AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880046967.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046967.01.T01 MTR_4g118340 97.959 98 2 0 7 104 302 399 1.47e-62 195
MsG0880046967.01.T01 MTR_2g020970 59.000 100 38 2 7 104 303 401 3.72e-27 103
MsG0880046967.01.T01 MTR_2g020970 79.545 44 9 0 7 50 303 346 8.97e-17 73.9
MsG0880046967.01.T01 MTR_6g087000 65.854 41 14 0 8 48 344 384 2.98e-13 64.3
MsG0880046967.01.T01 MTR_6g087000 65.854 41 14 0 8 48 344 384 3.57e-13 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046967.01.T01 AT3G06270 79.070 43 9 0 8 50 305 347 7.71e-16 71.6
MsG0880046967.01.T01 AT2G20050 55.357 56 21 1 8 59 360 415 2.05e-13 65.1
MsG0880046967.01.T01 AT2G20050 55.357 56 21 1 8 59 360 415 2.07e-13 65.1

Find 19 sgRNAs with CRISPR-Local

Find 91 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTATCATTGTCCAGATTAA+AGG 0.182707 8:+80498283 MsG0880046967.01.T01:CDS
GCAATTATGTTAATGGTTTA+TGG 0.200142 8:+80497601 None:intergenic
GTTAATGGTTTATGGTTATT+CGG 0.312990 8:+80497609 None:intergenic
TATTAGAGAGTCCTTTAATC+TGG 0.331443 8:-80498294 None:intergenic
ACATTGTAGTCAAGCACATC+TGG 0.378787 8:+80498821 MsG0880046967.01.T01:intron
CTGAAGAGTCATATAAACTA+TGG 0.438665 8:+80498227 MsG0880046967.01.T01:CDS
TCAACTGATCTTTGACTGGC+AGG 0.446192 8:-80498969 None:intergenic
AATAGCCGCACATGCATCAC+GGG 0.490286 8:-80498203 None:intergenic
TTATTCAACTGATCTTTGAC+TGG 0.530616 8:-80498973 None:intergenic
CATCTCAGAAGTTCCTGTCC+TGG 0.530672 8:-80498885 None:intergenic
CAATAGCCGCACATGCATCA+CGG 0.550253 8:-80498204 None:intergenic
CAATTAAGTGAGGTCAATGT+CGG 0.610601 8:+80498848 MsG0880046967.01.T01:CDS
ATGATAAACATCAAATTCAG+TGG 0.614811 8:-80498915 None:intergenic
AGAGTCATATAAACTATGGT+CGG 0.617426 8:+80498231 MsG0880046967.01.T01:CDS
TCGGTACTGCTATGAGAACC+AGG 0.619300 8:+80498867 MsG0880046967.01.T01:CDS
ACTGCTATGAGAACCAGGAC+AGG 0.627745 8:+80498872 MsG0880046967.01.T01:CDS
AGATCCCCGTGATGCATGTG+CGG 0.627929 8:+80498198 MsG0880046967.01.T01:CDS
ATCTGGAGTTCAATTAAGTG+AGG 0.669700 8:+80498838 MsG0880046967.01.T01:CDS
ATAGCCGCACATGCATCACG+GGG 0.734263 8:-80498202 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAAAAATAGAAATTATATAT+TGG + Chr8:80498544-80498563 MsG0880046967.01.T01:intron 10.0%
!! TATCAATTATAAAGTAAAAT+TGG - Chr8:80497696-80497715 None:intergenic 10.0%
!!! CAATATATAATTTCTATTTT+TGG - Chr8:80498546-80498565 None:intergenic 10.0%
!!! GTAATACATAATTTTTTTAT+TGG - Chr8:80498524-80498543 None:intergenic 10.0%
!!! TTTTAGATTTGTATTATTAA+TGG + Chr8:80498396-80498415 MsG0880046967.01.T01:intron 10.0%
!! AAGTTAATACAAATGATAAA+TGG - Chr8:80497908-80497927 None:intergenic 15.0%
!! ATTATAAAGTAAAATTGGAA+TGG - Chr8:80497691-80497710 None:intergenic 15.0%
!!! TTATCATTTGTATTAACTTT+TGG + Chr8:80497909-80497928 MsG0880046967.01.T01:intron 15.0%
!! AAAAAAATTCCTAAAGTCTA+TGG - Chr8:80498496-80498515 None:intergenic 20.0%
!! ATATATATATATATCCCCAT+GGG + Chr8:80497715-80497734 MsG0880046967.01.T01:intron 20.0%
!! TATATATATATATATCCCCA+TGG + Chr8:80497714-80497733 MsG0880046967.01.T01:intron 20.0%
!!! CTAAAATTTTAAAACAAGCT+TGG - Chr8:80498382-80498401 None:intergenic 20.0%
!!! TCAATAAATACTTGCTATTT+GGG + Chr8:80498612-80498631 MsG0880046967.01.T01:intron 20.0%
! AACTACACATAAAAGGAAAA+TGG - Chr8:80498356-80498375 None:intergenic 25.0%
! AATTGTTTGTCACAATCATA+TGG + Chr8:80497837-80497856 MsG0880046967.01.T01:intron 25.0%
! AATTTGAATCAACTCATCAT+TGG + Chr8:80498770-80498789 MsG0880046967.01.T01:intron 25.0%
! ATGATAAACATCAAATTCAG+TGG - Chr8:80498918-80498937 None:intergenic 25.0%
! ATTATCATTGTCCAGATTAA+AGG + Chr8:80498283-80498302 MsG0880046967.01.T01:CDS 25.0%
! ATTGTTTGTCACAATCATAT+GGG + Chr8:80497838-80497857 MsG0880046967.01.T01:intron 25.0%
! CCAAATTTCATCTGTTAATT+AGG + Chr8:80497877-80497896 MsG0880046967.01.T01:intron 25.0%
! CCTAATTAACAGATGAAATT+TGG - Chr8:80497880-80497899 None:intergenic 25.0%
! GTAATATACAAACATAGGTT+AGG + Chr8:80497738-80497757 MsG0880046967.01.T01:intron 25.0%
! TAACTTCCAATTAAACGAAT+TGG - Chr8:80497985-80498004 None:intergenic 25.0%
! TATATATATATATCCCCATG+GGG + Chr8:80497716-80497735 MsG0880046967.01.T01:intron 25.0%
!! CTCTACATGTTTTTCTTTTT+GGG - Chr8:80498679-80498698 None:intergenic 25.0%
!! TAAAAGGAAAATGGTAATGA+AGG - Chr8:80498347-80498366 None:intergenic 25.0%
!!! CAATAAATACTTGCTATTTG+GGG + Chr8:80498613-80498632 MsG0880046967.01.T01:intron 25.0%
!!! CTCAATAAATACTTGCTATT+TGG + Chr8:80498611-80498630 MsG0880046967.01.T01:intron 25.0%
!!! GATAATACCTTGTTTTTCAT+GGG - Chr8:80498432-80498451 None:intergenic 25.0%
!!! TGTGTTTTATTTGATTCTGT+AGG + Chr8:80498162-80498181 MsG0880046967.01.T01:intron 25.0%
AACCATAGTTATGCTAAACA+AGG - Chr8:80497766-80497785 None:intergenic 30.0%
AAGGACTCTCTAATAATGTA+TGG + Chr8:80498302-80498321 MsG0880046967.01.T01:intron 30.0%
ACACATTCATCAAGATAAGA+AGG - Chr8:80498147-80498166 None:intergenic 30.0%
ACATTCATCAAGATAAGAAG+GGG - Chr8:80498145-80498164 None:intergenic 30.0%
AGAGTCATATAAACTATGGT+CGG + Chr8:80498231-80498250 MsG0880046967.01.T01:CDS 30.0%
ATAACTATGGTTCATTTACC+AGG + Chr8:80497774-80497793 MsG0880046967.01.T01:intron 30.0%
ATGGGGTAATATACAAACAT+AGG + Chr8:80497733-80497752 MsG0880046967.01.T01:intron 30.0%
ATGTTTGTATATTACCCCAT+GGG - Chr8:80497733-80497752 None:intergenic 30.0%
ATTATATTTGCACAACTACC+TGG - Chr8:80497795-80497814 None:intergenic 30.0%
CAAAATCAAAATCTTGCTAC+TGG + Chr8:80498738-80498757 MsG0880046967.01.T01:intron 30.0%
CAATTAAACGAATTGGCAAT+TGG - Chr8:80497978-80497997 None:intergenic 30.0%
CAATTGCCAATTCGTTTAAT+TGG + Chr8:80497976-80497995 MsG0880046967.01.T01:intron 30.0%
CACATTCATCAAGATAAGAA+GGG - Chr8:80498146-80498165 None:intergenic 30.0%
CTGAAGAGTCATATAAACTA+TGG + Chr8:80498227-80498246 MsG0880046967.01.T01:CDS 30.0%
TAATTCACTCCATAGACTTT+AGG + Chr8:80498484-80498503 MsG0880046967.01.T01:intron 30.0%
TATGTTTGTATATTACCCCA+TGG - Chr8:80497734-80497753 None:intergenic 30.0%
TATTAGAGAGTCCTTTAATC+TGG - Chr8:80498297-80498316 None:intergenic 30.0%
TTCTTATCCCATGAAAAACA+AGG + Chr8:80498422-80498441 MsG0880046967.01.T01:intron 30.0%
TTGGAGAAACTACACATAAA+AGG - Chr8:80498363-80498382 None:intergenic 30.0%
! GCTCTACATGTTTTTCTTTT+TGG - Chr8:80498680-80498699 None:intergenic 30.0%
! TTCCTTGTTTAGCATAACTA+TGG + Chr8:80497761-80497780 MsG0880046967.01.T01:intron 30.0%
!!! ACTGTGTAGAATTTTAACTC+TGG + Chr8:80498112-80498131 MsG0880046967.01.T01:intron 30.0%
!!! GGATAATACCTTGTTTTTCA+TGG - Chr8:80498433-80498452 None:intergenic 30.0%
AATCCTTAACATGTGTCCTT+AGG + Chr8:80498636-80498655 MsG0880046967.01.T01:intron 35.0%
AATTGGAATGGTATTTCGCT+TGG - Chr8:80497679-80497698 None:intergenic 35.0%
ATCCTTAACATGTGTCCTTA+GGG + Chr8:80498637-80498656 MsG0880046967.01.T01:intron 35.0%
ATTAGTCAAAGTTATTCCCC+TGG - Chr8:80498468-80498487 None:intergenic 35.0%
CAATTAAGTGAGGTCAATGT+CGG + Chr8:80498848-80498867 MsG0880046967.01.T01:CDS 35.0%
TGTTTGTATATTACCCCATG+GGG - Chr8:80497732-80497751 None:intergenic 35.0%
! AAGGTATTATCCCATCAAAG+GGG + Chr8:80498441-80498460 MsG0880046967.01.T01:intron 35.0%
! ACAAGGTATTATCCCATCAA+AGG + Chr8:80498439-80498458 MsG0880046967.01.T01:intron 35.0%
! ATCTGGAGTTCAATTAAGTG+AGG + Chr8:80498838-80498857 MsG0880046967.01.T01:CDS 35.0%
! CAAGGTATTATCCCATCAAA+GGG + Chr8:80498440-80498459 MsG0880046967.01.T01:intron 35.0%
!!! TGTAGAATTTTAACTCTGGC+AGG + Chr8:80498116-80498135 MsG0880046967.01.T01:intron 35.0%
ACATTGTAGTCAAGCACATC+TGG + Chr8:80498821-80498840 MsG0880046967.01.T01:intron 40.0%
AGGTATTATCCCATCAAAGG+GGG + Chr8:80498442-80498461 MsG0880046967.01.T01:intron 40.0%
AGTGTCTACAGTATTGCAAC+GGG - Chr8:80498063-80498082 None:intergenic 40.0%
ATTCTACACAGTAATGCAGC+AGG - Chr8:80498104-80498123 None:intergenic 40.0%
CAGTGTCTACAGTATTGCAA+CGG - Chr8:80498064-80498083 None:intergenic 40.0%
TTCTACACAGTAATGCAGCA+GGG - Chr8:80498103-80498122 None:intergenic 40.0%
!! TACAGTATTGCAACGGGTTA+GGG - Chr8:80498057-80498076 None:intergenic 40.0%
AGCCCTAAGGACACATGTTA+AGG - Chr8:80498642-80498661 None:intergenic 45.0%
CAATGCTAACATGAGCCCTA+AGG - Chr8:80498655-80498674 None:intergenic 45.0%
CTTAGGGCTCATGTTAGCAT+TGG + Chr8:80498653-80498672 MsG0880046967.01.T01:intron 45.0%
TCAACTGATCTTTGACTGGC+AGG - Chr8:80498972-80498991 None:intergenic 45.0%
! CTACAGTATTGCAACGGGTT+AGG - Chr8:80498058-80498077 None:intergenic 45.0%
AATAGCCGCACATGCATCAC+GGG - Chr8:80498206-80498225 None:intergenic 50.0%
ACTGCTATGAGAACCAGGAC+AGG + Chr8:80498872-80498891 MsG0880046967.01.T01:CDS 50.0%
CAATAGCCGCACATGCATCA+CGG - Chr8:80498207-80498226 None:intergenic 50.0%
CATCTCAGAAGTTCCTGTCC+TGG - Chr8:80498888-80498907 None:intergenic 50.0%
TCGGTACTGCTATGAGAACC+AGG + Chr8:80498867-80498886 MsG0880046967.01.T01:CDS 50.0%
AGATCCCCGTGATGCATGTG+CGG + Chr8:80498198-80498217 MsG0880046967.01.T01:CDS 55.0%
ATAGCCGCACATGCATCACG+GGG - Chr8:80498205-80498224 None:intergenic 55.0%
TATCCCATCAAAGGGGGCCA+GGG + Chr8:80498448-80498467 MsG0880046967.01.T01:intron 55.0%
TTATCCCATCAAAGGGGGCC+AGG + Chr8:80498447-80498466 MsG0880046967.01.T01:intron 55.0%
! AAACTTGCCCTGCTTGCTGC+TGG + Chr8:80498027-80498046 MsG0880046967.01.T01:intron 55.0%
AGGGATGACCAGCAGCAAGC+AGG - Chr8:80498038-80498057 None:intergenic 60.0%
ATCCCATCAAAGGGGGCCAG+GGG + Chr8:80498449-80498468 MsG0880046967.01.T01:intron 60.0%
ATTCCCCTGGCCCCCTTTGA+TGG - Chr8:80498455-80498474 None:intergenic 60.0%
GGGATGACCAGCAGCAAGCA+GGG - Chr8:80498037-80498056 None:intergenic 60.0%
TTCCCCTGGCCCCCTTTGAT+GGG - Chr8:80498454-80498473 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr8 gene 80497613 80498991 80497613 ID=MsG0880046967.01;Name=MsG0880046967.01
Chr8 mRNA 80497613 80498991 80497613 ID=MsG0880046967.01.T01;Parent=MsG0880046967.01;Name=MsG0880046967.01.T01;_AED=0.50;_eAED=0.53;_QI=0|0|0|1|0.5|0.33|3|0|104
Chr8 exon 80497613 80497630 80497613 ID=MsG0880046967.01.T01:exon:34605;Parent=MsG0880046967.01.T01
Chr8 exon 80498184 80498318 80498184 ID=MsG0880046967.01.T01:exon:34606;Parent=MsG0880046967.01.T01
Chr8 exon 80498830 80498991 80498830 ID=MsG0880046967.01.T01:exon:34607;Parent=MsG0880046967.01.T01
Chr8 CDS 80497613 80497630 80497613 ID=MsG0880046967.01.T01:cds;Parent=MsG0880046967.01.T01
Chr8 CDS 80498184 80498318 80498184 ID=MsG0880046967.01.T01:cds;Parent=MsG0880046967.01.T01
Chr8 CDS 80498830 80498991 80498830 ID=MsG0880046967.01.T01:cds;Parent=MsG0880046967.01.T01
Gene Sequence

>MsG0880046967.01.T01

ATGGTTTATGGTTATTCGGCAGCAAGATATACAGATCCCCGTGATGCATGTGCGGCTATTGCTGAAGAGTCATATAAACTATGGTCGGAACTTGTGAATCGAACAGATGATATAACAATTATCATTGTCCAGATTAAAGGACTCTCTAATAATTCAAGCACATCTGGAGTTCAATTAAGTGAGGTCAATGTCGGTACTGCTATGAGAACCAGGACAGGAACTTCTGAGATGTCTACTACCACTGAATTTGATGTTTATCATTCTGTGACGAACAGTTTCTCTGATTCACAATCCTGCCAGTCAAAGATCAGTTGA

Protein sequence

>MsG0880046967.01.T01

MVYGYSAARYTDPRDACAAIAEESYKLWSELVNRTDDITIIIVQIKGLSNNSSTSGVQLSEVNVGTAMRTRTGTSEMSTTTEFDVYHSVTNSFSDSQSCQSKIS*