AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene033497

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033497.t1 MTR_7g080390 98.462 130 2 0 1 130 1 130 7.91e-93 264
MS.gene033497.t1 MTR_7g080760 51.240 121 49 3 10 129 7 118 2.50e-35 118
MS.gene033497.t1 MTR_4g133928 51.948 77 37 0 54 130 47 123 1.99e-21 83.2
MS.gene033497.t1 MTR_0446s0010 58.929 56 23 0 54 109 47 102 4.89e-16 68.9
MS.gene033497.t1 MTR_8g099920 41.772 79 44 2 53 130 59 136 2.70e-11 57.4
MS.gene033497.t1 MTR_8g099920 41.772 79 44 2 53 130 61 138 2.81e-11 57.4
MS.gene033497.t1 MTR_4g118750 35.398 113 67 3 16 123 4 115 5.81e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033497.t1 AT1G65290 72.932 133 26 3 1 130 1 126 4.19e-60 181
MS.gene033497.t1 AT2G44620 52.713 129 53 4 1 129 1 121 1.12e-35 119
MS.gene033497.t1 AT5G47630 37.097 124 71 3 10 130 8 127 8.30e-20 79.3
MS.gene033497.t1 AT5G47630 37.097 124 71 3 10 130 8 127 8.30e-20 79.3
MS.gene033497.t1 AT5G47630 37.097 124 71 3 10 130 8 127 8.30e-20 79.3

Find 36 sgRNAs with CRISPR-Local

Find 93 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTAGAAGGATCAACTTTC+TGG 0.153197 7.3:-27102192 None:intergenic
ATCTTGTCTGCTTCATTATC+AGG 0.242778 7.3:-27103758 None:intergenic
GAAACGACGAAGGAAGAAAT+TGG 0.274656 7.3:-27102095 None:intergenic
TATCCAATCCAAGGTCATTC+TGG 0.280875 7.3:-27103679 None:intergenic
CCAGAAAGTTGATCCTTCTA+AGG 0.310928 7.3:+27102192 MS.gene033497:CDS
GTCGTTTCAGCGAAGAGGTT+AGG 0.325470 7.3:+27102110 MS.gene033497:CDS
TGACCTTGGATTGGATAGTT+TGG 0.330609 7.3:+27103685 MS.gene033497:CDS
ATGGCTCTTGAGGAAGAGTT+TGG 0.348440 7.3:+27103725 MS.gene033497:CDS
TCGTTTCAGCGAAGAGGTTA+GGG 0.350830 7.3:+27102111 MS.gene033497:CDS
AGGAATGAATATACCTTAGA+AGG 0.366704 7.3:-27102205 None:intergenic
TGGCTCTTGAGGAAGAGTTT+GGG 0.415460 7.3:+27103726 MS.gene033497:CDS
ACAATGGCGGCGAGAAGAAC+CGG 0.449215 7.3:+27101995 None:intergenic
TTTCCAGAATGACCTTGGAT+TGG 0.459097 7.3:+27103676 MS.gene033497:CDS
CTTCATTGCATCTCATCCTC+AGG 0.467249 7.3:+27103805 MS.gene033497:CDS
GTAATTGATCAGAGGTAAAC+CGG 0.480151 7.3:-27102014 None:intergenic
AAACGACGAAGGAAGAAATT+GGG 0.492698 7.3:-27102094 None:intergenic
GCTCATTTCCAGAATGACCT+TGG 0.503501 7.3:+27103671 MS.gene033497:CDS
AAAGGCGATTGGTGGTTCAA+TGG 0.507901 7.3:-27102061 None:intergenic
CTCATCCTCAGGCAAAGTAA+TGG 0.513408 7.3:+27103816 MS.gene033497:CDS
TCATTCTGGAAATGAGCACT+TGG 0.522843 7.3:-27103665 None:intergenic
CCTTCGTCGTTTCAGCGAAG+AGG 0.534191 7.3:+27102105 MS.gene033497:CDS
GAGAATCAACTTGCACTCTC+AGG 0.548584 7.3:-27102036 None:intergenic
CATTCTGGAAATGAGCACTT+GGG 0.569313 7.3:-27103664 None:intergenic
GAAGAAGACGGAAAGGCGAT+TGG 0.569472 7.3:-27102072 None:intergenic
GAAGACGGAAAGGCGATTGG+TGG 0.580452 7.3:-27102069 None:intergenic
GAATTCCATTACTTTGCCTG+AGG 0.593411 7.3:-27103821 None:intergenic
AGAGATTGTGATGGCTCTTG+AGG 0.598690 7.3:+27103715 MS.gene033497:CDS
CGTTTCAGCGAAGAGGTTAG+GGG 0.604330 7.3:+27102112 MS.gene033497:CDS
GGATGCTGTAGAGATTGTGA+TGG 0.619499 7.3:+27103706 MS.gene033497:CDS
AAATTGGGAAGAAGACGGAA+AGG 0.623328 7.3:-27102079 None:intergenic
GGAAGAAATTGGGAAGAAGA+CGG 0.626548 7.3:-27102084 None:intergenic
CATCCAAACTATCCAATCCA+AGG 0.636485 7.3:-27103688 None:intergenic
TACGTTTCTCGACAAATCTG+AGG 0.640218 7.3:+27102135 MS.gene033497:CDS
ATTCTGGAAATGAGCACTTG+GGG 0.645151 7.3:-27103663 None:intergenic
CCTCTTCGCTGAAACGACGA+AGG 0.663136 7.3:-27102105 None:intergenic
ACTCTCAGGTAATTGATCAG+AGG 0.675792 7.3:-27102022 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAATTATTTCCGATAATT+AGG + chr7.3:27102341-27102360 MS.gene033497:intron 15.0%
!! AACTAAAACAATGTTATTAT+CGG - chr7.3:27103092-27103111 None:intergenic 15.0%
!! TACAAAAATATATAAATCCT+TGG + chr7.3:27102935-27102954 MS.gene033497:intron 15.0%
!!! ATTGTTTTCATATAAGTTAT+AGG + chr7.3:27102442-27102461 MS.gene033497:intron 15.0%
!!! TTGTTTTCATATAAGTTATA+GGG + chr7.3:27102443-27102462 MS.gene033497:intron 15.0%
!!! TTTAACTTTATTTTACCTTT+TGG - chr7.3:27102553-27102572 None:intergenic 15.0%
!! TGATGAATGAAACAATAATT+AGG - chr7.3:27102261-27102280 None:intergenic 20.0%
!! TTCACTTTATCTTTAGTTAT+AGG - chr7.3:27102418-27102437 None:intergenic 20.0%
!!! AACATTGTTTTAGTTATATG+AGG + chr7.3:27103097-27103116 MS.gene033497:intron 20.0%
!!! ATTTTTGTATTGCATTTTAG+TGG - chr7.3:27102924-27102943 None:intergenic 20.0%
!!! TAAGCTAGATTATTTTCTTA+AGG - chr7.3:27102737-27102756 None:intergenic 20.0%
! AAGTGATTACTTCATTTAAG+AGG + chr7.3:27103203-27103222 MS.gene033497:intron 25.0%
! AATTGAGTGTAATTCTTACA+TGG - chr7.3:27103013-27103032 None:intergenic 25.0%
! ATAAACTTGTGAGACTAATT+GGG - chr7.3:27103438-27103457 None:intergenic 25.0%
! ATATAAGAATTGCTCATTGA+TGG - chr7.3:27102888-27102907 None:intergenic 25.0%
! ATTAACGTGATGTTATTGTT+AGG + chr7.3:27102280-27102299 MS.gene033497:intron 25.0%
! CAATTCTTATATGAAGCTAA+AGG + chr7.3:27102896-27102915 MS.gene033497:intron 25.0%
! GAAACGAATGATAATAATAG+AGG - chr7.3:27102228-27102247 None:intergenic 25.0%
! GTATATGCTATAAGCTATAT+TGG + chr7.3:27102581-27102600 MS.gene033497:intron 25.0%
! TAAGCTACTTATATACCAAA+AGG + chr7.3:27102535-27102554 MS.gene033497:intron 25.0%
! TACTTCATTTAAGAGGATTA+AGG + chr7.3:27103210-27103229 MS.gene033497:intron 25.0%
! TATAAACTTGTGAGACTAAT+TGG - chr7.3:27103439-27103458 None:intergenic 25.0%
! TATAAATCCTTGGATTTGAT+TGG + chr7.3:27102945-27102964 MS.gene033497:intron 25.0%
! TCCAAACATTACCTAATTAT+CGG - chr7.3:27102355-27102374 None:intergenic 25.0%
!!! TAACTTGTTTGAAAACAGTT+TGG - chr7.3:27103326-27103345 None:intergenic 25.0%
AAACATTTCATACGCTACTT+TGG + chr7.3:27102708-27102727 MS.gene033497:intron 30.0%
AAAGCTGGTAGCAATATTAA+AGG - chr7.3:27102859-27102878 None:intergenic 30.0%
AAAGTAGCGTATGAAATGTT+TGG - chr7.3:27102709-27102728 None:intergenic 30.0%
AACATAACCAATCAAATCCA+AGG - chr7.3:27102955-27102974 None:intergenic 30.0%
AAGAAGTTAGAAACAGCTTA+TGG + chr7.3:27103383-27103402 MS.gene033497:intron 30.0%
ACAAATAAACCAATCCAAAC+AGG + chr7.3:27103468-27103487 MS.gene033497:intron 30.0%
ACTTCAAACAGTAAAGTGTA+AGG - chr7.3:27103527-27103546 None:intergenic 30.0%
AGGAATGAATATACCTTAGA+AGG - chr7.3:27102208-27102227 None:intergenic 30.0%
CAAATAAACCAATCCAAACA+GGG + chr7.3:27103469-27103488 MS.gene033497:intron 30.0%
CTTATACTCTCTTGTTAACA+TGG + chr7.3:27103610-27103629 MS.gene033497:intron 30.0%
TCCGATAATTAGGTAATGTT+TGG + chr7.3:27102351-27102370 MS.gene033497:intron 30.0%
TTAGGTAATGTTTGGATCAA+CGG + chr7.3:27102359-27102378 MS.gene033497:intron 30.0%
! TTGGATTTGATTGGTTATGT+TGG + chr7.3:27102954-27102973 MS.gene033497:intron 30.0%
!! TTGAAGTGTGTTTGTCATTT+TGG + chr7.3:27103540-27103559 MS.gene033497:intron 30.0%
AAACGACGAAGGAAGAAATT+GGG - chr7.3:27102097-27102116 None:intergenic 35.0%
ATCTTGTCTGCTTCATTATC+AGG - chr7.3:27103761-27103780 None:intergenic 35.0%
CATCTACTCATGTAAGCATT+CGG - chr7.3:27102804-27102823 None:intergenic 35.0%
CTAGCTTATAGATGTGTCAT+TGG + chr7.3:27102749-27102768 MS.gene033497:intron 35.0%
CTGATAAATGGAAAGAAGCA+CGG - chr7.3:27103639-27103658 None:intergenic 35.0%
CTGGTAGCAATATTAAAGGA+AGG - chr7.3:27102855-27102874 None:intergenic 35.0%
GATGAAATTATCACTGCCAA+GGG + chr7.3:27103167-27103186 MS.gene033497:intron 35.0%
GTAATTGATCAGAGGTAAAC+CGG - chr7.3:27102017-27102036 None:intergenic 35.0%
! TAAGCTATCTTAGAGAGCAT+AGG + chr7.3:27103359-27103378 MS.gene033497:intron 35.0%
! TGATAAATGGAAAGAAGCAC+GGG - chr7.3:27103638-27103657 None:intergenic 35.0%
AAATTGGGAAGAAGACGGAA+AGG - chr7.3:27102082-27102101 None:intergenic 40.0%
ACATTGTTCAGGAGAGCTTA+TGG - chr7.3:27102781-27102800 None:intergenic 40.0%
ACTCTCAGGTAATTGATCAG+AGG - chr7.3:27102025-27102044 None:intergenic 40.0%
ACTTGGGGTAACCTGATAAA+TGG - chr7.3:27103651-27103670 None:intergenic 40.0%
AGCGTATGAAATGTTTGGCT+TGG - chr7.3:27102704-27102723 None:intergenic 40.0%
AGCTTATCTACGAGACTCTT+TGG - chr7.3:27102673-27102692 None:intergenic 40.0%
AGTACACAATTGCTTGCAGA+GGG - chr7.3:27103577-27103596 None:intergenic 40.0%
CATCCAAACTATCCAATCCA+AGG - chr7.3:27103691-27103710 None:intergenic 40.0%
CCTTAGAAGGATCAACTTTC+TGG - chr7.3:27102195-27102214 None:intergenic 40.0%
CGATGAAATTATCACTGCCA+AGG + chr7.3:27103166-27103185 MS.gene033497:intron 40.0%
CGTGCTTCTTTCCATTTATC+AGG + chr7.3:27103637-27103656 MS.gene033497:intron 40.0%
CTTAAGAGAGATCAAACCCT+TGG - chr7.3:27103186-27103205 None:intergenic 40.0%
GAAACGACGAAGGAAGAAAT+TGG - chr7.3:27102098-27102117 None:intergenic 40.0%
GCTTATCTACGAGACTCTTT+GGG - chr7.3:27102672-27102691 None:intergenic 40.0%
GGAAGAAATTGGGAAGAAGA+CGG - chr7.3:27102087-27102106 None:intergenic 40.0%
GTTTACACTATAGCCCTGTT+TGG - chr7.3:27103485-27103504 None:intergenic 40.0%
TAAGCATTCGGACATTGTTC+AGG - chr7.3:27102792-27102811 None:intergenic 40.0%
TACGTTTCTCGACAAATCTG+AGG + chr7.3:27102135-27102154 MS.gene033497:CDS 40.0%
TAGTACACAATTGCTTGCAG+AGG - chr7.3:27103578-27103597 None:intergenic 40.0%
TATCCAATCCAAGGTCATTC+TGG - chr7.3:27103682-27103701 None:intergenic 40.0%
TTTCCAGAATGACCTTGGAT+TGG + chr7.3:27103676-27103695 MS.gene033497:CDS 40.0%
! ATTCTGGAAATGAGCACTTG+GGG - chr7.3:27103666-27103685 None:intergenic 40.0%
! CATTCTGGAAATGAGCACTT+GGG - chr7.3:27103667-27103686 None:intergenic 40.0%
! CCAGAAAGTTGATCCTTCTA+AGG + chr7.3:27102192-27102211 MS.gene033497:CDS 40.0%
! TCATTCTGGAAATGAGCACT+TGG - chr7.3:27103668-27103687 None:intergenic 40.0%
! TGACCTTGGATTGGATAGTT+TGG + chr7.3:27103685-27103704 MS.gene033497:CDS 40.0%
AGAGATTGTGATGGCTCTTG+AGG + chr7.3:27103715-27103734 MS.gene033497:CDS 45.0%
ATGGCTCTTGAGGAAGAGTT+TGG + chr7.3:27103725-27103744 MS.gene033497:CDS 45.0%
CACTATAGCCCTGTTTGGAT+TGG - chr7.3:27103480-27103499 None:intergenic 45.0%
CTTCATTGCATCTCATCCTC+AGG + chr7.3:27103805-27103824 MS.gene033497:CDS 45.0%
CTTGTGAGACTAATTGGGAG+AGG - chr7.3:27103433-27103452 None:intergenic 45.0%
GAGAATCAACTTGCACTCTC+AGG - chr7.3:27102039-27102058 None:intergenic 45.0%
GCTCATTTCCAGAATGACCT+TGG + chr7.3:27103671-27103690 MS.gene033497:CDS 45.0%
GGATGCTGTAGAGATTGTGA+TGG + chr7.3:27103706-27103725 MS.gene033497:CDS 45.0%
TCGTTTCAGCGAAGAGGTTA+GGG + chr7.3:27102111-27102130 MS.gene033497:CDS 45.0%
TGGCTCTTGAGGAAGAGTTT+GGG + chr7.3:27103726-27103745 MS.gene033497:CDS 45.0%
! AAAGGCGATTGGTGGTTCAA+TGG - chr7.3:27102064-27102083 None:intergenic 45.0%
! CATTGATGGCATCGTAAAGC+TGG - chr7.3:27102874-27102893 None:intergenic 45.0%
CGTTTCAGCGAAGAGGTTAG+GGG + chr7.3:27102112-27102131 MS.gene033497:CDS 50.0%
GAAGAAGACGGAAAGGCGAT+TGG - chr7.3:27102075-27102094 None:intergenic 50.0%
GTCGTTTCAGCGAAGAGGTT+AGG + chr7.3:27102110-27102129 MS.gene033497:CDS 50.0%
CCTCTTCGCTGAAACGACGA+AGG - chr7.3:27102108-27102127 None:intergenic 55.0%
CCTTCGTCGTTTCAGCGAAG+AGG + chr7.3:27102105-27102124 MS.gene033497:CDS 55.0%
GAAGACGGAAAGGCGATTGG+TGG - chr7.3:27102072-27102091 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 27101998 27103835 27101998 ID=MS.gene033497
chr7.3 mRNA 27101998 27103835 27101998 ID=MS.gene033497.t1;Parent=MS.gene033497
chr7.3 exon 27101998 27102213 27101998 ID=MS.gene033497.t1.exon1;Parent=MS.gene033497.t1
chr7.3 CDS 27101998 27102213 27101998 ID=cds.MS.gene033497.t1;Parent=MS.gene033497.t1
chr7.3 exon 27103659 27103835 27103659 ID=MS.gene033497.t1.exon2;Parent=MS.gene033497.t1
chr7.3 CDS 27103659 27103835 27103659 ID=cds.MS.gene033497.t1;Parent=MS.gene033497.t1
Gene Sequence

>MS.gene033497

ATGGCGGCGAGAAGAACCGGTTTACCTCTGATCAATTACCTGAGAGTGCAAGTTGATTCTCGTCCATTGAACCACCAATCGCCTTTCCGTCTTCTTCCCAATTTCTTCCTTCGTCGTTTCAGCGAAGAGGTTAGGGGTACGTTTCTCGACAAATCTGAGGTCACAGATCGCGTCGTTTCTTGCGTCAAAAACTTCCAGAAAGTTGATCCTTCTAAGGTATATTCATTCCTCTATTATTATCATTCGTTTCTTTTCAATCTCCTAATTATTGTTTCATTCATCATTAACGTGATGTTATTGTTAGGTTTAGCTGTTAACTTTGCTTATTTTCACTTATTTTGCAAAAAATTATTTCCGATAATTAGGTAATGTTTGGATCAACGGATTAATTAAGCACTAATAGCATACATGTTTATTCCTATAACTAAAGATAAAGTGAATTACATTGTTTTCATATAAGTTATAGGGCGTGTTTCGATAAACAACTTGTTTGCAGCTTATAGCATATCATGATAAGTGCATATGCATAAGCTTACATAAGCTACTTATATACCAAAAGGTAAAATAAAGTTAAATTATTTTTGTATATGCTATAAGCTATATTGGAGAACTTGTGAAAATAAACTGAAAAAAGCTTATGAAAATTGTCATAAGCTGTTTTCATAAGTTCTCCCAAAGAGTCTCGTAGATAAGCTCAAATAAGCCAAGCCAAACATTTCATACGCTACTTTGGAGACCTTAAGAAAATAATCTAGCTTATAGATGTGTCATTGGTTGTTTCCATAAGCTCTCCTGAACAATGTCCGAATGCTTACATGAGTAGATGAGCTCAAATAAATCAAACAGACTCATGACCTTCCTTTAATATTGCTACCAGCTTTACGATGCCATCAATGAGCAATTCTTATATGAAGCTAAAGGCACCACTAAAATGCAATACAAAAATATATAAATCCTTGGATTTGATTGGTTATGTTGGTAGATTTTTTCTAAAATTCTGTAGATATTGTATCCATGTAAGAATTACACTCAATTCTCAAATATCATTTTTAAGCTACTCTTGTTTGTAGACATCATATAACAAGTAGCAACCGATAATAACATTGTTTTAGTTATATGAGGTGCATTCTATGCTAGAATCTTTCATCAAAATAAATATTATTGTTTGCGATGAAATTATCACTGCCAAGGGTTTGATCTCTCTTAAGTGATTACTTCATTTAAGAGGATTAAGGCTTTGTTTAGATAAACTTACAGCTTAATCAATTGATTATCATATAAGTGCTTAAGTATAAGCAATTTCTATTACATGAGATGAAATAAAGCCAAACTGTTTTCAAACAAGTTATTAGCTGTTTTCATAAGCTATCTTAGAGAGCATAGGAAAGAAGTTAGAAACAGCTTATGGACATGTCGTAAGCTGTTTAAATAACCTCTCCCAATTAGTCTCACAAGTTTATATGCTAGTATACAAATAAACCAATCCAAACAGGGCTATAGTGTAAACTTGCACAACTGTTAAATAACCTTACACTTTACTGTTTGAAGTGTGTTTGTCATTTTGGAGAATTCAAGACCCTCTGCAAGCAATTGTGTACTATTTTAATTTTAGCTTATACTCTCTTGTTAACATGGAGCCCGTGCTTCTTTCCATTTATCAGGTTACCCCAAGTGCTCATTTCCAGAATGACCTTGGATTGGATAGTTTGGATGCTGTAGAGATTGTGATGGCTCTTGAGGAAGAGTTTGGGTTTGAGATTCCTGATAATGAAGCAGACAAGATCAACTCTGTTAATCTTGCAGTTGACTTCATTGCATCTCATCCTCAGGCAAAGTAA
Protein sequence

>MS.gene033497.t1

MAARRTGLPLINYLRVQVDSRPLNHQSPFRLLPNFFLRRFSEEVRGTFLDKSEVTDRVVSCVKNFQKVDPSKVTPSAHFQNDLGLDSLDAVEIVMALEEEFGFEIPDNEADKINSVNLAVDFIASHPQAK