AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene78984


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78984.t1 MTR_3g085620 97.778 135 3 0 5 139 43 177 3.78e-99 282
MS.gene78984.t1 MTR_1g052405 70.455 132 39 0 5 136 195 326 6.11e-67 206
MS.gene78984.t1 MTR_1g052380 60.150 133 52 1 5 136 61 193 1.09e-55 174
MS.gene78984.t1 MTR_1g492730 51.493 134 63 1 5 136 170 303 3.30e-47 154
MS.gene78984.t1 MTR_4g014750 29.333 150 88 4 3 135 80 228 1.63e-13 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78984.t1 AT3G57810 66.412 131 44 0 5 135 173 303 5.03e-62 193
MS.gene78984.t1 AT3G57810 66.412 131 44 0 5 135 173 303 5.03e-62 193
MS.gene78984.t1 AT3G57810 66.412 131 44 0 5 135 173 303 5.03e-62 193
MS.gene78984.t1 AT2G38025 29.560 159 82 6 4 136 57 211 3.46e-13 64.3
MS.gene78984.t1 AT2G38025 29.560 159 82 6 4 136 80 234 4.58e-13 64.3
MS.gene78984.t1 AT3G57810 63.415 41 15 0 5 45 173 213 2.15e-11 59.3

Find 32 sgRNAs with CRISPR-Local

Find 96 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCTGCATGACCACTGTTAT+AGG 0.279175 3.1:-68363679 None:intergenic
CCATCATAGATGACTCTAAT+AGG 0.322276 3.1:-68363763 None:intergenic
GCTGAATACGGCCAGGAGTA+TGG 0.331664 3.1:+68363730 MS.gene78984:CDS
AGAGTCATCTATGATGGTTT+TGG 0.346483 3.1:+68363769 MS.gene78984:CDS
AAATGAGAAAGTCTCAAGTA+TGG 0.374440 3.1:+68363485 MS.gene78984:CDS
CTTTCTCATTTGAACTGTAT+AGG 0.374650 3.1:-68363473 None:intergenic
TGCGACGACATGAGAAGTTC+AGG 0.431577 3.1:-68363517 None:intergenic
TGGGTCCCCTCTTCTGAGGC+AGG 0.435858 3.1:-68362337 None:intergenic
CTTAAAATTATAGCTGAATA+CGG 0.456379 3.1:+68363718 MS.gene78984:CDS
CCTATTAGAGTCATCTATGA+TGG 0.458058 3.1:+68363763 MS.gene78984:CDS
ATGTTTAGATCTGTGGTCTA+TGG 0.466866 3.1:+68362312 MS.gene78984:CDS
GCCTGGTGAGACTTGGAGGT+GGG 0.474250 3.1:-68362356 None:intergenic
GATTCTCCTTTCCATACTCC+TGG 0.503121 3.1:-68363741 None:intergenic
AATGAGAAAGTCTCAAGTAT+GGG 0.519563 3.1:+68363486 MS.gene78984:CDS
ATATTGTACAGGTTTCTTGA+AGG 0.524544 3.1:+68363439 MS.gene78984:intron
AACATACATCTACCATCTCC+TGG 0.526181 3.1:-68362294 None:intergenic
AGAGGAGAGTAGACACTGAA+TGG 0.540031 3.1:+68362653 MS.gene78984:CDS
TGCCTGGTGAGACTTGGAGG+TGG 0.552260 3.1:-68362357 None:intergenic
AATTATAGCTGAATACGGCC+AGG 0.560297 3.1:+68363723 MS.gene78984:CDS
ATTTAGGATGCCTATAACAG+TGG 0.560992 3.1:+68363669 MS.gene78984:intron
GAGGTGGGTCCCCTCTTCTG+AGG 0.564647 3.1:-68362341 None:intergenic
ATGGTGCCTGCCTCAGAAGA+GGG 0.565144 3.1:+68362331 MS.gene78984:CDS
ACCCACCTCCAAGTCTCACC+AGG 0.567674 3.1:+68362355 MS.gene78984:CDS
GTTATAGGAATACCAGGAGA+TGG 0.570785 3.1:+68362282 MS.gene78984:intron
TATGGTGCCTGCCTCAGAAG+AGG 0.606464 3.1:+68362330 MS.gene78984:CDS
AACACTTCAATACATCATAG+TGG 0.613291 3.1:-68363792 None:intergenic
TAGATGTATGTTTAGATCTG+TGG 0.614910 3.1:+68362305 MS.gene78984:CDS
ATGAGAAAGTCTCAAGTATG+GGG 0.628007 3.1:+68363487 MS.gene78984:CDS
TTGTGGACGAGTTCATCAAG+AGG 0.642968 3.1:+68362635 MS.gene78984:CDS
TGGTGCCTGCCTCAGAAGAG+GGG 0.646066 3.1:+68362332 MS.gene78984:CDS
AGAAAGTCTCAAGTATGGGG+AGG 0.654651 3.1:+68363490 MS.gene78984:CDS
ATACGGCCAGGAGTATGGAA+AGG 0.662932 3.1:+68363735 MS.gene78984:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGCATATAATCAAAATATTA+GGG - chr3.1:68362925-68362944 None:intergenic 15.0%
!!! TTGAAACATTTTTTTGTTAT+AGG + chr3.1:68362267-68362286 MS.gene78984:intron 15.0%
!! AATAGAGCACAAATTATATA+TGG + chr3.1:68362538-68362557 MS.gene78984:intron 20.0%
!! ATAGAAACGATAAATTGTTT+AGG - chr3.1:68363163-68363182 None:intergenic 20.0%
!! ATGTAACAATGTTATAATCT+AGG - chr3.1:68363348-68363367 None:intergenic 20.0%
!! CTTAAAATTATAGCTGAATA+CGG + chr3.1:68363718-68363737 MS.gene78984:CDS 20.0%
!! GATATAAATATCCACAATAT+AGG - chr3.1:68362950-68362969 None:intergenic 20.0%
!! GTGCATATAATCAAAATATT+AGG - chr3.1:68362926-68362945 None:intergenic 20.0%
!! TAGAAACGATAAATTGTTTA+GGG - chr3.1:68363162-68363181 None:intergenic 20.0%
!! TTGAAATTATGTAGTGTAAT+TGG + chr3.1:68362481-68362500 MS.gene78984:intron 20.0%
!!! AAACAAAACATATTTTTCCA+TGG + chr3.1:68363079-68363098 MS.gene78984:intron 20.0%
!!! AAATATGTTTTGTTTTGTCA+CGG - chr3.1:68363074-68363093 None:intergenic 20.0%
!!! AAATTTGTAACCAAACTTTT+TGG - chr3.1:68362697-68362716 None:intergenic 20.0%
!!! AGCTATAATTTTAAGGTTAT+TGG - chr3.1:68363713-68363732 None:intergenic 20.0%
! AGAAACGATAAATTGTTTAG+GGG - chr3.1:68363161-68363180 None:intergenic 25.0%
! ATAATCAAAATATTAGGGAC+TGG - chr3.1:68362920-68362939 None:intergenic 25.0%
! ATAGAAAATAAAAGGTCAGA+GGG - chr3.1:68363202-68363221 None:intergenic 25.0%
! ATGCATTTGAATCTTTATGA+TGG + chr3.1:68362591-68362610 MS.gene78984:intron 25.0%
! CTATCTTTAACCAAAAAGTT+TGG + chr3.1:68362684-68362703 MS.gene78984:intron 25.0%
! GGATATTTATATCTTAAGTG+AGG + chr3.1:68362957-68362976 MS.gene78984:intron 25.0%
! GTGTTTAATTCATATTGTAC+AGG + chr3.1:68363428-68363447 MS.gene78984:intron 25.0%
! TCTGAGTCATAGAAAATAAA+AGG - chr3.1:68363210-68363229 None:intergenic 25.0%
! TGCATTTGAATCTTTATGAT+GGG + chr3.1:68362592-68362611 MS.gene78984:intron 25.0%
! TTTAATCATGTTGTGTCTTA+TGG + chr3.1:68363646-68363665 MS.gene78984:intron 25.0%
!! AACATATTTTTCCATGGAAA+TGG + chr3.1:68363085-68363104 MS.gene78984:intron 25.0%
!! AGTTCATTGGAATAATTTTG+AGG + chr3.1:68362824-68362843 MS.gene78984:intron 25.0%
!! ATTATCATACAAGCAAGTTT+TGG + chr3.1:68362772-68362791 MS.gene78984:intron 25.0%
!! CGTATTCAGCTATAATTTTA+AGG - chr3.1:68363720-68363739 None:intergenic 25.0%
!! TAGTATAATGAGACTGATTT+GGG + chr3.1:68362731-68362750 MS.gene78984:intron 25.0%
!!! ACTACTACTATTTTTGTCAA+AGG - chr3.1:68363000-68363019 None:intergenic 25.0%
!!! AGTTTTGGTTCATTTTTTTC+TGG + chr3.1:68362787-68362806 MS.gene78984:intron 25.0%
!!! TTTTTTGTTATAGGAATACC+AGG + chr3.1:68362276-68362295 MS.gene78984:intron 25.0%
AAATGAGAAAGTCTCAAGTA+TGG + chr3.1:68363485-68363504 MS.gene78984:CDS 30.0%
AACACTTCAATACATCATAG+TGG - chr3.1:68363795-68363814 None:intergenic 30.0%
AATGAGAAAGTCTCAAGTAT+GGG + chr3.1:68363486-68363505 MS.gene78984:CDS 30.0%
AATGTTCTTGTCATGTATCT+CGG - chr3.1:68363617-68363636 None:intergenic 30.0%
ACATTATTATTTGCAGGTTG+TGG + chr3.1:68362618-68362637 MS.gene78984:intron 30.0%
ATAAACATGATGTTCTAGCA+AGG - chr3.1:68362894-68362913 None:intergenic 30.0%
ATATTGTACAGGTTTCTTGA+AGG + chr3.1:68363439-68363458 MS.gene78984:intron 30.0%
ATGTTGTGTCTTATGGATTT+AGG + chr3.1:68363653-68363672 MS.gene78984:intron 30.0%
CATAGAAAATAAAAGGTCAG+AGG - chr3.1:68363203-68363222 None:intergenic 30.0%
CTAGTATAATGAGACTGATT+TGG + chr3.1:68362730-68362749 MS.gene78984:intron 30.0%
CTTTCTCATTTGAACTGTAT+AGG - chr3.1:68363476-68363495 None:intergenic 30.0%
GGGAAAACATTATTATTTGC+AGG + chr3.1:68362612-68362631 MS.gene78984:intron 30.0%
TAGAAAATAAAAGGTCAGAG+GGG - chr3.1:68363201-68363220 None:intergenic 30.0%
TAGATGTATGTTTAGATCTG+TGG + chr3.1:68362305-68362324 MS.gene78984:CDS 30.0%
TCATAAGACTCTCCATTAAA+CGG + chr3.1:68363232-68363251 MS.gene78984:intron 30.0%
TTATATGCACACCTATATTG+TGG + chr3.1:68362936-68362955 MS.gene78984:intron 30.0%
! AAAAGGTGAGAGATTTTCAT+CGG - chr3.1:68363118-68363137 None:intergenic 30.0%
!! GATTAGTCTGTCAATTACTT+TGG - chr3.1:68362409-68362428 None:intergenic 30.0%
!!! AACAGCAAGTTTTAGTTCAT+TGG + chr3.1:68362811-68362830 MS.gene78984:intron 30.0%
!!! ATGTAGTGTAATTGGTTTTC+TGG + chr3.1:68362489-68362508 MS.gene78984:intron 30.0%
!!! ATTTTGAGGTCAATCATGTT+AGG + chr3.1:68362838-68362857 MS.gene78984:intron 30.0%
ATCATACTTGTGTTGCAACT+CGG - chr3.1:68363023-68363042 None:intergenic 35.0%
ATGAGAAAGTCTCAAGTATG+GGG + chr3.1:68363487-68363506 MS.gene78984:CDS 35.0%
ATGTTTAGATCTGTGGTCTA+TGG + chr3.1:68362312-68362331 MS.gene78984:CDS 35.0%
CCATCATAGATGACTCTAAT+AGG - chr3.1:68363766-68363785 None:intergenic 35.0%
CCTATTAGAGTCATCTATGA+TGG + chr3.1:68363763-68363782 MS.gene78984:CDS 35.0%
! AGAGTCATCTATGATGGTTT+TGG + chr3.1:68363769-68363788 MS.gene78984:CDS 35.0%
! ATTTAGGATGCCTATAACAG+TGG + chr3.1:68363669-68363688 MS.gene78984:intron 35.0%
! TTTTGTACCACTTCATGGTA+AGG - chr3.1:68363323-68363342 None:intergenic 35.0%
!! AATGAGACTGATTTGGGAAT+GGG + chr3.1:68362737-68362756 MS.gene78984:intron 35.0%
!! TAATGAGACTGATTTGGGAA+TGG + chr3.1:68362736-68362755 MS.gene78984:intron 35.0%
AACATACATCTACCATCTCC+TGG - chr3.1:68362297-68362316 None:intergenic 40.0%
AATTATAGCTGAATACGGCC+AGG + chr3.1:68363723-68363742 MS.gene78984:CDS 40.0%
ACCAGATCATCTCCGTTTAA+TGG - chr3.1:68363247-68363266 None:intergenic 40.0%
ATCTCGGTCTTCTTAACACT+GGG - chr3.1:68363601-68363620 None:intergenic 40.0%
CTGAATTCCTTACCATGAAG+TGG + chr3.1:68363313-68363332 MS.gene78984:intron 40.0%
GTTATAGGAATACCAGGAGA+TGG + chr3.1:68362282-68362301 MS.gene78984:intron 40.0%
TATCTCGGTCTTCTTAACAC+TGG - chr3.1:68363602-68363621 None:intergenic 40.0%
TCCATTAAACGGAGATGATC+TGG + chr3.1:68363243-68363262 MS.gene78984:intron 40.0%
! AGGCATTTTGTACCACTTCA+TGG - chr3.1:68363328-68363347 None:intergenic 40.0%
! ATCTGCAAGTTCTTTTTGCC+TGG - chr3.1:68362376-68362395 None:intergenic 40.0%
!!! GTGTAATTGGTTTTCTGGTG+TGG + chr3.1:68362494-68362513 MS.gene78984:intron 40.0%
AGAAAGTCTCAAGTATGGGG+AGG + chr3.1:68363490-68363509 MS.gene78984:CDS 45.0%
AGAGGAGAGTAGACACTGAA+TGG + chr3.1:68362653-68362672 MS.gene78984:CDS 45.0%
CGATAAATTGTTTAGGGGCG+TGG - chr3.1:68363156-68363175 None:intergenic 45.0%
GATTCTCCTTTCCATACTCC+TGG - chr3.1:68363744-68363763 None:intergenic 45.0%
GGATTGTCTCGCAGAAGAAA+AGG - chr3.1:68363135-68363154 None:intergenic 45.0%
TCGGAGAGAATCCATTTCCA+TGG - chr3.1:68363099-68363118 None:intergenic 45.0%
TTGTGGACGAGTTCATCAAG+AGG + chr3.1:68362635-68362654 MS.gene78984:CDS 45.0%
! TCTTTTTGCCTGGTGAGACT+TGG - chr3.1:68362366-68362385 None:intergenic 45.0%
ACGGTCACGTGATTAACGTG+AGG - chr3.1:68363055-68363074 None:intergenic 50.0%
CGCTGCATGACCACTGTTAT+AGG - chr3.1:68363682-68363701 None:intergenic 50.0%
TGCGACGACATGAGAAGTTC+AGG - chr3.1:68363520-68363539 None:intergenic 50.0%
! ATACGGCCAGGAGTATGGAA+AGG + chr3.1:68363735-68363754 MS.gene78984:CDS 50.0%
! TTTTGCCTGGTGAGACTTGG+AGG - chr3.1:68362363-68362382 None:intergenic 50.0%
ATGGTGCCTGCCTCAGAAGA+GGG + chr3.1:68362331-68362350 MS.gene78984:CDS 55.0%
GCTGAATACGGCCAGGAGTA+TGG + chr3.1:68363730-68363749 MS.gene78984:CDS 55.0%
TATGGTGCCTGCCTCAGAAG+AGG + chr3.1:68362330-68362349 MS.gene78984:CDS 55.0%
ACCCACCTCCAAGTCTCACC+AGG + chr3.1:68362355-68362374 MS.gene78984:CDS 60.0%
GCCTGGTGAGACTTGGAGGT+GGG - chr3.1:68362359-68362378 None:intergenic 60.0%
TGCCTGGTGAGACTTGGAGG+TGG - chr3.1:68362360-68362379 None:intergenic 60.0%
TGGTGCCTGCCTCAGAAGAG+GGG + chr3.1:68362332-68362351 MS.gene78984:CDS 60.0%
GAGGTGGGTCCCCTCTTCTG+AGG - chr3.1:68362344-68362363 None:intergenic 65.0%
!! TGGGTCCCCTCTTCTGAGGC+AGG - chr3.1:68362340-68362359 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 68362186 68363822 68362186 ID=MS.gene78984
chr3.1 mRNA 68362186 68363822 68362186 ID=MS.gene78984.t1;Parent=MS.gene78984
chr3.1 exon 68362186 68362195 68362186 ID=MS.gene78984.t1.exon1;Parent=MS.gene78984.t1
chr3.1 CDS 68362186 68362195 68362186 ID=cds.MS.gene78984.t1;Parent=MS.gene78984.t1
chr3.1 exon 68362289 68362410 68362289 ID=MS.gene78984.t1.exon2;Parent=MS.gene78984.t1
chr3.1 CDS 68362289 68362410 68362289 ID=cds.MS.gene78984.t1;Parent=MS.gene78984.t1
chr3.1 exon 68362634 68362674 68362634 ID=MS.gene78984.t1.exon3;Parent=MS.gene78984.t1
chr3.1 CDS 68362634 68362674 68362634 ID=cds.MS.gene78984.t1;Parent=MS.gene78984.t1
chr3.1 exon 68363450 68363548 68363450 ID=MS.gene78984.t1.exon4;Parent=MS.gene78984.t1
chr3.1 CDS 68363450 68363548 68363450 ID=cds.MS.gene78984.t1;Parent=MS.gene78984.t1
chr3.1 exon 68363675 68363822 68363675 ID=MS.gene78984.t1.exon5;Parent=MS.gene78984.t1
chr3.1 CDS 68363675 68363822 68363675 ID=cds.MS.gene78984.t1;Parent=MS.gene78984.t1
Gene Sequence

>MS.gene78984

ATGGAAAAGAGTTACTATATCACTTGAAAAATATGCACGTGCTTTGCAGCTTATTATTAATTTTTCTGATTCTACTTAATTTTGAAACATTTTTTTGTTATAGGAATACCAGGAGATGGTAGATGTATGTTTAGATCTGTGGTCTATGGTGCCTGCCTCAGAAGAGGGGACCCACCTCCAAGTCTCACCAGGCAAAAAGAACTTGCAGATGAGCTCAGAGCCAAAGTAATTGACAGACTAATCATTTTTATTTTTCATCATTAAACTTATACATTCTAGTTTGACATACTTATTGTTGAAATTATGTAGTGTAATTGGTTTTCTGGTGTGGACAATAAGCAACATTTGTGCAAATAGAGCACAAATTATATATGGCTATTATATATATGATGTTCTTTCAGTTTGATGCATTTGAATCTTTATGATGGGAAAACATTATTATTTGCAGGTTGTGGACGAGTTCATCAAGAGGAGAGTAGACACTGAATGGTAAGTTAACTATCTTTAACCAAAAAGTTTGGTTACAAATTTACAATAACTAATACTAGTATAATGAGACTGATTTGGGAATGGGACTTTTCTGTTAATTATCATACAAGCAAGTTTTGGTTCATTTTTTTCTGGTAACAGCAAGTTTTAGTTCATTGGAATAATTTTGAGGTCAATCATGTTAGGTGTCAAAGTAACTAATTGTTTTGTTTATTACCTTGCTAGAACATCATGTTTATGTACCAGTCCCTAATATTTTGATTATATGCACACCTATATTGTGGATATTTATATCTTAAGTGAGGTGCAATGATTTTTTACTCCTTTGACAAAAATAGTAGTAGTCCGAGTTGCAACACAAGTATGATATGAGAGTGCCTCACGTTAATCACGTGACCGTGACAAAACAAAACATATTTTTCCATGGAAATGGATTCTCTCCGATGAAAATCTCTCACCTTTTCTTCTGCGAGACAATCCACGCCCCTAAACAATTTATCGTTTCTATTTTCAATATTTAAAGCCCCTCTGACCTTTTATTTTCTATGACTCAGATTTCATAAGACTCTCCATTAAACGGAGATGATCTGGTCTCGTTTTCTAATCAGTAATATTGTATCATCTAAATCTCATCAATTCTGAATTCCTTACCATGAAGTGGTACAAAATGCCTAGATTATAACATTGTTACATTTAAAAGCTAGTCTTGAATACTTGTTTCTAATGTTTTCATTAGTAGTGCACAATGAATTTGTGTTTAATTCATATTGTACAGGTTTCTTGAAGGTGACTTTAACACCTATACAGTTCAAATGAGAAAGTCTCAAGTATGGGGAGGAGAACCTGAACTTCTCATGTCGTCGCATGTTTTACAGTTAAGTCAATTTTCATTTGCAAAACTTTCATATGATACATGTTATTTACCCAGTGTTAAGAAGACCGAGATACATGACAAGAACATTCACTGATATTTTAATCATGTTGTGTCTTATGGATTTAGGATGCCTATAACAGTGGTCATGCAGCGTACAAATTCCAATAACCTTAAAATTATAGCTGAATACGGCCAGGAGTATGGAAAGGAGAATCCTATTAGAGTCATCTATGATGGTTTTGGCCACTATGATGTATTGAAGTGTTCAACATGA

Protein sequence

>MS.gene78984.t1

MEKRIPGDGRCMFRSVVYGACLRRGDPPPSLTRQKELADELRAKVVDEFIKRRVDTEWFLEGDFNTYTVQMRKSQVWGGEPELLMSSHVLQMPITVVMQRTNSNNLKIIAEYGQEYGKENPIRVIYDGFGHYDVLKCST