AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene067419

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067419.t1 MTR_7g023810 64.072 167 45 4 5 156 1 167 1.88e-62 191
MS.gene067419.t1 MTR_1g115315 55.488 164 48 3 16 154 22 185 7.43e-51 164
MS.gene067419.t1 MTR_1g115315 55.488 164 48 3 16 154 22 185 1.04e-50 163
MS.gene067419.t1 MTR_3g115620 46.853 143 50 2 18 134 19 161 3.86e-39 132
MS.gene067419.t1 MTR_4g084550 39.286 84 44 1 58 141 64 140 1.75e-14 67.8
MS.gene067419.t1 MTR_8g107210 38.710 93 53 2 58 150 96 184 5.53e-14 68.6
MS.gene067419.t1 MTR_2g015000 41.935 62 36 0 58 119 55 116 4.37e-12 63.5
MS.gene067419.t1 MTR_7g060630 37.879 66 41 0 58 123 8 73 2.44e-11 59.7
MS.gene067419.t1 MTR_7g025010 36.145 83 52 1 37 119 27 108 2.45e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067419.t1 AT4G35550 49.102 167 57 4 16 154 35 201 5.75e-39 133
MS.gene067419.t1 AT1G20700 45.600 125 43 1 18 117 30 154 1.74e-34 120
MS.gene067419.t1 AT1G20700 45.600 125 43 1 18 117 30 154 2.51e-34 120
MS.gene067419.t1 AT1G20710 42.537 134 52 1 18 126 14 147 1.48e-25 97.1
MS.gene067419.t1 AT1G20700 45.349 86 47 0 32 117 7 92 1.53e-25 95.9
MS.gene067419.t1 AT5G45980 42.424 66 38 0 54 119 51 116 2.45e-13 66.6
MS.gene067419.t1 AT3G18010 31.731 104 67 1 28 127 42 145 6.19e-13 65.5
MS.gene067419.t1 AT2G33880 41.935 62 36 0 58 119 55 116 5.64e-12 63.2
MS.gene067419.t1 AT2G33880 41.935 62 36 0 58 119 55 116 5.88e-12 62.8
MS.gene067419.t1 AT2G28610 38.462 65 40 0 58 122 8 72 9.55e-12 61.6
MS.gene067419.t1 AT2G01500 43.636 55 31 0 58 112 61 115 1.76e-11 61.2

Find 24 sgRNAs with CRISPR-Local

Find 88 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAACTTACTAGTGCGATTT+TGG 0.200209 2.4:-1543082 None:intergenic
CTGAGACCAATGTATATAAT+TGG 0.221984 2.4:+1543469 MS.gene067419:CDS
GGGAGTAGCAATTATCTTAC+TGG 0.353157 2.4:+1544797 MS.gene067419:intron
ACCTGTACAACTTCAAACTA+TGG 0.358508 2.4:+1543359 MS.gene067419:CDS
TCCAAGCAAGGAAAAGATAA+AGG 0.385115 2.4:+1543410 MS.gene067419:CDS
CTCAGAAATTTGTCCGTGCT+TGG 0.426170 2.4:-1543451 None:intergenic
TTGGACTAGATATGAATTCA+AGG 0.448892 2.4:+1543319 MS.gene067419:intron
TCCATAGTTTGAAGTTGTAC+AGG 0.451456 2.4:-1543360 None:intergenic
GAAAGGCATGGAGATCTTGA+TGG 0.460857 2.4:+1542935 None:intergenic
CATATGCATGGTTACTCCTC+AGG 0.462915 2.4:-1544833 None:intergenic
TATGAATTCAAGGCATCGTT+GGG 0.483810 2.4:+1543329 MS.gene067419:CDS
CAAGAGAAAGCATCGGAGTA+GGG 0.507277 2.4:+1543515 MS.gene067419:CDS
ACAAGAGAAAGCATCGGAGT+AGG 0.511487 2.4:+1543514 MS.gene067419:CDS
GCAAATATTTGAAGATGAGA+CGG 0.560708 2.4:+1543383 MS.gene067419:CDS
CTGAAACCAATTATATACAT+TGG 0.563327 2.4:-1543475 None:intergenic
GGTTTCAGAACAGACGTGCT+AGG 0.577434 2.4:+1543490 MS.gene067419:CDS
GTTGTTGATTTAGCCAAGCA+CGG 0.577536 2.4:+1543438 MS.gene067419:CDS
ATATGAATTCAAGGCATCGT+TGG 0.578747 2.4:+1543328 MS.gene067419:CDS
GTTTGAAGTTGTACAGGTGT+TGG 0.595078 2.4:-1543354 None:intergenic
GGTTAATGTTGAATCAGAAG+TGG 0.597468 2.4:+1543536 MS.gene067419:CDS
TGAGACGGAGTCTCCAAGCA+AGG 0.651947 2.4:+1543398 MS.gene067419:CDS
CTTATCATCAGAATCAACCT+CGG 0.655992 2.4:-1543562 None:intergenic
CTAGGTACAAGAGAAAGCAT+CGG 0.670064 2.4:+1543508 MS.gene067419:CDS
TGAATCAGAAGTGGAGACCG+AGG 0.711591 2.4:+1543545 MS.gene067419:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAAAAAAAAAAAAAAGTTAA+GGG + chr2.4:1543181-1543200 MS.gene067419:intron 10.0%
!! TCAAAAAAAAAAAAAAGTTA+AGG + chr2.4:1543180-1543199 MS.gene067419:intron 10.0%
!!! TAAAATTTTATAATAAAGAG+AGG - chr2.4:1544738-1544757 None:intergenic 10.0%
!! TGTCAATTAAAAAATATTCA+TGG + chr2.4:1544301-1544320 MS.gene067419:intron 15.0%
!! TTATTTATACTTCATTGTAT+TGG + chr2.4:1544615-1544634 MS.gene067419:intron 15.0%
!!! CAAAGAAAAATTCTTTTATT+AGG - chr2.4:1544671-1544690 None:intergenic 15.0%
!!! CAATTTTTTTTTTTTTTGAG+GGG + chr2.4:1543747-1543766 MS.gene067419:intron 15.0%
!!! GCAATTTTTTTTTTTTTTGA+GGG + chr2.4:1543746-1543765 MS.gene067419:intron 15.0%
!!! TCTTGTGATTTAATTTAATT+TGG + chr2.4:1544244-1544263 MS.gene067419:intron 15.0%
!!! TGCAATTTTTTTTTTTTTTG+AGG + chr2.4:1543745-1543764 MS.gene067419:intron 15.0%
!! AAAAACATAGAAACATGTAA+CGG - chr2.4:1543672-1543691 None:intergenic 20.0%
!! AACTGAATAAAATAACAATC+TGG - chr2.4:1543264-1543283 None:intergenic 20.0%
!! TAAAAAATTCTTGCAATACA+TGG - chr2.4:1544460-1544479 None:intergenic 20.0%
!! TATAAACTACATTCTTTAGT+TGG - chr2.4:1543637-1543656 None:intergenic 20.0%
!! TCTTTGACTAAATTAACTAA+TGG + chr2.4:1543967-1543986 MS.gene067419:intron 20.0%
!!! AAAATTCTTTTATTAGGTGA+CGG - chr2.4:1544665-1544684 None:intergenic 20.0%
!!! ATTAGTATTTTACGAATGTA+GGG + chr2.4:1543719-1543738 MS.gene067419:intron 20.0%
! CATGATGATCACATTTAATT+AGG + chr2.4:1543231-1543250 MS.gene067419:intron 25.0%
! CTGAAACCAATTATATACAT+TGG - chr2.4:1543478-1543497 None:intergenic 25.0%
! TAAGTTCACTAGTAAGTTTA+GGG + chr2.4:1543097-1543116 MS.gene067419:intron 25.0%
! TTAAAGAAAGTCACATTTAG+AGG + chr2.4:1544048-1544067 MS.gene067419:intron 25.0%
!! AAGAAAGTGTAACTGAATTT+AGG - chr2.4:1543295-1543314 None:intergenic 25.0%
!! CAGTTACACTTTCTTTTTAT+TGG + chr2.4:1543300-1543319 MS.gene067419:intron 25.0%
!! GATTAGTATTTTACGAATGT+AGG + chr2.4:1543718-1543737 MS.gene067419:intron 25.0%
!!! CATAAACTGCAATTTGTTTT+CGG - chr2.4:1543025-1543044 None:intergenic 25.0%
!!! GCAAGAATTTTTTAGCATTT+GGG + chr2.4:1544466-1544485 MS.gene067419:intron 25.0%
!!! TGCAAGAATTTTTTAGCATT+TGG + chr2.4:1544465-1544484 MS.gene067419:intron 25.0%
!!! TTTGGTTTTTATGCATTTGA+AGG - chr2.4:1543067-1543086 None:intergenic 25.0%
AAAGACTATTGACACATTCT+AGG + chr2.4:1544098-1544117 MS.gene067419:intron 30.0%
ATAATGAAGCTTACCTTAGA+GGG - chr2.4:1543802-1543821 None:intergenic 30.0%
CTGAGACCAATGTATATAAT+TGG + chr2.4:1543469-1543488 MS.gene067419:CDS 30.0%
GCAAATATTTGAAGATGAGA+CGG + chr2.4:1543383-1543402 MS.gene067419:CDS 30.0%
GTAAGTTCACTAGTAAGTTT+AGG + chr2.4:1543096-1543115 MS.gene067419:intron 30.0%
! ATTTGTTTCCTCTCTTCTTT+TGG + chr2.4:1544580-1544599 MS.gene067419:intron 30.0%
! TTGGACTAGATATGAATTCA+AGG + chr2.4:1543319-1543338 MS.gene067419:intron 30.0%
ACCTGTACAACTTCAAACTA+TGG + chr2.4:1543359-1543378 MS.gene067419:CDS 35.0%
ACTAATGGAAGAGACATTCT+AGG + chr2.4:1543982-1544001 MS.gene067419:intron 35.0%
CACTGTGTTTGTATTATGAG+TGG + chr2.4:1544490-1544509 MS.gene067419:intron 35.0%
CATAATGAAGCTTACCTTAG+AGG - chr2.4:1543803-1543822 None:intergenic 35.0%
CTTATCATCAGAATCAACCT+CGG - chr2.4:1543565-1543584 None:intergenic 35.0%
GACATTGTCTAACACATCAA+GGG - chr2.4:1543882-1543901 None:intergenic 35.0%
GGATCAAGCTAACTAACAAA+AGG + chr2.4:1544003-1544022 MS.gene067419:intron 35.0%
GGTTAATGTTGAATCAGAAG+TGG + chr2.4:1543536-1543555 MS.gene067419:CDS 35.0%
TCCAAGCAAGGAAAAGATAA+AGG + chr2.4:1543410-1543429 MS.gene067419:CDS 35.0%
TGACATTGTCTAACACATCA+AGG - chr2.4:1543883-1543902 None:intergenic 35.0%
! ATTCTCTCTGGTGTCAATTT+AGG + chr2.4:1543139-1543158 MS.gene067419:intron 35.0%
! TAGAAACATGTAACGGAAGA+AGG - chr2.4:1543665-1543684 None:intergenic 35.0%
! TCCATAGTTTGAAGTTGTAC+AGG - chr2.4:1543363-1543382 None:intergenic 35.0%
! TCCTTTATCTTTTCCTTGCT+TGG - chr2.4:1543414-1543433 None:intergenic 35.0%
! TGAACTTACTAGTGCGATTT+TGG - chr2.4:1543085-1543104 None:intergenic 35.0%
! TTTGAAGTCAACTTTGAGCA+AGG - chr2.4:1543826-1543845 None:intergenic 35.0%
!! ACCACATATTACTTTTCGCA+GGG + chr2.4:1544777-1544796 MS.gene067419:intron 35.0%
!! ATATGAATTCAAGGCATCGT+TGG + chr2.4:1543328-1543347 MS.gene067419:CDS 35.0%
!! TATGAATTCAAGGCATCGTT+GGG + chr2.4:1543329-1543348 MS.gene067419:CDS 35.0%
!! TTTTTGAGGGGTTGAATGAA+GGG + chr2.4:1543759-1543778 MS.gene067419:intron 35.0%
!!! TTTTTTGAGGGGTTGAATGA+AGG + chr2.4:1543758-1543777 MS.gene067419:intron 35.0%
CAACTCAACCAAAAGAAGAG+AGG - chr2.4:1544591-1544610 None:intergenic 40.0%
GCAAGTTAATAGTCCCTCTA+AGG + chr2.4:1543786-1543805 MS.gene067419:intron 40.0%
GGGAGTAGCAATTATCTTAC+TGG + chr2.4:1544797-1544816 MS.gene067419:intron 40.0%
TAAATCACAAGACTCCACAC+TGG - chr2.4:1544236-1544255 None:intergenic 40.0%
TAAGCTTGAGCAATACGTCA+GGG - chr2.4:1544208-1544227 None:intergenic 40.0%
TCCCTGCGAAAAGTAATATG+TGG - chr2.4:1544781-1544800 None:intergenic 40.0%
TTAAGCTTGAGCAATACGTC+AGG - chr2.4:1544209-1544228 None:intergenic 40.0%
! ACTAACAAAAGGTATGCTCG+AGG + chr2.4:1544014-1544033 MS.gene067419:intron 40.0%
! CTAACAAAAGGTATGCTCGA+GGG + chr2.4:1544015-1544034 MS.gene067419:intron 40.0%
! CTAGGTACAAGAGAAAGCAT+CGG + chr2.4:1543508-1543527 MS.gene067419:CDS 40.0%
! GTTTGAAGTTGTACAGGTGT+TGG - chr2.4:1543357-1543376 None:intergenic 40.0%
! TCTCTGGTGTCAATTTAGGT+GGG + chr2.4:1543143-1543162 MS.gene067419:intron 40.0%
! TTTTCGCTCTTGCAATTACG+AGG + chr2.4:1544548-1544567 MS.gene067419:intron 40.0%
!! CACCACATATTACTTTTCGC+AGG + chr2.4:1544776-1544795 MS.gene067419:intron 40.0%
!! GTTGTTGATTTAGCCAAGCA+CGG + chr2.4:1543438-1543457 MS.gene067419:CDS 40.0%
!! TGGAAAAATGAAAGCACCTG+AGG + chr2.4:1544817-1544836 MS.gene067419:CDS 40.0%
CTCAGAAATTTGTCCGTGCT+TGG - chr2.4:1543454-1543473 None:intergenic 45.0%
TCAAGCTTAATGAGCCAGTG+TGG + chr2.4:1544219-1544238 MS.gene067419:intron 45.0%
! CTCTCTGGTGTCAATTTAGG+TGG + chr2.4:1543142-1543161 MS.gene067419:intron 45.0%
! GTTTAGGGTTATAGCGTCTC+AGG + chr2.4:1543112-1543131 MS.gene067419:intron 45.0%
! TAGGTGACGGTAAGTACAAG+TGG - chr2.4:1544652-1544671 None:intergenic 45.0%
!! ACAAGAGAAAGCATCGGAGT+AGG + chr2.4:1543514-1543533 MS.gene067419:CDS 45.0%
!! CAAGAGAAAGCATCGGAGTA+GGG + chr2.4:1543515-1543534 MS.gene067419:CDS 45.0%
!! TGAGTTTTGTGCGTCTCAAC+TGG + chr2.4:1543593-1543612 MS.gene067419:CDS 45.0%
!! CATAATAATATTATATAAAA+AGG - chr2.4:1544182-1544201 None:intergenic 5.0%
!! TTTATGAAATAAAAAAAAAT+TGG - chr2.4:1544336-1544355 None:intergenic 5.0%
!!! ATAAATTTTTAAATATTCTA+TGG + chr2.4:1544351-1544370 MS.gene067419:intron 5.0%
GGTTTCAGAACAGACGTGCT+AGG + chr2.4:1543490-1543509 MS.gene067419:CDS 50.0%
GTCTCAGGTTCGATTCTCTC+TGG + chr2.4:1543127-1543146 MS.gene067419:intron 50.0%
TGAATCAGAAGTGGAGACCG+AGG + chr2.4:1543545-1543564 MS.gene067419:CDS 50.0%
!!! GCGTCTCAACTGGCTTTTGA+TGG + chr2.4:1543603-1543622 MS.gene067419:CDS 50.0%
TGAGACGGAGTCTCCAAGCA+AGG + chr2.4:1543398-1543417 MS.gene067419:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 1542942 1544844 1542942 ID=MS.gene067419
chr2.4 mRNA 1542942 1544844 1542942 ID=MS.gene067419.t1;Parent=MS.gene067419
chr2.4 exon 1542942 1543095 1542942 ID=MS.gene067419.t1.exon1;Parent=MS.gene067419.t1
chr2.4 CDS 1542942 1543095 1542942 ID=cds.MS.gene067419.t1;Parent=MS.gene067419.t1
chr2.4 exon 1543328 1543624 1543328 ID=MS.gene067419.t1.exon2;Parent=MS.gene067419.t1
chr2.4 CDS 1543328 1543624 1543328 ID=cds.MS.gene067419.t1;Parent=MS.gene067419.t1
chr2.4 exon 1544798 1544844 1544798 ID=MS.gene067419.t1.exon3;Parent=MS.gene067419.t1
chr2.4 CDS 1544798 1544844 1544798 ID=cds.MS.gene067419.t1;Parent=MS.gene067419.t1
Gene Sequence

>MS.gene067419

ATGGAGATCTTGATGGAGTTGCAGATGAATGATTTGAATCAGAACGTAAATGTGATGACTGATGAACAAGTCGAAACTCTCCGAAAACAAATTGCAGTTTATGCTGTCATCTCTGAACAACTCCTTCAAATGCATAAAAACCAAAATCGCACTAGTAAGTTCACTAGTAAGTTTAGGGTTATAGCGTCTCAGGTTCGATTCTCTCTGGTGTCAATTTAGGTGGGTTAATTTAGCTTCTTCAAAAAAAAAAAAAAGTTAAGGGTTATAGTATCACATCACTCTCTCACTACATGATGATCACATTTAATTAGGTCATACTCCAGATTGTTATTTTATTCAGTTATAGAATACCTAAATTCAGTTACACTTTCTTTTTATTGGACTAGATATGAATTCAAGGCATCGTTGGGCACCAACACCTGTACAACTTCAAACTATGGAGCAAATATTTGAAGATGAGACGGAGTCTCCAAGCAAGGAAAAGATAAAGGAGATTGTTGTTGATTTAGCCAAGCACGGACAAATTTCTGAGACCAATGTATATAATTGGTTTCAGAACAGACGTGCTAGGTACAAGAGAAAGCATCGGAGTAGGGTTAATGTTGAATCAGAAGTGGAGACCGAGGTTGATTCTGATGATAAGAAGATCGATGAGTTTTGTGCGTCTCAACTGGCTTTTGATGGTATGCTATCCAACTAAAGAATGTAGTTTATATTGTTCCTTCTTCCGTTACATGTTTCTATGTTTTTTTGTATGTTTCTATGTTTTTATGTGAGATTAGTATTTTACGAATGTAGGGATTTGCAATTTTTTTTTTTTTTGAGGGGTTGAATGAAGGGATTTGCAAGTTAATAGTCCCTCTAAGGTAAGCTTCATTATGCCTTGCTCAAAGTTGACTTCAAAAAGAAGTTGAATTGAGCAAAACGTCATTTTAGTCCCTTGATGTGTTAGACAATGTCACTATAATATATCAAAATATACTGAAATGACACAAACATTCATAGTATTACTTTTGTTAGTAATATCTTTGACTAAATTAACTAATGGAAGAGACATTCTAGGATCAAGCTAACTAACAAAAGGTATGCTCGAGGGTCAAAACACATTAAAGAAAGTCACATTTAGAGGTATTTTTTAAAAAATTGATACATTAAAAAAGACTATTGACACATTCTAGGACTAAAATTATTATTTACTCAACTGAGTATTTTTTATAATATTATTATGTAATTGAGTCCTTTTTATATAATATTATTATGTTACCCTGACGTATTGCTCAAGCTTAATGAGCCAGTGTGGAGTCTTGTGATTTAATTTAATTTGGTACAATTTAGATTAGTTTCTTATTTATTAGAACTTGTCAATTAAAAAATATTCATGGTTTTAACTTCCAATTTTTTTTTATTTCATAAATTTTTAAATATTCTATGGAAAATTAAAAATGAGTGAGCATATGAAAATATTGAGATGTTACAAGAAGCTACTATTTTTTACAAAAAATAAAAATAAAAAATCCATGTATTGCAAGAATTTTTTAGCATTTGGGTCACTGTGTTTGTATTATGAGTGGTTTGTTAACTTTTTAGATTGTATTTTGAGATAGATTTTTCGCTCTTGCAATTACGAGGTGTACTTTGATTTGTTTCCTCTCTTCTTTTGGTTGAGTTGAGTATTATTTATACTTCATTGTATTGGTGAGTTTAGTACCACTTGTACTTACCGTCACCTAATAAAAGAATTTTTCTTTGATGATAAAAGAAAACGAAAAGTAATCTAGCTTCGAGTATTTGAGCCTCTCTTTATTATAAAATTTTACAATAAAGATTTTTGTTGCACCACATATTACTTTTCGCAGGGAGTAGCAATTATCTTACTGGAAAAATGAAAGCACCTGAGGAGTAA
Protein sequence

>MS.gene067419.t1

MEILMELQMNDLNQNVNVMTDEQVETLRKQIAVYAVISEQLLQMHKNQNRTNMNSRHRWAPTPVQLQTMEQIFEDETESPSKEKIKEIVVDLAKHGQISETNVYNWFQNRRARYKRKHRSRVNVESEVETEVDSDDKKIDEFCASQLAFDGSSNYLTGKMKAPEE