AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene24737


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene24737.t1 MTR_7g104490 99.284 419 3 0 1 419 1 419 0.0 845
MS.gene24737.t1 MTR_1g060040 71.360 419 120 0 1 419 1 419 0.0 589
MS.gene24737.t1 MTR_4g053260 63.723 419 152 0 1 419 2 420 0.0 556
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene24737.t1 AT1G67190 63.007 419 155 0 1 419 1 419 0.0 528
MS.gene24737.t1 AT1G67190 63.007 419 155 0 1 419 1 419 0.0 528

Find 63 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAATCTGACATGGCGATTTC+TGG 0.152383 7.4:+7560279 None:intergenic
TTCTCAATGATATTGAAATT+AGG 0.193329 7.4:+7560486 None:intergenic
AATCATGAATTCAGTGAATT+TGG 0.195737 7.4:+7559642 None:intergenic
TCTCAATGATATTGAAATTA+GGG 0.201362 7.4:+7560487 None:intergenic
AGAGCAAATTTCGCGATATA+GGG 0.320402 7.4:+7560677 None:intergenic
CATCCTTAACTTGCAAGAAA+TGG 0.324453 7.4:-7560755 MS.gene24737:CDS
AAAGATGGAGTGCTTCATTA+TGG 0.324477 7.4:-7559844 MS.gene24737:CDS
TAGAGCAAATTTCGCGATAT+AGG 0.327459 7.4:+7560676 None:intergenic
AGTTTGGGTAGCTGGACTTT+TGG 0.334910 7.4:-7559746 MS.gene24737:CDS
CTGTTACCCCTGTCATTGCT+TGG 0.349306 7.4:-7560563 MS.gene24737:CDS
ATGTATTGAATGAAAGAGTT+TGG 0.353897 7.4:+7560709 None:intergenic
ATAGACAAGGTTTCAAGTTT+CGG 0.358073 7.4:+7560309 None:intergenic
TCTCCATTTCTTGCAAGTTA+AGG 0.360964 7.4:+7560752 None:intergenic
ATCTTTCAAGTCATAACTTA+AGG 0.368328 7.4:+7559861 None:intergenic
GCTTAGCAGCTCTTCTTTGA+AGG 0.394764 7.4:-7560241 MS.gene24737:CDS
TTAAGTTATGACTTGAAAGA+TGG 0.408134 7.4:-7559859 MS.gene24737:CDS
CTTGGCTAGCAATCCTATCT+CGG 0.423380 7.4:-7560433 MS.gene24737:CDS
TGTTAGGCGCTGCAATCCTT+TGG 0.433874 7.4:+7560614 None:intergenic
GTATCATATTATCCCATCTT+GGG 0.437104 7.4:-7560800 MS.gene24737:CDS
GTGCTTCATTATGGCTTACA+AGG 0.443213 7.4:-7559835 MS.gene24737:CDS
CGAAATTTGCTCTAGTCACT+TGG 0.446849 7.4:-7560667 MS.gene24737:CDS
ATGATACCGACCACTTCAAC+AGG 0.448381 7.4:+7560816 None:intergenic
AAGGAAAGGTGCGTTAATCT+AGG 0.450642 7.4:+7559880 None:intergenic
TACATAAGCCAAGCAATGAC+AGG 0.467063 7.4:+7560555 None:intergenic
TATCCCATCTTGGGTCTGCT+AGG 0.472254 7.4:-7560791 MS.gene24737:CDS
GGTATCATATTATCCCATCT+TGG 0.475174 7.4:-7560801 MS.gene24737:CDS
ATCCCATCTTGGGTCTGCTA+GGG 0.476732 7.4:-7560790 MS.gene24737:CDS
CATCATCCATGAAAATTGTT+AGG 0.477751 7.4:+7560598 None:intergenic
TCTAGGAAAACAAACAGATA+TGG 0.480581 7.4:+7559897 None:intergenic
TTCGGCTCAACACCCGAGAT+AGG 0.481385 7.4:+7560420 None:intergenic
CATCCCTAGCAGACCCAAGA+TGG 0.487907 7.4:+7560787 None:intergenic
AATGTGGTTGTGTTAGAACT+TGG 0.510674 7.4:-7559796 MS.gene24737:CDS
CAAGGAAATTTATGATACTT+CGG 0.514673 7.4:+7560402 None:intergenic
GTTCGAGTTTGAATATGAGT+AGG 0.522810 7.4:-7559590 None:intergenic
GATCAATTCAAAAGCATCAA+AGG 0.535278 7.4:+7560137 None:intergenic
TTGGCTAGCAATCCTATCTC+GGG 0.539654 7.4:-7560432 MS.gene24737:CDS
CTCAATGATATTGAAATTAG+GGG 0.540853 7.4:+7560488 None:intergenic
TGTGTAACTTCATATTTATG+TGG 0.543217 7.4:-7560020 MS.gene24737:CDS
TCAAGTCATAACTTAAGGAA+AGG 0.545749 7.4:+7559866 None:intergenic
TATTATCTCCAATGTCAAGA+TGG 0.549282 7.4:+7560067 None:intergenic
GCAAGAAATGGAGAGAAGCT+TGG 0.560253 7.4:-7560743 MS.gene24737:CDS
AGTGTCATCCATCTTGACAT+TGG 0.562714 7.4:-7560075 MS.gene24737:CDS
TACACACATCTACGATCTCA+AGG 0.565105 7.4:+7560037 None:intergenic
TTTCATTCAATACATCTGAC+TGG 0.565276 7.4:-7560701 MS.gene24737:CDS
AATCGCCATGTCAGATTCAG+AGG 0.567446 7.4:-7560274 MS.gene24737:CDS
ACTGAATTCATGATTCAACT+AGG 0.580130 7.4:-7559634 MS.gene24737:CDS
ATCCCTAGCAGACCCAAGAT+GGG 0.587597 7.4:+7560788 None:intergenic
TGGTTGTGTTAGAACTTGGA+TGG 0.588684 7.4:-7559792 MS.gene24737:CDS
GAGCAAATTTCGCGATATAG+GGG 0.592223 7.4:+7560678 None:intergenic
GGAGGATCTTCCTGTTGAAG+TGG 0.592625 7.4:-7560826 MS.gene24737:CDS
AACGACAGCGACTTCAAGCA+AGG 0.592920 7.4:+7560384 None:intergenic
ATATCATTGAGAAATGCAGC+AGG 0.597773 7.4:-7560476 MS.gene24737:CDS
TTCTGGACAAACAATAGACA+AGG 0.600718 7.4:+7560296 None:intergenic
TGCTTCATTATGGCTTACAA+GGG 0.605298 7.4:-7559834 MS.gene24737:CDS
TGCTTGGCTTATGTATACGA+GGG 0.608384 7.4:-7560547 MS.gene24737:CDS
TATTGAATGAAAGAGTTTGG+AGG 0.609653 7.4:+7560712 None:intergenic
TGATAAACTCATATTAGTGG+CGG 0.615767 7.4:-7560193 MS.gene24737:CDS
ACATAAGCCAAGCAATGACA+GGG 0.628082 7.4:+7560556 None:intergenic
GATCTTCCTGTTGAAGTGGT+CGG 0.634333 7.4:-7560822 MS.gene24737:CDS
TGAAGCCTCTGAATCTGACA+TGG 0.638655 7.4:+7560269 None:intergenic
TTGCTTGGCTTATGTATACG+AGG 0.648455 7.4:-7560548 MS.gene24737:CDS
CGAGATAGGATTGCTAGCCA+AGG 0.649589 7.4:+7560434 None:intergenic
CATAAGCCAAGCAATGACAG+GGG 0.741525 7.4:+7560557 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCTCAATGATATTGAAATTA+GGG + chr7.4:7559935-7559954 None:intergenic 20.0%
!! TTCTCAATGATATTGAAATT+AGG + chr7.4:7559936-7559955 None:intergenic 20.0%
!!! TTTTGATAAACTCATATTAG+TGG - chr7.4:7560223-7560242 MS.gene24737:CDS 20.0%
! AATCATGAATTCAGTGAATT+TGG + chr7.4:7560780-7560799 None:intergenic 25.0%
! ATGTATTGAATGAAAGAGTT+TGG + chr7.4:7559713-7559732 None:intergenic 25.0%
! ATGTCCTAATCTTAAAAAGA+TGG - chr7.4:7560700-7560719 MS.gene24737:CDS 25.0%
! CAAGGAAATTTATGATACTT+CGG + chr7.4:7560020-7560039 None:intergenic 25.0%
! CTCAATGATATTGAAATTAG+GGG + chr7.4:7559934-7559953 None:intergenic 25.0%
! CTTAAAAAGATGGTCATTTA+TGG - chr7.4:7560710-7560729 MS.gene24737:CDS 25.0%
! TGTGTAACTTCATATTTATG+TGG - chr7.4:7560399-7560418 MS.gene24737:CDS 25.0%
! TTAAGTTATGACTTGAAAGA+TGG - chr7.4:7560560-7560579 MS.gene24737:CDS 25.0%
!! ATCTTTCAAGTCATAACTTA+AGG + chr7.4:7560561-7560580 None:intergenic 25.0%
!! CTTTTGAATTGATCAATAAG+GGG - chr7.4:7560291-7560310 MS.gene24737:CDS 25.0%
!! GCTTTTGAATTGATCAATAA+GGG - chr7.4:7560290-7560309 MS.gene24737:CDS 25.0%
!! TGCTTTTGAATTGATCAATA+AGG - chr7.4:7560289-7560308 MS.gene24737:CDS 25.0%
!!! ATGACCATCTTTTTAAGATT+AGG + chr7.4:7560707-7560726 None:intergenic 25.0%
ACTGAATTCATGATTCAACT+AGG - chr7.4:7560785-7560804 MS.gene24737:CDS 30.0%
CATCATCCATGAAAATTGTT+AGG + chr7.4:7559824-7559843 None:intergenic 30.0%
CGTCAAAGTTAAAAAAGCTT+CGG - chr7.4:7560450-7560469 MS.gene24737:CDS 30.0%
GTATCATATTATCCCATCTT+GGG - chr7.4:7559619-7559638 MS.gene24737:CDS 30.0%
TATTATCTCCAATGTCAAGA+TGG + chr7.4:7560355-7560374 None:intergenic 30.0%
TATTGAATGAAAGAGTTTGG+AGG + chr7.4:7559710-7559729 None:intergenic 30.0%
TCAAGTCATAACTTAAGGAA+AGG + chr7.4:7560556-7560575 None:intergenic 30.0%
TCTAGGAAAACAAACAGATA+TGG + chr7.4:7560525-7560544 None:intergenic 30.0%
TGATAAACTCATATTAGTGG+CGG - chr7.4:7560226-7560245 MS.gene24737:CDS 30.0%
TTTCATTCAATACATCTGAC+TGG - chr7.4:7559718-7559737 MS.gene24737:CDS 30.0%
!! ATAGACAAGGTTTCAAGTTT+CGG + chr7.4:7560113-7560132 None:intergenic 30.0%
!! GATCAATTCAAAAGCATCAA+AGG + chr7.4:7560285-7560304 None:intergenic 30.0%
!!! TGTACACTTTTTCAAACCAA+AGG - chr7.4:7559789-7559808 MS.gene24737:CDS 30.0%
AATGTGGTTGTGTTAGAACT+TGG - chr7.4:7560623-7560642 MS.gene24737:CDS 35.0%
AGAGCAAATTTCGCGATATA+GGG + chr7.4:7559745-7559764 None:intergenic 35.0%
ATATCATTGAGAAATGCAGC+AGG - chr7.4:7559943-7559962 MS.gene24737:CDS 35.0%
GGTATCATATTATCCCATCT+TGG - chr7.4:7559618-7559637 MS.gene24737:CDS 35.0%
TAGAGCAAATTTCGCGATAT+AGG + chr7.4:7559746-7559765 None:intergenic 35.0%
TCTCCATTTCTTGCAAGTTA+AGG + chr7.4:7559670-7559689 None:intergenic 35.0%
TGCTTCATTATGGCTTACAA+GGG - chr7.4:7560585-7560604 MS.gene24737:CDS 35.0%
TTCTGGACAAACAATAGACA+AGG + chr7.4:7560126-7560145 None:intergenic 35.0%
! AAAGATGGAGTGCTTCATTA+TGG - chr7.4:7560575-7560594 MS.gene24737:CDS 35.0%
! CAGTGATCTTTTCTCAGTTT+GGG - chr7.4:7560658-7560677 MS.gene24737:CDS 35.0%
! GTTGTCTTTTCTGATGAATG+TGG - chr7.4:7560607-7560626 MS.gene24737:CDS 35.0%
! TCAGTGATCTTTTCTCAGTT+TGG - chr7.4:7560657-7560676 MS.gene24737:CDS 35.0%
!! CATCCTTAACTTGCAAGAAA+TGG - chr7.4:7559664-7559683 MS.gene24737:CDS 35.0%
ACATAAGCCAAGCAATGACA+GGG + chr7.4:7559866-7559885 None:intergenic 40.0%
AGTGTCATCCATCTTGACAT+TGG - chr7.4:7560344-7560363 MS.gene24737:CDS 40.0%
AGTTAAAAAAGCTTCGGCTG+TGG - chr7.4:7560456-7560475 MS.gene24737:CDS 40.0%
GAAATGCAGCAGGAAAAAGT+TGG - chr7.4:7559953-7559972 MS.gene24737:CDS 40.0%
GAGCAAATTTCGCGATATAG+GGG + chr7.4:7559744-7559763 None:intergenic 40.0%
GTGCTTCATTATGGCTTACA+AGG - chr7.4:7560584-7560603 MS.gene24737:CDS 40.0%
TACACACATCTACGATCTCA+AGG + chr7.4:7560385-7560404 None:intergenic 40.0%
TACATAAGCCAAGCAATGAC+AGG + chr7.4:7559867-7559886 None:intergenic 40.0%
TGCTTGGCTTATGTATACGA+GGG - chr7.4:7559872-7559891 MS.gene24737:CDS 40.0%
TGGTTGTGTTAGAACTTGGA+TGG - chr7.4:7560627-7560646 MS.gene24737:CDS 40.0%
TTGCTTGGCTTATGTATACG+AGG - chr7.4:7559871-7559890 MS.gene24737:CDS 40.0%
! AAGGAAAGGTGCGTTAATCT+AGG + chr7.4:7560542-7560561 None:intergenic 40.0%
! CGAAATTTGCTCTAGTCACT+TGG - chr7.4:7559752-7559771 MS.gene24737:CDS 40.0%
! TTTTGTTAGCATCTCAGCGT+TGG - chr7.4:7560061-7560080 MS.gene24737:CDS 40.0%
!! AAAGTTGGAGGTTTTGACCT+TGG - chr7.4:7559968-7559987 MS.gene24737:CDS 40.0%
AATCGCCATGTCAGATTCAG+AGG - chr7.4:7560145-7560164 MS.gene24737:CDS 45.0%
ATGATACCGACCACTTCAAC+AGG + chr7.4:7559606-7559625 None:intergenic 45.0%
ATGCAGCAGGAAAAAGTTGG+AGG - chr7.4:7559956-7559975 MS.gene24737:CDS 45.0%
CATAAGCCAAGCAATGACAG+GGG + chr7.4:7559865-7559884 None:intergenic 45.0%
CTTGGCTAGCAATCCTATCT+CGG - chr7.4:7559986-7560005 MS.gene24737:CDS 45.0%
GAATCTGACATGGCGATTTC+TGG + chr7.4:7560143-7560162 None:intergenic 45.0%
GATCTTCCTGTTGAAGTGGT+CGG - chr7.4:7559597-7559616 MS.gene24737:CDS 45.0%
GCAAGAAATGGAGAGAAGCT+TGG - chr7.4:7559676-7559695 MS.gene24737:CDS 45.0%
GCTTAGCAGCTCTTCTTTGA+AGG - chr7.4:7560178-7560197 MS.gene24737:CDS 45.0%
TGAAGCCTCTGAATCTGACA+TGG + chr7.4:7560153-7560172 None:intergenic 45.0%
TTGGCTAGCAATCCTATCTC+GGG - chr7.4:7559987-7560006 MS.gene24737:CDS 45.0%
! AGTTTGGGTAGCTGGACTTT+TGG - chr7.4:7560673-7560692 MS.gene24737:CDS 45.0%
! CTTTTCTCAGTTTGGGTAGC+TGG - chr7.4:7560665-7560684 MS.gene24737:CDS 45.0%
! GCAGCGCCTAACAATTTTCA+TGG - chr7.4:7559815-7559834 MS.gene24737:CDS 45.0%
!! TGTTTTTGACGACGAGGATG+AGG - chr7.4:7560484-7560503 MS.gene24737:CDS 45.0%
!!! GAGTGTTGTTTTTGACGACG+AGG - chr7.4:7560478-7560497 MS.gene24737:CDS 45.0%
AACGACAGCGACTTCAAGCA+AGG + chr7.4:7560038-7560057 None:intergenic 50.0%
ATCCCATCTTGGGTCTGCTA+GGG - chr7.4:7559629-7559648 MS.gene24737:CDS 50.0%
ATCCCTAGCAGACCCAAGAT+GGG + chr7.4:7559634-7559653 None:intergenic 50.0%
CGAGATAGGATTGCTAGCCA+AGG + chr7.4:7559988-7560007 None:intergenic 50.0%
CTGTTACCCCTGTCATTGCT+TGG - chr7.4:7559856-7559875 MS.gene24737:CDS 50.0%
GGAGGATCTTCCTGTTGAAG+TGG - chr7.4:7559593-7559612 MS.gene24737:CDS 50.0%
TATCCCATCTTGGGTCTGCT+AGG - chr7.4:7559628-7559647 MS.gene24737:CDS 50.0%
! TGGGTAGCTGGACTTTTGGA+AGG - chr7.4:7560677-7560696 MS.gene24737:CDS 50.0%
! TGTTAGGCGCTGCAATCCTT+TGG + chr7.4:7559808-7559827 None:intergenic 50.0%
CATCCCTAGCAGACCCAAGA+TGG + chr7.4:7559635-7559654 None:intergenic 55.0%
TTCGGCTCAACACCCGAGAT+AGG + chr7.4:7560002-7560021 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 7559591 7560850 7559591 ID=MS.gene24737
chr7.4 mRNA 7559591 7560850 7559591 ID=MS.gene24737.t1;Parent=MS.gene24737
chr7.4 exon 7559591 7560850 7559591 ID=MS.gene24737.t1.exon1;Parent=MS.gene24737.t1
chr7.4 CDS 7559591 7560850 7559591 ID=cds.MS.gene24737.t1;Parent=MS.gene24737.t1
Gene Sequence

>MS.gene24737

ATGGAGGATCTTCCTGTTGAAGTGGTCGGTATCATATTATCCCATCTTGGGTCTGCTAGGGATGTTCTGATTGCATCCTTAACTTGCAAGAAATGGAGAGAAGCTTGGCAGAATCACCTCCAAACTCTTTCATTCAATACATCTGACTGGCCCCTATATCGCGAAATTTGCTCTAGTCACTTGGAAATGCTCATTACTTGTACACTTTTTCAAACCAAAGGATTGCAGCGCCTAACAATTTTCATGGATGATGAGCATGAGTTTTCTGTTACCCCTGTCATTGCTTGGCTTATGTATACGAGGGATTCATTGCGCGAGCTACGTTATAATGTGAGAACATCCCCTAATTTCAATATCATTGAGAAATGCAGCAGGAAAAAGTTGGAGGTTTTGACCTTGGCTAGCAATCCTATCTCGGGTGTTGAGCCGAAGTATCATAAATTTCCTTGCTTGAAGTCGCTGTCGTTGAGTTTTGTTAGCATCTCAGCGTTGGATTTGAGTCTTCTGCTTTCTGCTTGTCCGAAACTTGAAACCTTGTCTATTGTTTGTCCAGAAATCGCCATGTCAGATTCAGAGGCTTCAATAGAGCTTAGCAGCTCTTCTTTGAAGGATTTCTTTGTCGAGTCATATAGTTTTGATAAACTCATATTAGTGGCGGATATGCTCGAGAATCTGCATCTGAAAGATTGTTCCTTTGATGCTTTTGAATTGATCAATAAGGGGACATTGAAAGTATTGAAGCTTGATGATGTTAGTGTCATCCATCTTGACATTGGAGATAATACAGAAAACCTTGAGATCGTAGATGTGTGTAACTTCATATTTATGTGGCAAAATTTTTATAATATGATCTCAAAAGCGTCAAAGTTAAAAAAGCTTCGGCTGTGGAGTGTTGTTTTTGACGACGAGGATGAGGTTGTTGATATAGAGACCATATCTGTTTGTTTTCCTAGATTAACGCACCTTTCCTTAAGTTATGACTTGAAAGATGGAGTGCTTCATTATGGCTTACAAGGGTTGTCTTTTCTGATGAATGTGGTTGTGTTAGAACTTGGATGGACTACAATCAGTGATCTTTTCTCAGTTTGGGTAGCTGGACTTTTGGAAGGATGTCCTAATCTTAAAAAGATGGTCATTTATGGCTATGTTGCTGAGATCAAAACACATGAAGAGTGTCAAACTTTTACCAAATTCACTGAATTCATGATTCAACTAGGAAGAAAATATAGTCATATAAAGTTCGAGTTTGAATATGAGTAG

Protein sequence

>MS.gene24737.t1

MEDLPVEVVGIILSHLGSARDVLIASLTCKKWREAWQNHLQTLSFNTSDWPLYREICSSHLEMLITCTLFQTKGLQRLTIFMDDEHEFSVTPVIAWLMYTRDSLRELRYNVRTSPNFNIIEKCSRKKLEVLTLASNPISGVEPKYHKFPCLKSLSLSFVSISALDLSLLLSACPKLETLSIVCPEIAMSDSEASIELSSSSLKDFFVESYSFDKLILVADMLENLHLKDCSFDAFELINKGTLKVLKLDDVSVIHLDIGDNTENLEIVDVCNFIFMWQNFYNMISKASKLKKLRLWSVVFDDEDEVVDIETISVCFPRLTHLSLSYDLKDGVLHYGLQGLSFLMNVVVLELGWTTISDLFSVWVAGLLEGCPNLKKMVIYGYVAEIKTHEECQTFTKFTEFMIQLGRKYSHIKFEFEYE