AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040105

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040105 MtrunA17_Chr7g0266041 94.779 498 26 0 1 498 1 498 0.0 921
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040105 AT1G19490.1 36.800 375 175 10 136 498 146 470 2.29e-50 179

Find 125 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCATTTCCTACACTATTTA+AGG -0.006225 7:-96757756 None:intergenic
TAAATTCCGTCTCGACTTAT+TGG 0.171625 7:-96755861 None:intergenic
TTCCAGTTAGACAGTTATTT+TGG 0.182560 7:+96757447 MsaT040105.1:CDS
GATTATCCTGTTCATCTTCT+AGG 0.241231 7:-96757700 None:intergenic
GACTACTAATAAGCTCTTAA+AGG 0.251801 7:+96757204 MsaT040105.1:CDS
GTCTCTGATTGTCATTTATT+AGG 0.252778 7:-96757595 None:intergenic
TTATTGGAGTGAGTAGTCTT+AGG 0.260548 7:-96755845 None:intergenic
ATAACTGTCTAACTGGAAAA+TGG 0.302100 7:-96757442 None:intergenic
GTGAGTAGTCTTAGGGTAAT+AGG 0.355142 7:-96755837 None:intergenic
ACTCGGATCCTCCTACGGTT+AGG 0.369037 7:+96754166 MsaT040105.1:CDS
GGCCAAAATAACTGTCTAAC+TGG 0.384261 7:-96757449 None:intergenic
CTCAATCTCCTCCGTCTTCA+CGG 0.384356 7:-96754025 None:intergenic
CCTTAAATAGTGTAGGAAAT+GGG 0.385675 7:+96757756 MsaT040105.1:CDS
TGTACATGTTTCCATGTCCT+TGG 0.386547 7:+96757627 MsaT040105.1:CDS
TCCTTAAATAGTGTAGGAAA+TGG 0.396249 7:+96757755 MsaT040105.1:CDS
ACCAAGGTCATTACTAGATC+TGG 0.401328 7:-96757837 None:intergenic
ATAGACAACTCCTGCACAAC+AGG 0.412712 7:-96757371 None:intergenic
CTCGGATCCTCCTACGGTTA+GGG 0.432230 7:+96754167 MsaT040105.1:CDS
GGTTGTCCGTTTCCAATGTC+CGG 0.444535 7:-96757662 None:intergenic
GGACCTGCAGTTAATTGTAA+TGG 0.449863 7:+96757932 MsaT040105.1:CDS
CTGTGGCCTAGAAGATGAAC+AGG 0.455065 7:+96757694 MsaT040105.1:CDS
ACGGAGAATACGAAGGGTAT+TGG 0.457238 7:+96755974 MsaT040105.1:CDS
GGCGGAGACTCTTGCTTACC+TGG 0.460047 7:+96754050 MsaT040105.1:CDS
CCGTTTCCAATGTCCGGAGG+AGG 0.461282 7:-96757656 None:intergenic
GGAATGGCAATGGAATTAAA+TGG 0.461945 7:-96757515 None:intergenic
TATTGGAGTGAGTAGTCTTA+GGG 0.463830 7:-96755844 None:intergenic
TGGTTGGGTGCAACATATAT+CGG 0.469292 7:-96754106 None:intergenic
TAGTTGAATCACTTATGAAT+AGG 0.471459 7:-96754137 None:intergenic
TTGATTAGATGAAGGAAGGA+TGG 0.472494 7:-96757474 None:intergenic
CTCTTCTTCCTCATGTCCGT+CGG 0.474693 7:+96753993 MsaT040105.1:CDS
GACGGAGGAGATTGAGGCGG+CGG 0.480909 7:+96754032 MsaT040105.1:CDS
TGGAAAATGAAAACCTGAAG+AGG 0.481984 7:+96756979 MsaT040105.1:CDS
CTGCAGCAGAGGCACGGAAG+AGG 0.484305 7:+96758107 MsaT040105.1:CDS
GAATAGGCAGGTGTCTGGTT+GGG 0.488254 7:-96754121 None:intergenic
GCTGCTGACTTGCAACAGCT+TGG 0.490748 7:-96755724 None:intergenic
GCATTCAAAGCCGACAGTCT+AGG 0.491777 7:+96758155 MsaT040105.1:CDS
AGAGGCACGGAAGAGGAGAA+AGG 0.497229 7:+96758114 MsaT040105.1:CDS
GAACTTGATTAGATGAAGGA+AGG 0.498468 7:-96757478 None:intergenic
GCAAACAATTCGCCGTAGGC+AGG 0.503421 7:+96756016 MsaT040105.1:CDS
CACATTATTGAAAAGTTCCA+TGG 0.505169 7:+96757911 MsaT040105.1:CDS
AGAAGAGGAAGATGAAGAAG+TGG 0.505509 7:-96753977 None:intergenic
CTTATGAATAGGCAGGTGTC+TGG 0.506245 7:-96754126 None:intergenic
TCAATCTCCTCCGTCTTCAC+GGG 0.506785 7:-96754024 None:intergenic
GGAGAAAACTCCTGTTGTGC+AGG 0.513445 7:+96757361 MsaT040105.1:CDS
TCCTTGGTTATACCCTCCTC+CGG 0.513656 7:+96757643 MsaT040105.1:CDS
TACAATTAACTGCAGGTCCA+TGG 0.516676 7:-96757928 None:intergenic
CGTGAAGACGGAGGAGATTG+AGG 0.517627 7:+96754026 MsaT040105.1:CDS
AATTGAACTTGATTAGATGA+AGG 0.520553 7:-96757482 None:intergenic
TGAATAGGCAGGTGTCTGGT+TGG 0.520784 7:-96754122 None:intergenic
CTGTTCATCTTCTAGGCCAC+AGG 0.521066 7:-96757693 None:intergenic
CTGCACCTGGTACTAGTCCA+TGG 0.524807 7:+96757408 MsaT040105.1:CDS
TGAAAACAGAAGCTTCTGAC+TGG 0.525143 7:+96757807 MsaT040105.1:CDS
TCCTCACTCGGATCCTCCTA+CGG 0.528305 7:+96754161 MsaT040105.1:CDS
TTATACCCTCCTCCGGACAT+TGG 0.528583 7:+96757650 MsaT040105.1:CDS
TTCTCATATCACAACTTCAC+AGG 0.532127 7:+96758030 MsaT040105.1:CDS
TACATATACATGCGATGGAA+TGG 0.532964 7:-96757531 None:intergenic
TCTGTAGTCAAGCAAGAACC+CGG 0.536959 7:+96757962 MsaT040105.1:CDS
GGCGCATTGCTAGTCGTGCC+AGG 0.538115 7:-96754068 None:intergenic
GTGGAATGTAATTGAAGCCC+GGG 0.541766 7:-96757980 None:intergenic
AGATACCTTGGTGATGGAAG+TGG 0.543291 7:-96757999 None:intergenic
TATCGGCGGAATGAGCTGTA+TGG 0.547816 7:-96754089 None:intergenic
GAAGAGGAAGATGAAGAAGT+GGG 0.550511 7:-96753976 None:intergenic
CTAATTACCCTAACCGTAGG+AGG 0.551073 7:-96754174 None:intergenic
CAGTTGCTGCAGCAGAGGCA+CGG 0.552500 7:+96758101 MsaT040105.1:CDS
CCTCCTCCGGACATTGGAAA+CGG 0.555478 7:+96757656 MsaT040105.1:CDS
TGAATCACTTATGAATAGGC+AGG 0.556090 7:-96754133 None:intergenic
ATCTCCTCCGTCTTCACGGG+AGG 0.562055 7:-96754021 None:intergenic
TACATGCGATGGAATGGCAA+TGG 0.562934 7:-96757525 None:intergenic
CAAGAACAGTTCATATGCCC+AGG 0.563197 7:+96758061 MsaT040105.1:CDS
GGAAGATCCTCCCGTGAAGA+CGG 0.565935 7:+96754014 MsaT040105.1:CDS
TAAGTCAATAAACACTGAAG+TGG 0.566494 7:+96757340 MsaT040105.1:CDS
AGTGGAATGTAATTGAAGCC+CGG 0.573375 7:-96757981 None:intergenic
GAACAGGATAATCTTCCTCT+AGG 0.575107 7:+96757710 MsaT040105.1:CDS
CTTAAATAGTGTAGGAAATG+GGG 0.577979 7:+96757757 MsaT040105.1:CDS
ATTAGATGAAGGAAGGATGG+AGG 0.578994 7:-96757471 None:intergenic
CGACGGACATGAGGAAGAAG+AGG 0.579490 7:-96753992 None:intergenic
TCCAGATCTAGTAATGACCT+TGG 0.582576 7:+96757836 MsaT040105.1:CDS
AAAAGCTGCCACCTTAGCGA+TGG 0.585116 7:+96756959 MsaT040105.1:CDS
TGATTCAACTATTCCTCACT+CGG 0.585509 7:+96754149 MsaT040105.1:CDS
ACTTTATCCTTAAATAGTGT+AGG 0.586503 7:+96757749 MsaT040105.1:CDS
AAGCTAATTACCCTAACCGT+AGG 0.587473 7:-96754177 None:intergenic
GGATGCAGTTGCTGCAGCAG+AGG 0.591803 7:+96758096 MsaT040105.1:CDS
AGGATCTTCCGACGGACATG+AGG 0.592339 7:-96754001 None:intergenic
AACACTCCATCCTAGACTGT+CGG 0.594397 7:-96758165 None:intergenic
CGTTTCCAATGTCCGGAGGA+GGG 0.595745 7:-96757655 None:intergenic
CCAATGTAAATACCTGCCTA+CGG 0.598134 7:-96756028 None:intergenic
CATGGTACATATACATGCGA+TGG 0.599289 7:-96757536 None:intergenic
TGGTGAAAAGAAGAAGGAGT+CGG 0.606933 7:+96757156 MsaT040105.1:intron
TCAAAGCCGACAGTCTAGGA+TGG 0.606968 7:+96758159 MsaT040105.1:CDS
TCTAGGCCACAGGAAGGTGG+TGG 0.607622 7:-96757683 None:intergenic
CTCACTCCAATAAGTCGAGA+CGG 0.611439 7:+96755855 MsaT040105.1:CDS
GGAAAATGAAAACCTGAAGA+GGG 0.611968 7:+96756980 MsaT040105.1:CDS
AAATGGTTATAAAGAAACCA+TGG 0.613612 7:-96757425 None:intergenic
AGAAGCTGTTGAAGATACCT+TGG 0.614930 7:-96758011 None:intergenic
TGGCAAATAGAGAGTCAGCT+AGG 0.616179 7:+96755994 MsaT040105.1:CDS
TAACCATTACAATTAACTGC+AGG 0.616874 7:-96757935 None:intergenic
GGAGGGTATAACCAAGGACA+TGG 0.617444 7:-96757638 None:intergenic
TCTTCTAGGCCACAGGAAGG+TGG 0.623832 7:-96757686 None:intergenic
AGAAACCATGGACTAGTACC+AGG 0.628134 7:-96757413 None:intergenic
TTAGATGAAGGAAGGATGGA+GGG 0.628242 7:-96757470 None:intergenic
CATGGACTAGTACCAGGTGC+AGG 0.629095 7:-96757407 None:intergenic
TCCGAGGTATCACCTGCACC+TGG 0.634195 7:+96757395 MsaT040105.1:CDS
ACCAGGTGCAGGTGATACCT+CGG 0.636913 7:-96757396 None:intergenic
GGACAACCACCACCTTCCTG+TGG 0.640764 7:+96757677 MsaT040105.1:CDS
GATTCAGACTCAGAAGAGCA+TGG 0.642089 7:-96757554 None:intergenic
GCAGGAGTTGTCTATGTCCG+AGG 0.642391 7:+96757379 MsaT040105.1:CDS
TGTCCGTTTCCAATGTCCGG+AGG 0.642696 7:-96757659 None:intergenic
AGAAGCACGGAGAATACGAA+GGG 0.646379 7:+96755968 MsaT040105.1:CDS
AATGCTTCAGGCTCTGAGTG+AGG 0.647299 7:+96756926 MsaT040105.1:intron
TGTTGAAGATACCTTGGTGA+TGG 0.647819 7:-96758005 None:intergenic
CTAGGCAAACAATTCGCCGT+AGG 0.651761 7:+96756012 MsaT040105.1:CDS
GGACATGGAAACATGTACAA+AGG 0.654634 7:-96757623 None:intergenic
AAGAAGCACGGAGAATACGA+AGG 0.656333 7:+96755967 MsaT040105.1:CDS
ACCGTAGGAGGATCCGAGTG+AGG 0.660775 7:-96754162 None:intergenic
AGATCCTCCCGTGAAGACGG+AGG 0.667295 7:+96754017 MsaT040105.1:CDS
AACTTGGAGTAGCATGACCA+AGG 0.671249 7:-96757853 None:intergenic
CTGTAGTCAAGCAAGAACCC+GGG 0.674150 7:+96757963 MsaT040105.1:CDS
TTCACGGGAGGATCTTCCGA+CGG 0.678112 7:-96754009 None:intergenic
ACATTCCACTTCCATCACCA+AGG 0.678562 7:+96757994 MsaT040105.1:CDS
TCCGGAGGAGGGTATAACCA+AGG 0.679455 7:-96757644 None:intergenic
GTACTACATTGTTCACCTAG+AGG 0.688797 7:-96757725 None:intergenic
TCATCTTCTAGGCCACAGGA+AGG 0.693110 7:-96757689 None:intergenic
GAAGACGGAGGAGATTGAGG+CGG 0.693834 7:+96754029 MsaT040105.1:CDS
TTGGGTGCAACATATATCGG+CGG 0.707534 7:-96754103 None:intergenic
GTCGAGACGGAATTTAACCG+AGG 0.731809 7:+96755868 MsaT040105.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 96753925 96758189 96753925 ID=MsaG040105
Chr7 mRNA 96753925 96758189 96753925 ID=MsaT040105.1;Parent=MsaG040105
Chr7 exon 96753925 96754188 96753925 ID=MsaT040105.1.exon1;Parent=MsaT040105.1
Chr7 CDS 96753925 96754188 96753925 ID=cds.MsaT040105.1;Parent=MsaT040105.1
Chr7 exon 96755722 96755889 96755722 ID=MsaT040105.1.exon2;Parent=MsaT040105.1
Chr7 CDS 96755722 96755889 96755722 ID=cds.MsaT040105.1;Parent=MsaT040105.1
Chr7 exon 96755960 96756037 96755960 ID=MsaT040105.1.exon3;Parent=MsaT040105.1
Chr7 CDS 96755960 96756037 96755960 ID=cds.MsaT040105.1;Parent=MsaT040105.1
Chr7 exon 96756936 96757001 96756936 ID=MsaT040105.1.exon4;Parent=MsaT040105.1
Chr7 CDS 96756936 96757001 96756936 ID=cds.MsaT040105.1;Parent=MsaT040105.1
Chr7 exon 96757166 96757231 96757166 ID=MsaT040105.1.exon5;Parent=MsaT040105.1
Chr7 CDS 96757166 96757231 96757166 ID=cds.MsaT040105.1;Parent=MsaT040105.1
Chr7 exon 96757335 96758189 96757335 ID=MsaT040105.1.exon6;Parent=MsaT040105.1
Chr7 CDS 96757335 96758189 96757335 ID=cds.MsaT040105.1;Parent=MsaT040105.1
Gene Sequence

>MsaT040105.1

ATGGATTCACAGAAACGCTATGCTTCAACTTCTTCTTCTCTTTCTCTTTCTCCCACTTCTTCATCTTCCTCTTCTTCCTCATGTCCGTCGGAAGATCCTCCCGTGAAGACGGAGGAGATTGAGGCGGCGGAGACTCTTGCTTACCTGGCACGACTAGCAATGCGCCATACAGCTCATTCCGCCGATATATGTTGCACCCAACCAGACACCTGCCTATTCATAAGTGATTCAACTATTCCTCACTCGGATCCTCCTACGGTTAGGGGCCAAGCTGTTGCAAGTCAGCAGCTAGATCAAAAAATATCCAGTTCTACATCCGTAAAAACAGAAAGGATTCAGCAGAATGACTGCTTAAAAAACATGAAGGTGGAGCAAGATGCCTATTACCCTAAGACTACTCACTCCAATAAGTCGAGACGGAATTTAACCGAGGAAGAAAAAGAAGCACGGAGAATACGAAGGGTATTGGCAAATAGAGAGTCAGCTAGGCAAACAATTCGCCGTAGGCAGGCTCTGAGTGAGGAGTTAAGCAGAAAAGCTGCCACCTTAGCGATGGAAAATGAAAACCTGAAGAGGAAGAAGGAGTCGGCTTTGAAAGAGTATCAGTCTTTAGAGACTACTAATAAGCTCTTAAAGGCACAAATAGCTAAGTCAATAAACACTGAAGTGGAGAAAACTCCTGTTGTGCAGGAGTTGTCTATGTCCGAGGTATCACCTGCACCTGGTACTAGTCCATGGTTTCTTTATAACCATTTTCCAGTTAGACAGTTATTTTGGCCCTCCATCCTTCCTTCATCTAATCAAGTTCAATTACAACATACACCATTTAATTCCATTGCCATTCCATCGCATGTATATGTACCATGCTCTTCTGAGTCTGAATCTCTTCACAAACAAAATAACCTAATAAATGACAATCAGAGACAGAATCCTTTGTACATGTTTCCATGTCCTTGGTTATACCCTCCTCCGGACATTGGAAACGGACAACCACCACCTTCCTGTGGCCTAGAAGATGAACAGGATAATCTTCCTCTAGGTGAACAATGTAGTACTACTTTATCCTTAAATAGTGTAGGAAATGGGGATTATCATGCTACTCTACCCATCAAACTGAAAACAGAAGCTTCTGACTGGACAGAATCCAGATCTAGTAATGACCTTGGTCATGCTACTCCAAGTTTTTCTTCGGATGGAGGTGAGCAAAAACCAAGATGTCACATTATTGAAAAGTTCCATGGACCTGCAGTTAATTGTAATGGTTACGCTTCTGTAGTCAAGCAAGAACCCGGGCTTCAATTACATTCCACTTCCATCACCAAGGTATCTTCAACAGCTTCTCATATCACAACTTCACAGGAAAAGAAACAAGAACAGTTCATATGCCCAGGCAAAAATCTAGTGGATGCAGTTGCTGCAGCAGAGGCACGGAAGAGGAGAAAGGAACTAACAAAACTAAAAAGCATTCAAAGCCGACAGTCTAGGATGGAGTGTTGA
Protein sequence

>MsaT040105.1

MDSQKRYASTSSSLSLSPTSSSSSSSSCPSEDPPVKTEEIEAAETLAYLARLAMRHTAHSADICCTQPDTCLFISDSTIPHSDPPTVRGQAVASQQLDQKISSSTSVKTERIQQNDCLKNMKVEQDAYYPKTTHSNKSRRNLTEEEKEARRIRRVLANRESARQTIRRRQALSEELSRKAATLAMENENLKRKKESALKEYQSLETTNKLLKAQIAKSINTEVEKTPVVQELSMSEVSPAPGTSPWFLYNHFPVRQLFWPSILPSSNQVQLQHTPFNSIAIPSHVYVPCSSESESLHKQNNLINDNQRQNPLYMFPCPWLYPPPDIGNGQPPPSCGLEDEQDNLPLGEQCSTTLSLNSVGNGDYHATLPIKLKTEASDWTESRSSNDLGHATPSFSSDGGEQKPRCHIIEKFHGPAVNCNGYASVVKQEPGLQLHSTSITKVSSTASHITTSQEKKQEQFICPGKNLVDAVAAAEARKRRKELTKLKSIQSRQSRMEC*