AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene065134

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene065134.t1 MTR_1g110840 95.671 231 10 0 1 231 1 231 4.43e-167 460
MS.gene065134.t1 MTR_6g453130 93.939 231 14 0 1 231 1 231 1.77e-164 453
MS.gene065134.t1 MTR_6g054080 90.476 231 22 0 1 231 1 231 2.35e-158 438
MS.gene065134.t1 MTR_6g054150 88.745 231 26 0 1 231 1 231 2.96e-156 432
MS.gene065134.t1 MTR_6g018270 55.172 174 57 7 1 168 1 159 6.24e-62 195
MS.gene065134.t1 MTR_7g007010 44.053 227 109 7 1 223 1 213 1.07e-55 180
MS.gene065134.t1 MTR_4g095600 56.303 119 48 2 3 119 1 117 2.10e-46 154
MS.gene065134.t1 MTR_5g015880 44.970 169 82 5 3 165 1 164 7.00e-45 150
MS.gene065134.t1 MTR_1g106420 44.882 127 63 2 3 124 1 125 1.02e-35 125
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene065134.t1 AT3G02550 40.529 227 122 5 1 225 1 216 2.70e-53 172
MS.gene065134.t1 AT1G68510 55.102 147 54 3 1 145 1 137 2.97e-53 171
MS.gene065134.t1 AT1G67100 54.861 144 57 3 1 144 1 136 5.76e-50 163
MS.gene065134.t1 AT3G49940 53.659 123 55 1 3 125 1 121 1.37e-45 152
MS.gene065134.t1 AT5G67420 55.963 109 46 1 3 111 1 107 1.10e-43 147
MS.gene065134.t1 AT5G67420 55.963 109 46 1 3 111 1 107 1.10e-43 147
MS.gene065134.t1 AT4G37540 57.798 109 44 1 3 111 1 107 1.46e-43 147

Find 62 sgRNAs with CRISPR-Local

Find 89 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGCATGCCCTTGGGATTC+AGG 0.157225 1.2:-82101144 None:intergenic
ATGGGGCGCTTGGCTTATTT+TGG 0.165756 1.2:+82101623 MS.gene065134:CDS
AAGAATACCAACATGGAAAT+TGG 0.166066 1.2:+82101922 MS.gene065134:CDS
ACCGGTTCGGCCATAAAATT+TGG 0.172606 1.2:-82101178 None:intergenic
ATGGCGTATATCATAGGTTT+TGG 0.254539 1.2:-82101776 None:intergenic
TGCTGAGAATCAAGTGAATT+TGG 0.279066 1.2:+82101987 MS.gene065134:CDS
CCATGTTGGTATTCTTCAAA+AGG 0.367139 1.2:-82101915 None:intergenic
AGAATACCAACATGGAAATT+GGG 0.374565 1.2:+82101923 MS.gene065134:CDS
TGCCACATGGCGTATATCAT+AGG 0.386203 1.2:-82101782 None:intergenic
CTTTGATTGCCAATCAACTA+AGG 0.392207 1.2:+82102023 MS.gene065134:CDS
CATAAAATTTGGCAAGGAAG+AGG 0.404166 1.2:-82101167 None:intergenic
GACTGAACCAACTCGTGGCT+TGG 0.415502 1.2:-82101869 None:intergenic
ACTGAACCAACTCGTGGCTT+GGG 0.424285 1.2:-82101868 None:intergenic
GTGAATTTGGAACTCACTCT+TGG 0.424885 1.2:+82102000 MS.gene065134:CDS
GGAAGAGGGTGGCATGCCCT+TGG 0.443110 1.2:-82101152 None:intergenic
GCAACTGATCCACTCAAGGC+AGG 0.443950 1.2:-82101121 None:intergenic
TGGCATGCCCTTGGGATTCA+GGG 0.444879 1.2:-82101143 None:intergenic
AAAACTCAATTCAAAAGAGC+TGG 0.446487 1.2:+82101832 MS.gene065134:CDS
GCAGTTGAAGCTGTGCTGAC+TGG 0.456964 1.2:+82101673 MS.gene065134:CDS
AGATTGGTGAATCCCACATA+TGG 0.458590 1.2:+82101604 MS.gene065134:CDS
ATTGATGGGCAAACATCATC+AGG 0.461143 1.2:+82101724 MS.gene065134:CDS
TAAGCCAAGCGCCCCATATG+TGG 0.471835 1.2:-82101617 None:intergenic
CATGTTGGTATTCTTCAAAA+GGG 0.477135 1.2:-82101914 None:intergenic
GAAGAGGGTGGCATGCCCTT+GGG 0.479104 1.2:-82101151 None:intergenic
GGAGATTGAGCAAACCGGTT+CGG 0.494518 1.2:-82101191 None:intergenic
AATCATCACTACAACCTTTG+CGG 0.504650 1.2:-82101086 None:intergenic
GATTGGTGAATCCCACATAT+GGG 0.508471 1.2:+82101605 MS.gene065134:CDS
GATATACGCCATGTGGCAAA+AGG 0.516720 1.2:+82101787 MS.gene065134:CDS
AATCCCACATATGGGGCGCT+TGG 0.518707 1.2:+82101613 MS.gene065134:CDS
GGTGAGGAGATTGAGCAAAC+CGG 0.524508 1.2:-82101196 None:intergenic
TCATCAAGCCCTGCCTTGAG+TGG 0.538225 1.2:+82101112 MS.gene065134:CDS
GTACCAATGTGGACATCAAA+GGG 0.546635 1.2:+82101809 MS.gene065134:CDS
TTTCCCTTTGATGTCCACAT+TGG 0.551024 1.2:-82101812 None:intergenic
GGTACCAATGTGGACATCAA+AGG 0.551224 1.2:+82101808 MS.gene065134:CDS
GTACGAGGCAGCTGGTAGAT+TGG 0.560594 1.2:+82101588 MS.gene065134:CDS
GAATACCAACATGGAAATTG+GGG 0.561319 1.2:+82101924 MS.gene065134:CDS
CTGAAGCCCAAGCCACGAGT+TGG 0.576033 1.2:+82101862 MS.gene065134:CDS
AGTCTCCCCAATTTCCATGT+TGG 0.576332 1.2:-82101929 None:intergenic
ATAAAATTTGGCAAGGAAGA+GGG 0.578936 1.2:-82101166 None:intergenic
TTCGGCCATAAAATTTGGCA+AGG 0.579687 1.2:-82101173 None:intergenic
TAATGAAGTTGAGTTGCAAT+GGG 0.583194 1.2:+82101052 None:intergenic
TTTGATTGCCAATCAACTAA+GGG 0.586746 1.2:+82102024 MS.gene065134:CDS
AAGCCAAGCGCCCCATATGT+GGG 0.589682 1.2:-82101616 None:intergenic
AAACTCAATTCAAAAGAGCT+GGG 0.590181 1.2:+82101833 MS.gene065134:CDS
CAACTGATCCACTCAAGGCA+GGG 0.595554 1.2:-82101120 None:intergenic
ATCAGTTGCCCTGAATCCCA+AGG 0.599742 1.2:+82101135 MS.gene065134:CDS
ATAATGAAGTTGAGTTGCAA+TGG 0.608858 1.2:+82101051 None:intergenic
TCATTGTTGTACGAGGCAGC+TGG 0.614180 1.2:+82101580 MS.gene065134:CDS
ACGAGTTGGTTCAGTCGACT+CGG 0.622355 1.2:+82101876 MS.gene065134:CDS
CAGGGCAACTGATCCACTCA+AGG 0.625744 1.2:-82101125 None:intergenic
GGGTGTCGTGTGCTCCGCAA+AGG 0.627575 1.2:+82101072 MS.gene065134:CDS
ATTGGTGAATCCCACATATG+GGG 0.640018 1.2:+82101606 MS.gene065134:CDS
TTTGATTGGTAGCATTGGTG+AGG 0.643249 1.2:-82101212 None:intergenic
AAATTGGGGAGACTTCATCA+AGG 0.644743 1.2:+82101938 MS.gene065134:CDS
AATTGGGGAGACTTCATCAA+GGG 0.644822 1.2:+82101939 MS.gene065134:CDS
AATCAAAATCATAATCCACC+AGG 0.664735 1.2:+82101228 MS.gene065134:CDS
TCAGTTGCCCTGAATCCCAA+GGG 0.669183 1.2:+82101136 MS.gene065134:CDS
GAGTCGACTGAACCAACTCG+TGG 0.679210 1.2:-82101874 None:intergenic
AACCTATGATATACGCCATG+TGG 0.679816 1.2:+82101780 MS.gene065134:CDS
AAATTTGGCAAGGAAGAGGG+TGG 0.680062 1.2:-82101163 None:intergenic
GTTTAAATCATTGTTGTACG+AGG 0.684324 1.2:+82101573 MS.gene065134:CDS
TGTGGCAAAAGGTACCAATG+TGG 0.731996 1.2:+82101798 MS.gene065134:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CTTAATTCATGAATAATTGA+TGG + chr1.2:82101283-82101302 MS.gene065134:intron 20.0%
!!! GAATCTATGAAAAGATTTTA+TGG - chr1.2:82101481-82101500 None:intergenic 20.0%
! ATTCATGAATAATTGATGGA+TGG + chr1.2:82101287-82101306 MS.gene065134:intron 25.0%
!! ACAGTTTTACAATGATTGAT+GGG + chr1.2:82101710-82101729 MS.gene065134:CDS 25.0%
!! GTTTAATTTATGATCCGTAA+TGG - chr1.2:82101440-82101459 None:intergenic 25.0%
AAAACTCAATTCAAAAGAGC+TGG + chr1.2:82101832-82101851 MS.gene065134:CDS 30.0%
AAACTCAATTCAAAAGAGCT+GGG + chr1.2:82101833-82101852 MS.gene065134:CDS 30.0%
AAGAATACCAACATGGAAAT+TGG + chr1.2:82101922-82101941 MS.gene065134:CDS 30.0%
AATCAAAATCATAATCCACC+AGG + chr1.2:82101228-82101247 MS.gene065134:CDS 30.0%
AGAATACCAACATGGAAATT+GGG + chr1.2:82101923-82101942 MS.gene065134:CDS 30.0%
ATAAAATTTGGCAAGGAAGA+GGG - chr1.2:82101169-82101188 None:intergenic 30.0%
ATAAATGATTCCATCCATCA+TGG + chr1.2:82101318-82101337 MS.gene065134:intron 30.0%
ATGGAACATAAATGAGACAT+AGG - chr1.2:82101462-82101481 None:intergenic 30.0%
CATGTTGGTATTCTTCAAAA+GGG - chr1.2:82101917-82101936 None:intergenic 30.0%
GTTTAAATCATTGTTGTACG+AGG + chr1.2:82101573-82101592 MS.gene065134:CDS 30.0%
TAAAAAAGTTTGTCCTGTAG+CGG - chr1.2:82101372-82101391 None:intergenic 30.0%
TTTGATTGCCAATCAACTAA+GGG + chr1.2:82102024-82102043 MS.gene065134:CDS 30.0%
! ACCACAATTTAAAACCATGA+TGG - chr1.2:82101335-82101354 None:intergenic 30.0%
! CAATTTAAAACCATGATGGA+TGG - chr1.2:82101331-82101350 None:intergenic 30.0%
! GACAGTTTTACAATGATTGA+TGG + chr1.2:82101709-82101728 MS.gene065134:CDS 30.0%
!!! ATGATTTTGATTGGTAGCAT+TGG - chr1.2:82101220-82101239 None:intergenic 30.0%
!!! TCCATCATGGTTTTAAATTG+TGG + chr1.2:82101331-82101350 MS.gene065134:intron 30.0%
!!! TGGTGGATTATGATTTTGAT+TGG - chr1.2:82101229-82101248 None:intergenic 30.0%
AATCATCACTACAACCTTTG+CGG - chr1.2:82101089-82101108 None:intergenic 35.0%
CATAAAATTTGGCAAGGAAG+AGG - chr1.2:82101170-82101189 None:intergenic 35.0%
CCATGTTGGTATTCTTCAAA+AGG - chr1.2:82101918-82101937 None:intergenic 35.0%
CTTTGATTGCCAATCAACTA+AGG + chr1.2:82102023-82102042 MS.gene065134:CDS 35.0%
GAATACCAACATGGAAATTG+GGG + chr1.2:82101924-82101943 MS.gene065134:CDS 35.0%
TATGATCCGTAATGGTATTG+CGG - chr1.2:82101432-82101451 None:intergenic 35.0%
TGCTGAGAATCAAGTGAATT+TGG + chr1.2:82101987-82102006 MS.gene065134:CDS 35.0%
! ATGGCGTATATCATAGGTTT+TGG - chr1.2:82101779-82101798 None:intergenic 35.0%
! CTCTTCCTTGCCAAATTTTA+TGG + chr1.2:82101168-82101187 MS.gene065134:CDS 35.0%
! TGGCGTATATCATAGGTTTT+GGG - chr1.2:82101778-82101797 None:intergenic 35.0%
! TTTTCTTGCCCTTAGTTGAT+TGG - chr1.2:82102035-82102054 None:intergenic 35.0%
!! CCTTTTGAAGAATACCAACA+TGG + chr1.2:82101915-82101934 MS.gene065134:CDS 35.0%
AAATTGGGGAGACTTCATCA+AGG + chr1.2:82101938-82101957 MS.gene065134:CDS 40.0%
AACCTATGATATACGCCATG+TGG + chr1.2:82101780-82101799 MS.gene065134:CDS 40.0%
AATTGGGGAGACTTCATCAA+GGG + chr1.2:82101939-82101958 MS.gene065134:CDS 40.0%
AGATTGGTGAATCCCACATA+TGG + chr1.2:82101604-82101623 MS.gene065134:CDS 40.0%
ATTGGTGAATCCCACATATG+GGG + chr1.2:82101606-82101625 MS.gene065134:CDS 40.0%
GATTGGTGAATCCCACATAT+GGG + chr1.2:82101605-82101624 MS.gene065134:CDS 40.0%
GTACCAATGTGGACATCAAA+GGG + chr1.2:82101809-82101828 MS.gene065134:CDS 40.0%
TTCGGCCATAAAATTTGGCA+AGG - chr1.2:82101176-82101195 None:intergenic 40.0%
TTTCCCTTTGATGTCCACAT+TGG - chr1.2:82101815-82101834 None:intergenic 40.0%
! ATTGATGGGCAAACATCATC+AGG + chr1.2:82101724-82101743 MS.gene065134:CDS 40.0%
! GGCGTATATCATAGGTTTTG+GGG - chr1.2:82101777-82101796 None:intergenic 40.0%
! GTGAATTTGGAACTCACTCT+TGG + chr1.2:82102000-82102019 MS.gene065134:CDS 40.0%
!! TTTGATTGGTAGCATTGGTG+AGG - chr1.2:82101215-82101234 None:intergenic 40.0%
!!! GCTTATTTTGGACAGCGAAT+TGG + chr1.2:82101635-82101654 MS.gene065134:CDS 40.0%
AAATTTGGCAAGGAAGAGGG+TGG - chr1.2:82101166-82101185 None:intergenic 45.0%
AGTCTCCCCAATTTCCATGT+TGG - chr1.2:82101932-82101951 None:intergenic 45.0%
AGTGAACTTAGCTAGCTACC+TGG - chr1.2:82101249-82101268 None:intergenic 45.0%
GATATACGCCATGTGGCAAA+AGG + chr1.2:82101787-82101806 MS.gene065134:CDS 45.0%
GGTACCAATGTGGACATCAA+AGG + chr1.2:82101808-82101827 MS.gene065134:CDS 45.0%
GTGACCAACTTAAGTCGATG+CGG + chr1.2:82101406-82101425 MS.gene065134:intron 45.0%
TGCCACATGGCGTATATCAT+AGG - chr1.2:82101785-82101804 None:intergenic 45.0%
! CATTGGTACCTTTTGCCACA+TGG - chr1.2:82101798-82101817 None:intergenic 45.0%
! GCCAAATTTTATGGCCGAAC+CGG + chr1.2:82101177-82101196 MS.gene065134:CDS 45.0%
!! ACCGGTTCGGCCATAAAATT+TGG - chr1.2:82101181-82101200 None:intergenic 45.0%
!! TGTGGCAAAAGGTACCAATG+TGG + chr1.2:82101798-82101817 MS.gene065134:CDS 45.0%
ACTGAACCAACTCGTGGCTT+GGG - chr1.2:82101871-82101890 None:intergenic 50.0%
ATCAGTTGCCCTGAATCCCA+AGG + chr1.2:82101135-82101154 MS.gene065134:CDS 50.0%
ATGCGGCCGCAATACCATTA+CGG + chr1.2:82101423-82101442 MS.gene065134:intron 50.0%
CAACTGATCCACTCAAGGCA+GGG - chr1.2:82101123-82101142 None:intergenic 50.0%
GAACTTAGCTAGCTACCTGG+TGG - chr1.2:82101246-82101265 None:intergenic 50.0%
GGAGATTGAGCAAACCGGTT+CGG - chr1.2:82101194-82101213 None:intergenic 50.0%
GGTGAGGAGATTGAGCAAAC+CGG - chr1.2:82101199-82101218 None:intergenic 50.0%
TCAGTTGCCCTGAATCCCAA+GGG + chr1.2:82101136-82101155 MS.gene065134:CDS 50.0%
TCATTGTTGTACGAGGCAGC+TGG + chr1.2:82101580-82101599 MS.gene065134:CDS 50.0%
!! ACGAGTTGGTTCAGTCGACT+CGG + chr1.2:82101876-82101895 MS.gene065134:CDS 50.0%
!! ATGGGGCGCTTGGCTTATTT+TGG + chr1.2:82101623-82101642 MS.gene065134:CDS 50.0%
AAGCCAAGCGCCCCATATGT+GGG - chr1.2:82101619-82101638 None:intergenic 55.0%
CAGGGCAACTGATCCACTCA+AGG - chr1.2:82101128-82101147 None:intergenic 55.0%
GACTGAACCAACTCGTGGCT+TGG - chr1.2:82101872-82101891 None:intergenic 55.0%
GAGTCGACTGAACCAACTCG+TGG - chr1.2:82101877-82101896 None:intergenic 55.0%
GATGTTGCAGTTGCCGCTAC+AGG + chr1.2:82101356-82101375 MS.gene065134:intron 55.0%
GCAACTGATCCACTCAAGGC+AGG - chr1.2:82101124-82101143 None:intergenic 55.0%
GTACGAGGCAGCTGGTAGAT+TGG + chr1.2:82101588-82101607 MS.gene065134:CDS 55.0%
TAAGCCAAGCGCCCCATATG+TGG - chr1.2:82101620-82101639 None:intergenic 55.0%
TCATCAAGCCCTGCCTTGAG+TGG + chr1.2:82101112-82101131 MS.gene065134:CDS 55.0%
TGGCATGCCCTTGGGATTCA+GGG - chr1.2:82101146-82101165 None:intergenic 55.0%
! AATCCCACATATGGGGCGCT+TGG + chr1.2:82101613-82101632 MS.gene065134:CDS 55.0%
! GCAGTTGAAGCTGTGCTGAC+TGG + chr1.2:82101673-82101692 MS.gene065134:CDS 55.0%
CTGAAGCCCAAGCCACGAGT+TGG + chr1.2:82101862-82101881 MS.gene065134:CDS 60.0%
GAAGAGGGTGGCATGCCCTT+GGG - chr1.2:82101154-82101173 None:intergenic 60.0%
GTGGCATGCCCTTGGGATTC+AGG - chr1.2:82101147-82101166 None:intergenic 60.0%
!! GCGGCCGCATCGACTTAAGT+TGG - chr1.2:82101413-82101432 None:intergenic 60.0%
GGAAGAGGGTGGCATGCCCT+TGG - chr1.2:82101155-82101174 None:intergenic 65.0%
! GGGTGTCGTGTGCTCCGCAA+AGG + chr1.2:82101072-82101091 MS.gene065134:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 82101054 82102068 82101054 ID=MS.gene065134
chr1.2 mRNA 82101054 82102068 82101054 ID=MS.gene065134.t1;Parent=MS.gene065134
chr1.2 exon 82101054 82101249 82101054 ID=MS.gene065134.t1.exon1;Parent=MS.gene065134.t1
chr1.2 CDS 82101054 82101249 82101054 ID=cds.MS.gene065134.t1;Parent=MS.gene065134.t1
chr1.2 exon 82101569 82102068 82101569 ID=MS.gene065134.t1.exon2;Parent=MS.gene065134.t1
chr1.2 CDS 82101569 82102068 82101569 ID=cds.MS.gene065134.t1;Parent=MS.gene065134.t1
Gene Sequence

>MS.gene065134

ATGAAGTTGAGTTGCAATGGGTGTCGTGTGCTCCGCAAAGGTTGTAGTGATGATTGTATCATCAAGCCCTGCCTTGAGTGGATCAGTTGCCCTGAATCCCAAGGGCATGCCACCCTCTTCCTTGCCAAATTTTATGGCCGAACCGGTTTGCTCAATCTCCTCACCAATGCTACCAATCAAAATCATAATCCACCAGGTAGCTAGCTAAGTTCACTATCATAATCTAACACTTAATTCATGAATAATTGATGGATGGAATGATTGATAAATGATTCCATCCATCATGGTTTTAAATTGTGGTTGATGTTGCAGTTGCCGCTACAGGACAAACTTTTTTAATGTAATAATAAATGTGACCAACTTAAGTCGATGCGGCCGCAATACCATTACGGATCATAAATTAAACCTATGTCTCATTTATGTTCCATAAAATCTTTTCATAGATTCTACATCAAATTTGATTTTAGTTTTTAATATATGATGATTAATGTCTTTAATTTTGTCACAATTTTCAGCTGTGTTTAAATCATTGTTGTACGAGGCAGCTGGTAGATTGGTGAATCCCACATATGGGGCGCTTGGCTTATTTTGGACAGCGAATTGGAGTCGTTGTGAAGCTGCAGTTGAAGCTGTGCTGACTGGATCGAATATTAATGACAGTTTTACAATGATTGATGGGCAAACATCATCAGGTACACTCAATGCTGAAAATCATGTTCTCCCCAAAACCTATGATATACGCCATGTGGCAAAAGGTACCAATGTGGACATCAAAGGGAAAACTCAATTCAAAAGAGCTGGGCAAGTTCTGAAGCCCAAGCCACGAGTTGGTTCAGTCGACTCGGCTACAATGTTGAAATCCCTTTTGAAGAATACCAACATGGAAATTGGGGAGACTTCATCAAGGGTTCAAACAGAGAAAATTAATGAAGCTGCTGAGAATCAAGTGAATTTGGAACTCACTCTTGGCTTTGATTGCCAATCAACTAAGGGCAAGAAAATATTAGATAAATGA
Protein sequence

>MS.gene065134.t1

MKLSCNGCRVLRKGCSDDCIIKPCLEWISCPESQGHATLFLAKFYGRTGLLNLLTNATNQNHNPPAVFKSLLYEAAGRLVNPTYGALGLFWTANWSRCEAAVEAVLTGSNINDSFTMIDGQTSSGTLNAENHVLPKTYDIRHVAKGTNVDIKGKTQFKRAGQVLKPKPRVGSVDSATMLKSLLKNTNMEIGETSSRVQTEKINEAAENQVNLELTLGFDCQSTKGKKILDK