AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180003651.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180003651.01.T01 MTR_1g067490 95.000 120 6 0 8 127 3 122 3.71e-76 221
MsG0180003651.01.T01 MTR_1g115545 90.909 121 11 0 7 127 1 121 1.18e-72 213
MsG0180003651.01.T01 MTR_4g062410 90.833 120 11 0 8 127 4 123 3.27e-72 212
MsG0180003651.01.T01 MTR_4g072410 85.124 121 18 0 7 127 1 121 4.08e-67 199
MsG0180003651.01.T01 MTR_7g080090 84.167 120 19 0 8 127 4 123 4.86e-65 194
MsG0180003651.01.T01 MTR_1g105880 72.414 87 13 1 18 104 5 80 2.90e-34 114
MsG0180003651.01.T01 MTR_5g045540 85.714 35 5 0 71 105 2 36 1.35e-13 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180003651.01.T01 AT5G02610 87.395 119 15 0 8 126 4 122 2.72e-68 202
MsG0180003651.01.T01 AT3G09500 87.395 119 15 0 8 126 4 122 5.09e-68 201
MsG0180003651.01.T01 AT2G39390 87.395 119 15 0 8 126 4 122 6.55e-68 201
MsG0180003651.01.T01 AT3G55170 84.874 119 18 0 8 126 4 122 5.81e-66 196
MsG0180003651.01.T01 AT3G55170 84.874 119 18 0 8 126 4 122 5.81e-66 196
MsG0180003651.01.T01 AT3G55170 84.874 119 18 0 8 126 4 122 5.81e-66 196
MsG0180003651.01.T01 AT5G02610 73.239 142 15 1 8 126 4 145 1.89e-62 188
MsG0180003651.01.T01 AT3G55170 84.375 96 15 0 8 103 4 99 4.65e-50 155
MsG0180003651.01.T01 AT3G55170 84.375 96 15 0 8 103 4 99 4.65e-50 155

Find 25 sgRNAs with CRISPR-Local

Find 125 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTTCAATATTTCAAATAAC+TGG 0.271293 1:+65805495 None:intergenic
CTGATAGCACGGGTCTTCTT+AGG 0.307833 1:+65806934 None:intergenic
CTGGTTCAGCAAATCAGCTT+TGG 0.322482 1:+65807239 None:intergenic
TTGATTGCATACTTTCTTAG+TGG 0.358328 1:+65805551 None:intergenic
GCTTACTTAATTTGTTTGTC+TGG 0.376358 1:-65805468 MsG0180003651.01.T01:three_prime_UTR
TGGTTCAGCAAATCAGCTTT+GGG 0.386643 1:+65807240 None:intergenic
AGGTGCACCGCCGGTGACTT+TGG 0.448506 1:+65807176 None:intergenic
ATTAAACCTGGTGTTTGGTA+AGG 0.478429 1:+65806905 None:intergenic
CCGCCTTCAGATCCTTCAGC+TGG 0.492136 1:+65807220 None:intergenic
CTTCGAGTCGCCAAAGTCAC+CGG 0.499663 1:-65807186 MsG0180003651.01.T01:CDS
GAGCTTGTTAGGTGCACCGC+CGG 0.541755 1:+65807167 None:intergenic
GAATTAAGGTGTTCGAGTTG+AGG 0.547821 1:-65807269 MsG0180003651.01.T01:intron
ATGCAATCAAAGCTGAGGCT+AGG 0.567801 1:-65805538 MsG0180003651.01.T01:CDS
TGATTTGCTGAACCAGCTGA+AGG 0.570604 1:-65807232 MsG0180003651.01.T01:CDS
GACAGAGCGAGAGAAGAAGA+AGG 0.577238 1:-65805585 MsG0180003651.01.T01:CDS
ATCTATCTTGAGACTTCCGA+AGG 0.580195 1:-65805373 MsG0180003651.01.T01:three_prime_UTR
GAACCAGCTGAAGGATCTGA+AGG 0.580944 1:-65807223 MsG0180003651.01.T01:CDS
TAAGGCGTCTTCTGATAGCA+CGG 0.582904 1:+65806923 None:intergenic
TTCTTAGGACGAAGATCAAG+TGG 0.602701 1:+65806949 None:intergenic
AAGGCGTCTTCTGATAGCAC+GGG 0.605672 1:+65806924 None:intergenic
AAGACGCCTTACCAAACACC+AGG 0.624051 1:-65806911 MsG0180003651.01.T01:intron
AAAGTATGCAATCAAAGCTG+AGG 0.625980 1:-65805543 MsG0180003651.01.T01:CDS
CGAGTCGCCAAAGTCACCGG+CGG 0.675842 1:-65807183 MsG0180003651.01.T01:CDS
CCAGCTGAAGGATCTGAAGG+CGG 0.695519 1:-65807220 MsG0180003651.01.T01:CDS
GCAGAAAGCTGCGCTCAGAG+AGG 0.696591 1:-65806995 MsG0180003651.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATATTTGTTCATTCAAAA+TGG - Chr1:65806333-65806352 MsG0180003651.01.T01:intron 15.0%
!! TATGTAATTCTTATAGAATT+TGG - Chr1:65806035-65806054 MsG0180003651.01.T01:intron 15.0%
!! TGATTAGATAGTTATTATAA+TGG - Chr1:65805917-65805936 MsG0180003651.01.T01:intron 15.0%
!! TTAAGTAAAAAAATTAAACC+TGG + Chr1:65805834-65805853 None:intergenic 15.0%
!!! ATAATTTTAACATAAACCTT+CGG + Chr1:65807370-65807389 None:intergenic 15.0%
!!! ATTATGTATTGTTTACATTT+TGG + Chr1:65805584-65805603 None:intergenic 15.0%
!!! ATTTTGAATGAACAAATATA+TGG + Chr1:65806334-65806353 None:intergenic 15.0%
!!! TGTTTATCTATAAATTTTAC+TGG - Chr1:65806307-65806326 MsG0180003651.01.T01:intron 15.0%
!!! TTTTAAACAAAAACATGAAA+TGG + Chr1:65806798-65806817 None:intergenic 15.0%
!!! TTTTACTTAATTTGTTTGTT+TGG - Chr1:65805844-65805863 MsG0180003651.01.T01:intron 15.0%
!! AAAATTGTAATCAAATACGT+TGG - Chr1:65806591-65806610 MsG0180003651.01.T01:intron 20.0%
!! AGTTCAATATTTCAAATAAC+TGG + Chr1:65807232-65807251 None:intergenic 20.0%
!! GAAAAACACAAACAAAATAT+AGG + Chr1:65806675-65806694 None:intergenic 20.0%
!!! AATACATAATCGCTTTTATA+TGG - Chr1:65805594-65805613 MsG0180003651.01.T01:CDS 20.0%
!!! ACTAAGGTTTTCAAATAAAA+AGG + Chr1:65807011-65807030 None:intergenic 20.0%
! AAAAAATTAAACCTGGTGTT+TGG + Chr1:65805827-65805846 None:intergenic 25.0%
! ATAATTTAGCTAACATTGAG+AGG - Chr1:65806176-65806195 MsG0180003651.01.T01:intron 25.0%
! TAAATAAAATGACGAAGCAT+AGG + Chr1:65806479-65806498 None:intergenic 25.0%
! TAGACAAAAATTGAATGCAT+AGG + Chr1:65807290-65807309 None:intergenic 25.0%
!! ATAACTATAATTTTCCGATG+TGG + Chr1:65806092-65806111 None:intergenic 25.0%
!! GTTTAAAAGTACAATTTCCA+GGG - Chr1:65806810-65806829 MsG0180003651.01.T01:intron 25.0%
!! TAAACCAATTAACTGACTTT+GGG + Chr1:65806285-65806304 None:intergenic 25.0%
!! TAACTATAATTTTCCGATGT+GGG + Chr1:65806091-65806110 None:intergenic 25.0%
!! TGTTTAAAAGTACAATTTCC+AGG - Chr1:65806809-65806828 MsG0180003651.01.T01:intron 25.0%
!! TTTAAAAGTACAATTTCCAG+GGG - Chr1:65806811-65806830 MsG0180003651.01.T01:intron 25.0%
!!! TAATGGTGTTTTTGTTTGTT+TGG - Chr1:65805646-65805665 MsG0180003651.01.T01:intron 25.0%
!!! TGCTTCGTCATTTTATTTAT+AGG - Chr1:65806480-65806499 MsG0180003651.01.T01:intron 25.0%
AAATATATGCACGATTACTG+TGG - Chr1:65806763-65806782 MsG0180003651.01.T01:intron 30.0%
AATCATTGCTACAACACTAT+TGG + Chr1:65805902-65805921 None:intergenic 30.0%
AATTCTCACTTCAAATGCAA+TGG + Chr1:65805440-65805459 None:intergenic 30.0%
AGGGATTTAAACATTGGTAA+TGG - Chr1:65806549-65806568 MsG0180003651.01.T01:intron 30.0%
ATATATACACTGTAGCAGTT+AGG - Chr1:65806835-65806854 MsG0180003651.01.T01:intron 30.0%
ATTCTACATTGTAGCAGTTA+GGG - Chr1:65806530-65806549 MsG0180003651.01.T01:intron 30.0%
GTGTTCAAGTCAATTTACAA+GGG + Chr1:65807056-65807075 None:intergenic 30.0%
GTTAGCTAAATTATCGATGT+GGG + Chr1:65806170-65806189 None:intergenic 30.0%
TATATACACTGTAGCAGTTA+GGG - Chr1:65806836-65806855 MsG0180003651.01.T01:intron 30.0%
TATTCTACATTGTAGCAGTT+AGG - Chr1:65806529-65806548 MsG0180003651.01.T01:intron 30.0%
TCATAGAGATATAACAAGTG+TGG - Chr1:65806111-65806130 MsG0180003651.01.T01:intron 30.0%
TGCAAATTCTTGAAGAATTC+TGG - Chr1:65806376-65806395 MsG0180003651.01.T01:intron 30.0%
TGTTAGCTAAATTATCGATG+TGG + Chr1:65806171-65806190 None:intergenic 30.0%
TTACAAGGGAAACATCAAAT+GGG + Chr1:65807042-65807061 None:intergenic 30.0%
TTATATGGAAGCTGCTTATA+TGG - Chr1:65805609-65805628 MsG0180003651.01.T01:intron 30.0%
TTGATTGCATACTTTCTTAG+TGG + Chr1:65807176-65807195 None:intergenic 30.0%
TTTACAAGGGAAACATCAAA+TGG + Chr1:65807043-65807062 None:intergenic 30.0%
! AAACCAATTAACTGACTTTG+GGG + Chr1:65806284-65806303 None:intergenic 30.0%
! CTAAACCAATTAACTGACTT+TGG + Chr1:65806286-65806305 None:intergenic 30.0%
! TCGTATCAGTATCCTATTTT+GGG - Chr1:65806708-65806727 MsG0180003651.01.T01:intron 30.0%
! TGCATTTGAAGTGAGAATTA+AGG - Chr1:65805441-65805460 MsG0180003651.01.T01:three_prime_UTR 30.0%
! TTCGTATCAGTATCCTATTT+TGG - Chr1:65806707-65806726 MsG0180003651.01.T01:intron 30.0%
!! GCTTACTTAATTTGTTTGTC+TGG - Chr1:65807256-65807275 MsG0180003651.01.T01:CDS 30.0%
!! TTGTAATTTGCTTCTGTATG+TGG - Chr1:65805993-65806012 MsG0180003651.01.T01:intron 30.0%
AAAGTATGCAATCAAAGCTG+AGG - Chr1:65807181-65807200 MsG0180003651.01.T01:CDS 35.0%
AGCTATCCAATGTGTATCAA+AGG + Chr1:65806235-65806254 None:intergenic 35.0%
ATTAAACCTGGTGTTTGGTA+AGG + Chr1:65805822-65805841 None:intergenic 35.0%
ATTTGCTTCTGTATGTGGTA+TGG - Chr1:65805998-65806017 MsG0180003651.01.T01:intron 35.0%
CAGAAAATTGTAGTCAGATG+CGG - Chr1:65806901-65806920 MsG0180003651.01.T01:intron 35.0%
CGTGTTCAAGTCAATTTACA+AGG + Chr1:65807057-65807076 None:intergenic 35.0%
GCAGTTAGGGATTTAAACAT+TGG - Chr1:65806543-65806562 MsG0180003651.01.T01:intron 35.0%
GTAATCAAATACGTTGGATG+TGG - Chr1:65806597-65806616 MsG0180003651.01.T01:intron 35.0%
GTTATCTCTCCAACAACAAT+GGG + Chr1:65806950-65806969 None:intergenic 35.0%
TAACGAAAACTCTGATGTTG+TGG - Chr1:65806966-65806985 MsG0180003651.01.T01:CDS 35.0%
TGTTGTAGTCATATTGCAGT+CGG - Chr1:65806623-65806642 MsG0180003651.01.T01:intron 35.0%
TGTTTGTTTGGTTGTGTTTC+TGG - Chr1:65805856-65805875 MsG0180003651.01.T01:intron 35.0%
TTCTGTATGTGGTATGGATT+CGG - Chr1:65806004-65806023 MsG0180003651.01.T01:intron 35.0%
! AACAATGGGACTGCAATTTT+AGG + Chr1:65806936-65806955 None:intergenic 35.0%
! ATAGAGGTAATGGTTGTGTA+GGG - Chr1:65806865-65806884 MsG0180003651.01.T01:intron 35.0%
! GTTCATTCAAAATGGTTTGC+TGG - Chr1:65806341-65806360 MsG0180003651.01.T01:intron 35.0%
! GTTTTTACAGCAAAGTTGTG+AGG - Chr1:65805668-65805687 MsG0180003651.01.T01:intron 35.0%
!! TACATTTTGGAGAGCTTGTT+AGG + Chr1:65805571-65805590 None:intergenic 35.0%
!! TGGTAATCGCGTTTTGTTAA+TGG - Chr1:65805629-65805648 MsG0180003651.01.T01:intron 35.0%
!!! AGGGTTTTAGATAGAGGTAA+TGG - Chr1:65806855-65806874 MsG0180003651.01.T01:intron 35.0%
AATTGCAGTCCCATTGTTGT+TGG - Chr1:65806938-65806957 MsG0180003651.01.T01:CDS 40.0%
AGATGATGCATAAATACCGC+CGG + Chr1:65807086-65807105 None:intergenic 40.0%
ATCCAATGTGTATCAAAGGC+TGG + Chr1:65806231-65806250 None:intergenic 40.0%
ATCTATCTTGAGACTTCCGA+AGG - Chr1:65807351-65807370 MsG0180003651.01.T01:intron 40.0%
ATGGTTGTGTCGCAATTATG+TGG - Chr1:65806568-65806587 MsG0180003651.01.T01:intron 40.0%
ATTCGCAGAAGTAACGATAC+CGG - Chr1:65806406-65806425 MsG0180003651.01.T01:intron 40.0%
CAAAATATAGGCTGCAGCAT+CGG + Chr1:65806663-65806682 None:intergenic 40.0%
CAAATGGGTGAATGCTACTA+AGG + Chr1:65807027-65807046 None:intergenic 40.0%
CAACCCCAAAGTCAGTTAAT+TGG - Chr1:65806278-65806297 MsG0180003651.01.T01:intron 40.0%
CACATGCTGAAACCCAAAAT+AGG + Chr1:65806723-65806742 None:intergenic 40.0%
CGTTATCTCTCCAACAACAA+TGG + Chr1:65806951-65806970 None:intergenic 40.0%
CTACAGTGTATATATACCCC+TGG + Chr1:65806830-65806849 None:intergenic 40.0%
TACAAATTAGCAGCCCACAT+CGG - Chr1:65806075-65806094 MsG0180003651.01.T01:intron 40.0%
TCATCTTACCAGCCTTTGTT+TGG - Chr1:65807100-65807119 MsG0180003651.01.T01:intron 40.0%
TCTGTATGTGGTATGGATTC+GGG - Chr1:65806005-65806024 MsG0180003651.01.T01:intron 40.0%
TGGTTCAGCAAATCAGCTTT+GGG + Chr1:65805487-65805506 None:intergenic 40.0%
TTCTTAGGACGAAGATCAAG+TGG + Chr1:65805778-65805797 None:intergenic 40.0%
! GATAGAGGTAATGGTTGTGT+AGG - Chr1:65806864-65806883 MsG0180003651.01.T01:intron 40.0%
!! CACATTGGATAGCTTTGAAC+TGG - Chr1:65806241-65806260 MsG0180003651.01.T01:intron 40.0%
!! GAATTAAGGTGTTCGAGTTG+AGG - Chr1:65805455-65805474 MsG0180003651.01.T01:three_prime_UTR 40.0%
!! TTGGATAGCTTTGAACTGGT+TGG - Chr1:65806245-65806264 MsG0180003651.01.T01:intron 40.0%
!!! GCAGTTAGGGTTTTAGATAG+AGG - Chr1:65806849-65806868 MsG0180003651.01.T01:intron 40.0%
ATGCAATCAAAGCTGAGGCT+AGG - Chr1:65807186-65807205 MsG0180003651.01.T01:CDS 45.0%
CTGGTTCAGCAAATCAGCTT+TGG + Chr1:65805488-65805507 None:intergenic 45.0%
GACCAGCCTTTGATACACAT+TGG - Chr1:65806226-65806245 MsG0180003651.01.T01:intron 45.0%
GATGATGCATAAATACCGCC+GGG + Chr1:65807085-65807104 None:intergenic 45.0%
GCAGATTGGTACTCATGTAC+CGG + Chr1:65806428-65806447 None:intergenic 45.0%
GGTACATGAGTACCAATCTG+CGG - Chr1:65806427-65806446 MsG0180003651.01.T01:intron 45.0%
TGACTTGAACACGTGTTTCC+CGG - Chr1:65807064-65807083 MsG0180003651.01.T01:intron 45.0%
! TAAGGCGTCTTCTGATAGCA+CGG + Chr1:65805804-65805823 None:intergenic 45.0%
!! TGACTTTGGGGTTGTCATCA+CGG + Chr1:65806272-65806291 None:intergenic 45.0%
!! TGATTTGCTGAACCAGCTGA+AGG - Chr1:65805492-65805511 MsG0180003651.01.T01:three_prime_UTR 45.0%
AAGACGCCTTACCAAACACC+AGG - Chr1:65805813-65805832 MsG0180003651.01.T01:intron 50.0%
ACAGAATTCGCAGGACCACT+TGG + Chr1:65806455-65806474 None:intergenic 50.0%
ACGATGCCTGCACCAAACAA+AGG + Chr1:65807115-65807134 None:intergenic 50.0%
AGCATAGGCACAGAATTCGC+AGG + Chr1:65806464-65806483 None:intergenic 50.0%
CAGAATTCGCAGGACCACTT+GGG + Chr1:65806454-65806473 None:intergenic 50.0%
CTGATAGCACGGGTCTTCTT+AGG + Chr1:65805793-65805812 None:intergenic 50.0%
GAACCAGCTGAAGGATCTGA+AGG - Chr1:65805501-65805520 MsG0180003651.01.T01:three_prime_UTR 50.0%
GACAGAGCGAGAGAAGAAGA+AGG - Chr1:65807139-65807158 MsG0180003651.01.T01:intron 50.0%
TGTGGCGCAGATAGTTGTCA+TGG - Chr1:65806984-65807003 MsG0180003651.01.T01:CDS 50.0%
! AAGGCGTCTTCTGATAGCAC+GGG + Chr1:65805803-65805822 None:intergenic 50.0%
!! TACCAGCCTTTGTTTGGTGC+AGG - Chr1:65807106-65807125 MsG0180003651.01.T01:intron 50.0%
CCAGCTGAAGGATCTGAAGG+CGG - Chr1:65805504-65805523 MsG0180003651.01.T01:three_prime_UTR 55.0%
CTTCGAGTCGCCAAAGTCAC+CGG - Chr1:65805538-65805557 MsG0180003651.01.T01:CDS 55.0%
CTTGAACACGTGTTTCCCGG+CGG - Chr1:65807067-65807086 MsG0180003651.01.T01:intron 55.0%
TACCAATCTGCGGACCCAAG+TGG - Chr1:65806437-65806456 MsG0180003651.01.T01:intron 55.0%
TGCCTGCACCAAACAAAGGC+TGG + Chr1:65807111-65807130 None:intergenic 55.0%
CCGCCTTCAGATCCTTCAGC+TGG + Chr1:65805507-65805526 None:intergenic 60.0%
GACCACTTGGGTCCGCAGAT+TGG + Chr1:65806442-65806461 None:intergenic 60.0%
GCAGAAAGCTGCGCTCAGAG+AGG - Chr1:65805729-65805748 MsG0180003651.01.T01:intron 60.0%
!! GAGCTTGTTAGGTGCACCGC+CGG + Chr1:65805560-65805579 None:intergenic 60.0%
AGGTGCACCGCCGGTGACTT+TGG + Chr1:65805551-65805570 None:intergenic 65.0%
CGAGTCGCCAAAGTCACCGG+CGG - Chr1:65805541-65805560 MsG0180003651.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr1 gene 65805350 65807396 65805350 ID=MsG0180003651.01;Name=MsG0180003651.01
Chr1 mRNA 65805350 65807396 65805350 ID=MsG0180003651.01.T01;Parent=MsG0180003651.01;Name=MsG0180003651.01.T01;_AED=0.38;_eAED=0.41;_QI=0|0.66|0.5|1|1|1|4|176|133
Chr1 exon 65805350 65805618 65805350 ID=MsG0180003651.01.T01:exon:50781;Parent=MsG0180003651.01.T01
Chr1 exon 65806912 65807068 65806912 ID=MsG0180003651.01.T01:exon:50780;Parent=MsG0180003651.01.T01
Chr1 exon 65807159 65807283 65807159 ID=MsG0180003651.01.T01:exon:50779;Parent=MsG0180003651.01.T01
Chr1 exon 65807370 65807396 65807370 ID=MsG0180003651.01.T01:exon:50778;Parent=MsG0180003651.01.T01
Chr1 CDS 65807370 65807396 65807370 ID=MsG0180003651.01.T01:cds;Parent=MsG0180003651.01.T01
Chr1 CDS 65807159 65807283 65807159 ID=MsG0180003651.01.T01:cds;Parent=MsG0180003651.01.T01
Chr1 CDS 65806912 65807068 65806912 ID=MsG0180003651.01.T01:cds;Parent=MsG0180003651.01.T01
Chr1 CDS 65805526 65805618 65805526 ID=MsG0180003651.01.T01:cds;Parent=MsG0180003651.01.T01
Chr1 three_prime_UTR 65805350 65805525 65805350 ID=MsG0180003651.01.T01:three_prime_utr;Parent=MsG0180003651.01.T01
Gene Sequence

>MsG0180003651.01.T01

ATGGGTAAGAATGTGAATTTAGTTTCAGTGTTCGAGTTGAGGAACAAACCCAAAGCTGATTTGCTGAACCAGCTGAAGGATCTGAAGGCGGAGCTCGCTTTGCTTCGAGTCGCCAAAGTCACCGGCGGTGCACCTAACAAGCTCTCCAAAATCAAAGTTGTGAGGCTTTCAATTGCACAAGTGTTGACAGTGATTTCACAGAAGCAGAAAGCTGCGCTCAGAGAGGTTTACAAAAATAAGAAGTATTTACCACTTGATCTTCGTCCTAAGAAGACCCGTGCTATCAGAAGACGCCTTACCAAACACCAGGCATCGTTGAAGACAGAGCGAGAGAAGAAGAAGGAGATATACTTTCCACTAAGAAAGTATGCAATCAAAGCTGAGGCTAGGATTGCTTTCTAG

Protein sequence

>MsG0180003651.01.T01

MGKNVNLVSVFELRNKPKADLLNQLKDLKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQKQKAALREVYKNKKYLPLDLRPKKTRAIRRRLTKHQASLKTEREKKKEIYFPLRKYAIKAEARIAF*