACTTGTGAGACTATTGA+GGG - Chr8:85771864-85771883 None:intergenic 35.0%
AGTGGAAAATTCAACCTCTT+CGG + Chr8:85771591-85771610 MsG0880047402.01.T01:CDS 35.0%
CGATTTCCTACCAGATAAAT+AGG - Chr8:85772155-85772174 None:intergenic 35.0%
GAAATATCTACTACAGACCA+CGG - Chr8:85771949-85771968 None:intergenic 35.0%
! AGCTATCATTTAGAGCTAAG+GGG + Chr8:85771789-85771808 MsG0880047402.01.T01:intron 35.0%
! ATTGAGGGAGCATATGAAAA+CGG - Chr8:85771849-85771868 None:intergenic 35.0%
! ATTTGTCGATTATGATTCCG+TGG + Chr8:85771929-85771948 MsG0880047402.01.T01:intron 35.0%
! GGGGCCATAATAAATTTTGA+TGG - Chr8:85771157-85771176 None:intergenic 35.0%
!! TTTTGATTGTAGGTCCTGTT+TGG + Chr8:85771698-85771717 MsG0880047402.01.T01:intron 35.0%
!!! GGAAGATGTGTTTTGATTGT+AGG + Chr8:85771688-85771707 MsG0880047402.01.T01:intron 35.0%
!!! GGGTTTGCGATAATTTGTTT+TGG + Chr8:85771559-85771578 MsG0880047402.01.T01:CDS 35.0%
AAGCCGCCAACAAAAATTTG+GGG - Chr8:85771497-85771516 None:intergenic 40.0%
AATCGCCGATGAAGTAAGTA+GGG - Chr8:85771461-85771480 None:intergenic 40.0%
ACTTACTTCATCGGCGATTA+CGG + Chr8:85771462-85771481 MsG0880047402.01.T01:CDS 40.0%
AGAAGCCGCCAACAAAAATT+TGG - Chr8:85771499-85771518 None:intergenic 40.0%
ATTTAGGTGAACAAATCCGC+GGG + Chr8:85771330-85771349 MsG0880047402.01.T01:intron 40.0%
CTGTCACCTATTTATCTGGT+AGG + Chr8:85772146-85772165 MsG0880047402.01.T01:CDS 40.0%
GAAGCCGCCAACAAAAATTT+GGG - Chr8:85771498-85771517 None:intergenic 40.0%
TAATCGCCGATGAAGTAAGT+AGG - Chr8:85771462-85771481 None:intergenic 40.0%
TATTTCAAGGCTGATATGCC+AGG - Chr8:85772072-85772091 None:intergenic 40.0%
! ACTAATTCGGTGACAGTCAA+AGG + Chr8:85771130-85771149 MsG0880047402.01.T01:five_prime_UTR 40.0%
!! ATTGGTAATGGATTGCTTCC+TGG + Chr8:85772051-85772070 MsG0880047402.01.T01:intron 40.0%
!! TTTCAAGATGGACGGGTTAA+GGG + Chr8:85771539-85771558 MsG0880047402.01.T01:CDS 40.0%
!!! TTGTTTTGGTTGAAAGGCAG+TGG + Chr8:85771573-85771592 MsG0880047402.01.T01:CDS 40.0%
AACAGCGGTTTCAAGATGGA+CGG + Chr8:85771531-85771550 MsG0880047402.01.T01:CDS 45.0%
AGCCGCCAACAAAAATTTGG+GGG - Chr8:85771496-85771515 None:intergenic 45.0%
AGTGTGACGAGGGACTAATT+CGG + Chr8:85771117-85771136 MsG0880047402.01.T01:five_prime_UTR 45.0%
CATCTTGAAACCGCTGTTGA+CGG - Chr8:85771529-85771548 None:intergenic 45.0%
CCTCGTCACACTAGTGTAAT+CGG - Chr8:85771109-85771128 None:intergenic 45.0%
CGATTACACTAGTGTGACGA+GGG + Chr8:85771107-85771126 MsG0880047402.01.T01:five_prime_UTR 45.0%
GAGTTCACGGCTTACATTGA+AGG + Chr8:85771414-85771433 MsG0880047402.01.T01:CDS 45.0%
GCTTGAAGAGCTGGTTAAGA+CGG - Chr8:85771213-85771232 None:intergenic 45.0%
TCTAAAGACTCCGTCAACAG+CGG + Chr8:85771516-85771535 MsG0880047402.01.T01:CDS 45.0%
TCTCTCTCTCTCTCTCTCTA+GGG + Chr8:85771257-85771276 MsG0880047402.01.T01:intron 45.0%
TCTGGTAGGAAATCGTCAAC+TGG + Chr8:85772160-85772179 MsG0880047402.01.T01:CDS 45.0%
TTCACGGCTTACATTGAAGG+TGG + Chr8:85771417-85771436 MsG0880047402.01.T01:CDS 45.0%
! GAAGCAAAAGCATACCGAAG+AGG - Chr8:85771608-85771627 None:intergenic 45.0%
!! GTTTCAAGATGGACGGGTTA+AGG + Chr8:85771538-85771557 MsG0880047402.01.T01:CDS 45.0%
AAGCCGTGAACTCATCAAGC+AGG - Chr8:85771407-85771426 None:intergenic 50.0%
ACAGCGGTTTCAAGATGGAC+GGG + Chr8:85771532-85771551 MsG0880047402.01.T01:CDS 50.0%
ACGGCTTACATTGAAGGTGG+TGG + Chr8:85771420-85771439 MsG0880047402.01.T01:CDS 50.0%
AGTAAGTAGGGAGGGGAATG+TGG - Chr8:85771449-85771468 None:intergenic 50.0%
CCCCTCCCTACTTACTTCAT+CGG + Chr8:85771453-85771472 MsG0880047402.01.T01:CDS 50.0%
CCGATGAAGTAAGTAGGGAG+GGG - Chr8:85771456-85771475 None:intergenic 50.0%
CCGATTACACTAGTGTGACG+AGG + Chr8:85771106-85771125 MsG0880047402.01.T01:five_prime_UTR 50.0%
CGCCAACAAAAATTTGGGGG+CGG - Chr8:85771493-85771512 None:intergenic 50.0%
CGTCAACAGCGGTTTCAAGA+TGG + Chr8:85771527-85771546 MsG0880047402.01.T01:CDS 50.0%
CGTGCAATAGCTGAGGAATC+TGG + Chr8:85772226-85772245 MsG0880047402.01.T01:CDS 50.0%
CTCTCTCTCTCTCTCTCTCT+AGG + Chr8:85771254-85771273 MsG0880047402.01.T01:intron 50.0%
GCCGATGAAGTAAGTAGGGA+GGG - Chr8:85771457-85771476 None:intergenic 50.0%
GGACCTGCTTGATGAGTTCA+CGG + Chr8:85771401-85771420 MsG0880047402.01.T01:CDS 50.0%
GTAAGTAGGGAGGGGAATGT+GGG - Chr8:85771448-85771467 None:intergenic 50.0%
GTGAACTCATCAAGCAGGTC+CGG - Chr8:85771402-85771421 None:intergenic 50.0%
TCGTCAACTGGTCAGCAGTT+TGG + Chr8:85772172-85772191 MsG0880047402.01.T01:CDS 50.0%
TGCTTTGCGTGCAATAGCTG+AGG + Chr8:85772219-85772238 MsG0880047402.01.T01:CDS 50.0%
TTCGACGCACTCTTATGCGT+TGG + Chr8:85771357-85771376 MsG0880047402.01.T01:CDS 50.0%
! ACGCATAAGAGTGCGTCGAA+TGG - Chr8:85771357-85771376 None:intergenic 50.0%
! CGCATAAGAGTGCGTCGAAT+GGG - Chr8:85771356-85771375 None:intergenic 50.0%
! CGCCCCCAAATTTTTGTTGG+CGG + Chr8:85771491-85771510 MsG0880047402.01.T01:CDS 50.0%
ATGAGACGCGCTTGAAGAGC+TGG - Chr8:85771222-85771241 None:intergenic 55.0%
CCAGTTCTTCCCTGACTCAC+CGG + Chr8:85771380-85771399 MsG0880047402.01.T01:CDS 55.0%
CCTCCGAGAATCCTACTCTG+CGG + Chr8:85771175-85771194 MsG0880047402.01.T01:CDS 55.0%
CGCAGAGTAGGATTCTCGGA+GGG - Chr8:85771177-85771196 None:intergenic 55.0%
CGCCGATGAAGTAAGTAGGG+AGG - Chr8:85771458-85771477 None:intergenic 55.0%
CTACTCTGCGGCGACGTTAA+CGG + Chr8:85771187-85771206 MsG0880047402.01.T01:CDS 55.0%
GCAGAGTAGGATTCTCGGAG+GGG - Chr8:85771176-85771195 None:intergenic 55.0%
GCTCTTCAAGCGCGTCTCAT+CGG + Chr8:85771222-85771241 MsG0880047402.01.T01:CDS 55.0%
TCGCCGCAGAGTAGGATTCT+CGG - Chr8:85771181-85771200 None:intergenic 55.0%
! CGCCGCCCCCAAATTTTTGT+TGG + Chr8:85771488-85771507 MsG0880047402.01.T01:CDS 55.0%
CAAGCAGGTCCGGTGAGTCA+GGG - Chr8:85771392-85771411 None:intergenic 60.0%
CCGCAGAGTAGGATTCTCGG+AGG - Chr8:85771178-85771197 None:intergenic 60.0%
CCGGTGAGTCAGGGAAGAAC+TGG - Chr8:85771383-85771402 None:intergenic 60.0%
CGTTAACGTCGCCGCAGAGT+AGG - Chr8:85771189-85771208 None:intergenic 60.0%
TCAAGCAGGTCCGGTGAGTC+AGG - Chr8:85771393-85771412 None:intergenic 60.0%
GAGTGCGTCGAATGGGCCCG+CGG - Chr8:85771349-85771368 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr8 gene 85771088 85772294 85771088 ID=MsG0880047402.01;Name=MsG0880047402.01
Chr8 mRNA 85771088 85772294 85771088 ID=MsG0880047402.01.T01;Parent=MsG0880047402.01;Name=MsG0880047402.01.T01;_AED=0.50;_eAED=0.50;_QI=81|1|0.66|1|0.5|0.66|3|0|168
Chr8 exon 85771088 85771243 85771088 ID=MsG0880047402.01.T01:exon:15514;Parent=MsG0880047402.01.T01
Chr8 exon 85771336 85771612 85771336 ID=MsG0880047402.01.T01:exon:15515;Parent=MsG0880047402.01.T01
Chr8 exon 85772140 85772294 85772140 ID=MsG0880047402.01.T01:exon:15516;Parent=MsG0880047402.01.T01
Chr8 five_prime_UTR 85771088 85771168 85771088 ID=MsG0880047402.01.T01:five_prime_utr;Parent=MsG0880047402.01.T01
Chr8 CDS 85771169 85771243 85771169 ID=MsG0880047402.01.T01:cds;Parent=MsG0880047402.01.T01
Chr8 CDS 85771336 85771612 85771336 ID=MsG0880047402.01.T01:cds;Parent=MsG0880047402.01.T01
Chr8 CDS 85772140 85772294 85772140 ID=MsG0880047402.01.T01:cds;Parent=MsG0880047402.01.T01
Gene Sequence

>MsG0880047402.01.T01

ATGGCCCCTCCGAGAATCCTACTCTGCGGCGACGTTAACGGCCGTCTTAACCAGCTCTTCAAGCGCGTCTCATCGGTGAACAAATCCGCGGGCCCATTCGACGCACTCTTATGCGTTGGCCAGTTCTTCCCTGACTCACCGGACCTGCTTGATGAGTTCACGGCTTACATTGAAGGTGGTGGATCCCACATTCCCCTCCCTACTTACTTCATCGGCGATTACGGCGTCGCCGCCCCCAAATTTTTGTTGGCGGCTTCTAAAGACTCCGTCAACAGCGGTTTCAAGATGGACGGGTTAAGGGTTTGCGATAATTTGTTTTGGTTGAAAGGCAGTGGAAAATTCAACCTCTTCGGGTTATCTGTCACCTATTTATCTGGTAGGAAATCGTCAACTGGTCAGCAGTTTGGAACTTACAGTGAAGACGATGTTGATGCTTTGCGTGCAATAGCTGAGGAATCTGGAGTTGTTGATCTGTTCTTGACATATCCTTGTGTTGATGTGAATTAA
Protein sequence

>MsG0880047402.01.T01

MAPPRILLCGDVNGRLNQLFKRVSSVNKSAGPFDALLCVGQFFPDSPDLLDEFTAYIEGGGSHIPLPTYFIGDYGVAAPKFLLAASKDSVNSGFKMDGLRVCDNLFWLKGSGKFNLFGLSVTYLSGRKSSTGQQFGTYSEDDVDALRAIAEESGVVDLFLTYPCVDVN*