AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene83554

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83554.t1 MTR_2g104130 99.429 175 1 0 1 175 1 175 5.87e-128 356
MS.gene83554.t1 MTR_4g130410 70.286 175 52 0 1 175 1 175 1.37e-91 264
MS.gene83554.t1 MTR_4g130410 71.429 161 46 0 1 161 1 161 5.36e-84 245
MS.gene83554.t1 MTR_1g076650 27.517 149 94 5 22 161 3 146 1.56e-11 59.7
MS.gene83554.t1 MTR_1g071150 27.517 149 95 5 21 161 2 145 2.35e-11 58.9
MS.gene83554.t1 MTR_1g041285 26.797 153 98 5 22 165 3 150 2.44e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83554.t1 AT3G18430 78.857 175 37 0 1 175 1 175 1.01e-101 290
MS.gene83554.t1 AT3G18430 78.857 175 37 0 1 175 1 175 1.01e-101 290
MS.gene83554.t1 AT3G18430 78.857 175 37 0 1 175 1 175 1.01e-101 290
MS.gene83554.t1 AT3G22930 27.152 151 96 5 24 165 28 173 5.16e-12 61.6

Find 23 sgRNAs with CRISPR-Local

Find 69 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCACAGGTTCTTGGCCATTC+TGG 0.182957 2.2:+685066 MS.gene83554:intron
TGTACTAAATGCAGATAAAA+AGG 0.239607 2.2:-684057 None:intergenic
GACATTGGATGATTTCATTA+AGG 0.296420 2.2:+684866 MS.gene83554:CDS
TTAAATTTGTCACAGGTTCT+TGG 0.342309 2.2:+685057 MS.gene83554:intron
TTGATTTCTCAGGAAGTCTT+AGG 0.365914 2.2:+684801 MS.gene83554:intron
AGGTTACTCAAGATGGTTGA+TGG 0.393812 2.2:+684011 MS.gene83554:CDS
TGTTATGAATCCACTTTCTC+AGG 0.398536 2.2:+683642 MS.gene83554:CDS
GGTGTCTTTCAAAGACATAT+TGG 0.407546 2.2:+684389 MS.gene83554:CDS
ATTTGATTCAGTTTCTCAAC+AGG 0.411656 2.2:+683528 MS.gene83554:intron
GAAGTTCTAAAAGATTTGTC+TGG 0.444669 2.2:+684411 MS.gene83554:CDS
ATCCTGCTTCTTTCAGAACC+TGG 0.474604 2.2:-684824 None:intergenic
CAACTTGACAGAAATGCTAA+AGG 0.478282 2.2:+683580 MS.gene83554:CDS
TTTGCAGAGGTTACTCAAGA+TGG 0.478552 2.2:+684004 MS.gene83554:intron
TGATATGATACCTGAGAAAG+TGG 0.501757 2.2:-683652 None:intergenic
TCTGCATTTAGTACAAAAGC+TGG 0.505330 2.2:+684065 MS.gene83554:CDS
GCTAACTCAATATGATATTG+AGG 0.520808 2.2:+683388 MS.gene83554:CDS
TTCTCAGGAAGTCTTAGGCC+AGG 0.525529 2.2:+684806 MS.gene83554:intron
GGCCAGGTTCTGAAAGAAGC+AGG 0.530644 2.2:+684822 MS.gene83554:CDS
GTATATGATTCAGATCGTAA+TGG 0.556045 2.2:+684363 MS.gene83554:CDS
AAAAGACTGCTACTTGACAT+TGG 0.563411 2.2:+684851 MS.gene83554:CDS
AGTGGATTCATAACAAACTC+AGG 0.575670 2.2:-683634 None:intergenic
TGATTCAGATCGTAATGGAA+AGG 0.613377 2.2:+684368 MS.gene83554:CDS
CATGTCTGATGATCAAAGAG+AGG 0.654475 2.2:+684440 MS.gene83554:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATGATTATCTAAATTATTT+AGG - chr2.2:684198-684217 None:intergenic 10.0%
!! AGAAGAAAAAAAAAAAGATA+AGG - chr2.2:683459-683478 None:intergenic 15.0%
!! TTTATATTTAAATTTGTCAC+AGG + chr2.2:685050-685069 MS.gene83554:intron 15.0%
!!! ATTTTCTTATATATCTCTTT+TGG + chr2.2:684896-684915 MS.gene83554:intron 15.0%
!!! TTTTATGAAAATGGTATATT+TGG - chr2.2:683834-683853 None:intergenic 15.0%
!!! TTTTATTCTTTATTAGTGTT+TGG + chr2.2:684146-684165 MS.gene83554:intron 15.0%
!!! TTTTATTGGCTTTTATTTAA+TGG - chr2.2:684700-684719 None:intergenic 15.0%
!! ACACATTTATTTAATTGAGT+CGG - chr2.2:683766-683785 None:intergenic 20.0%
!! ACTCAATTAAATAAATGTGT+TGG + chr2.2:683766-683785 MS.gene83554:intron 20.0%
!! ATCATAAATTAGAAGATTTC+AGG + chr2.2:684212-684231 MS.gene83554:intron 20.0%
!! GAAAAAAAAAAAGATAAGGA+AGG - chr2.2:683455-683474 None:intergenic 20.0%
!! GAAATGAAATATTCGTATAT+AGG - chr2.2:684678-684697 None:intergenic 20.0%
!!! ATGTGTTTACTATTTTATAC+AGG + chr2.2:683936-683955 MS.gene83554:intron 20.0%
!!! GTTCTTTCTAATTGTAATTT+TGG + chr2.2:685005-685024 MS.gene83554:intron 20.0%
!!! TGTGGAAAAAAGTTTTTTAT+TGG - chr2.2:684714-684733 None:intergenic 20.0%
!!! TTTGAATTTTAAAGACTTTG+TGG + chr2.2:684034-684053 MS.gene83554:CDS 20.0%
!!! TTTTTTTGAAGAAACTCTTT+TGG + chr2.2:684935-684954 MS.gene83554:intron 20.0%
! ACATTTATTTAATTGAGTCG+GGG - chr2.2:683764-683783 None:intergenic 25.0%
! ACTATAAGTACCCTAATTAA+AGG - chr2.2:684310-684329 None:intergenic 25.0%
! AGTATATCAAACTCAACATA+GGG - chr2.2:684585-684604 None:intergenic 25.0%
! ATTCTTTATTAGTGTTTGGA+TGG + chr2.2:684150-684169 MS.gene83554:intron 25.0%
! CACATTTATTTAATTGAGTC+GGG - chr2.2:683765-683784 None:intergenic 25.0%
! TAGTATATCAAACTCAACAT+AGG - chr2.2:684586-684605 None:intergenic 25.0%
! TCAACTAAGTCCTTTAATTA+GGG + chr2.2:684297-684316 MS.gene83554:intron 25.0%
! TGTACTAAATGCAGATAAAA+AGG - chr2.2:684060-684079 None:intergenic 25.0%
! TTCAACTAAGTCCTTTAATT+AGG + chr2.2:684296-684315 MS.gene83554:intron 25.0%
!! AAGAATAAAATCTGAAGCAA+TGG - chr2.2:684136-684155 None:intergenic 25.0%
!! TACAGAAGCATATAGTTATT+TGG - chr2.2:684471-684490 None:intergenic 25.0%
AACATTAAGCAATCAAAGCA+AGG - chr2.2:683877-683896 None:intergenic 30.0%
AATCATTTATGTATGTCCTG+TGG + chr2.2:683428-683447 MS.gene83554:intron 30.0%
AGCAAAGTAAGTTTCCATTA+AGG + chr2.2:684533-684552 MS.gene83554:intron 30.0%
ATTTGATTCAGTTTCTCAAC+AGG + chr2.2:683528-683547 MS.gene83554:intron 30.0%
GACATTGGATGATTTCATTA+AGG + chr2.2:684866-684885 MS.gene83554:CDS 30.0%
GCTAACTCAATATGATATTG+AGG + chr2.2:683388-683407 MS.gene83554:CDS 30.0%
GTATATGATTCAGATCGTAA+TGG + chr2.2:684363-684382 MS.gene83554:CDS 30.0%
TAACAATTGATGCACCTTAA+TGG - chr2.2:684550-684569 None:intergenic 30.0%
TTAAATTTGTCACAGGTTCT+TGG + chr2.2:685057-685076 MS.gene83554:intron 30.0%
! AAAACGTACGTTCAACTTTT+TGG - chr2.2:684097-684116 None:intergenic 30.0%
! AAATGGTATATTTGGAACAG+TGG - chr2.2:683826-683845 None:intergenic 30.0%
! TTACTGTTCTTTGATTTCTC+AGG + chr2.2:684791-684810 MS.gene83554:intron 30.0%
!! GAAGTTCTAAAAGATTTGTC+TGG + chr2.2:684411-684430 MS.gene83554:CDS 30.0%
AGAAGATGTCCACTATAAGT+AGG + chr2.2:683900-683919 MS.gene83554:intron 35.0%
CAACTTGACAGAAATGCTAA+AGG + chr2.2:683580-683599 MS.gene83554:CDS 35.0%
GAAGATGTCCACTATAAGTA+GGG + chr2.2:683901-683920 MS.gene83554:intron 35.0%
GGTGTCTTTCAAAGACATAT+TGG + chr2.2:684389-684408 MS.gene83554:CDS 35.0%
GTTTGTGTACTTATTTGCAG+AGG + chr2.2:683991-684010 MS.gene83554:intron 35.0%
TCTGCATTTAGTACAAAAGC+TGG + chr2.2:684065-684084 MS.gene83554:CDS 35.0%
TGATATGATACCTGAGAAAG+TGG - chr2.2:683655-683674 None:intergenic 35.0%
TGTTATGAATCCACTTTCTC+AGG + chr2.2:683642-683661 MS.gene83554:CDS 35.0%
TTGATTTCTCAGGAAGTCTT+AGG + chr2.2:684801-684820 MS.gene83554:intron 35.0%
! AAAAGACTGCTACTTGACAT+TGG + chr2.2:684851-684870 MS.gene83554:CDS 35.0%
! AGTGGATTCATAACAAACTC+AGG - chr2.2:683637-683656 None:intergenic 35.0%
! TGATTCAGATCGTAATGGAA+AGG + chr2.2:684368-684387 MS.gene83554:CDS 35.0%
!! CATCCATTTTTACTCCAGAA+TGG - chr2.2:685083-685102 None:intergenic 35.0%
AAAAGATAAGGAAGGACCAC+AGG - chr2.2:683447-683466 None:intergenic 40.0%
AGGTTACTCAAGATGGTTGA+TGG + chr2.2:684011-684030 MS.gene83554:CDS 40.0%
CATGTCTGATGATCAAAGAG+AGG + chr2.2:684440-684459 MS.gene83554:CDS 40.0%
CCAATACAGCACAACTGAAA+AGG - chr2.2:684741-684760 None:intergenic 40.0%
TATCCTAGCCCTACTTATAG+TGG - chr2.2:683912-683931 None:intergenic 40.0%
TTTGCAGAGGTTACTCAAGA+TGG + chr2.2:684004-684023 MS.gene83554:intron 40.0%
! CCTTTTCAGTTGTGCTGTAT+TGG + chr2.2:684738-684757 MS.gene83554:intron 40.0%
!! TGGCCATTCTGGAGTAAAAA+TGG + chr2.2:685077-685096 MS.gene83554:CDS 40.0%
ATCCTGCTTCTTTCAGAACC+TGG - chr2.2:684827-684846 None:intergenic 45.0%
TGTCCACTATAAGTAGGGCT+AGG + chr2.2:683906-683925 MS.gene83554:intron 45.0%
! CACAACTGAAAAGGTGTGTG+TGG - chr2.2:684732-684751 None:intergenic 45.0%
!!! TTTATTTTATTTTATGAAAA+TGG - chr2.2:683843-683862 None:intergenic 5.0%
TCACAGGTTCTTGGCCATTC+TGG + chr2.2:685066-685085 MS.gene83554:intron 50.0%
TTCTCAGGAAGTCTTAGGCC+AGG + chr2.2:684806-684825 MS.gene83554:intron 50.0%
!! GGCCAGGTTCTGAAAGAAGC+AGG + chr2.2:684822-684841 MS.gene83554:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 683368 685122 683368 ID=MS.gene83554
chr2.2 mRNA 683368 685122 683368 ID=MS.gene83554.t1;Parent=MS.gene83554
chr2.2 exon 683368 683437 683368 ID=MS.gene83554.t1.exon1;Parent=MS.gene83554.t1
chr2.2 CDS 683368 683437 683368 ID=cds.MS.gene83554.t1;Parent=MS.gene83554.t1
chr2.2 exon 683539 683663 683539 ID=MS.gene83554.t1.exon2;Parent=MS.gene83554.t1
chr2.2 CDS 683539 683663 683539 ID=cds.MS.gene83554.t1;Parent=MS.gene83554.t1
chr2.2 exon 684011 684107 684011 ID=MS.gene83554.t1.exon3;Parent=MS.gene83554.t1
chr2.2 CDS 684011 684107 684011 ID=cds.MS.gene83554.t1;Parent=MS.gene83554.t1
chr2.2 exon 684352 684461 684352 ID=MS.gene83554.t1.exon4;Parent=MS.gene83554.t1
chr2.2 CDS 684352 684461 684352 ID=cds.MS.gene83554.t1;Parent=MS.gene83554.t1
chr2.2 exon 684813 684887 684813 ID=MS.gene83554.t1.exon5;Parent=MS.gene83554.t1
chr2.2 CDS 684813 684887 684813 ID=cds.MS.gene83554.t1;Parent=MS.gene83554.t1
chr2.2 exon 685072 685122 685072 ID=MS.gene83554.t1.exon6;Parent=MS.gene83554.t1
chr2.2 CDS 685072 685122 685072 ID=cds.MS.gene83554.t1;Parent=MS.gene83554.t1
Gene Sequence

>MS.gene83554

ATGGGGAGTGCATCATCTATGCTAACTCAATATGATATTGAGGAAGTTCAACAACACTGCAATCATTTATGTATGTCCTGTGGTCCTTCCTTATCTTTTTTTTTTTCTTCTTCTTCTTCTAGTTATTATTGTAATTATAAGATAATTAAGATCTAATATTATTTGATTCAGTTTCTCAACAGGAAATAGTGTGTTTGTATGAACGCTTTTGTCAACTTGACAGAAATGCTAAAGGCTTTATTTCATCTGATGAGTTCTTGTCAATTCCTGAGTTTGTTATGAATCCACTTTCTCAGGTATCATATCAAATAGTATTACTTACTCTCTTTATTTTTTTATCTTTTGTTATACAAGTAGCTTATGTATAAGCACTTATATGATAAGTGATTATGACCCCGACTCAATTAAATAAATGTGTTGGACAAGTTAACTTACTCTATGCTCATTTAATGATACCACTGTTCCAAATATACCATTTTCATAAAATAAAATAAAAAAAATAAAAACCTTGCTTTGATTGCTTAATGTTATGAGAAGATGTCCACTATAAGTAGGGCTAGGATAGTAAATGTGTTTACTATTTTATACAGGAAATAAAATAGTATATGATTTAGTATATGATTGTTTGTGTACTTATTTGCAGAGGTTACTCAAGATGGTTGATGGTTTGAATTTTAAAGACTTTGTGGCCTTTTTATCTGCATTTAGTACAAAAGCTGGTACACACCAAAAAGTTGAACGTACGTTTTTGTTTTATCTACTATTCCATTGCTTCAGATTTTATTCTTTATTAGTGTTTGGATGGATGAATTAGCTGCTTTCAGAATCCTAAATAATTTAGATAATCATAAATTAGAAGATTTCAGGATTGTTAACAGTAGCAATATAGTTAATTAAATAGTTAAGAATTACTCATTTATGTGAATTATTCAACTAAGTCCTTTAATTAGGGTACTTATAGTTACTTGTTTATCTCTATTACAGTTATTTTCAAAGTATATGATTCAGATCGTAATGGAAAGGTGTCTTTCAAAGACATATTGGAAGTTCTAAAAGATTTGTCTGGTTCATACATGTCTGATGATCAAAGAGAGGTATCACCAAATAACTATATGCTTCTGTACAAAATTTAGTGATGAAATAGTTTTACTTTGAGTTAATACATAGCAAAGTAAGTTTCCATTAAGGTGCATCAATTGTTACAGCTTTCACATCCCTATGTTGAGTTTGATATACTAAAAGCTAAGTTTAATATAATCTAACAATATGCTTTTGTATGATCAAGTTTGTTTCTGCTGTTTGTATTACCTATATACGAATATTTCATTTCCATTAAATAAAAGCCAATAAAAAACTTTTTTCCACACACACCTTTTCAGTTGTGCTGTATTGGTATATGCAGACTTAAACTTATGTAATTTTGTTACTGTTCTTTGATTTCTCAGGAAGTCTTAGGCCAGGTTCTGAAAGAAGCAGGATACTCAAAAGACTGCTACTTGACATTGGATGATTTCATTAAGGTCTCTACATTTTCTTATATATCTCTTTTGGAAAATCTTTTTTTTTTTTTTTTTGAAGAAACTCTTTTGGAAAATCTTAAATGATTACTCTTGTGTTAGCAGACTCAATTTCTGTCTGTTCTTTCTAATTGTAATTTTGGATATCATTTGATTTTTATTTTTTTTATATTTAAATTTGTCACAGGTTCTTGGCCATTCTGGAGTAAAAATGGATGTTGAAGTTCCTGTTGATTAA
Protein sequence

>MS.gene83554.t1

MGSASSMLTQYDIEEVQQHCNHLFSQQEIVCLYERFCQLDRNAKGFISSDEFLSIPEFVMNPLSQRLLKMVDGLNFKDFVAFLSAFSTKAGTHQKVELIFKVYDSDRNGKVSFKDILEVLKDLSGSYMSDDQREEVLGQVLKEAGYSKDCYLTLDDFIKVLGHSGVKMDVEVPVD