AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene018020

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene018020.t1 MTR_7g093700 94.410 161 9 0 1 161 1 161 1.24e-103 294
MS.gene018020.t1 MTR_7g093670 82.927 82 14 0 80 161 1 82 1.90e-42 136
MS.gene018020.t1 MTR_7g093690 61.321 106 26 3 69 161 33 136 3.92e-32 112
MS.gene018020.t1 MTR_3g011210 48.352 91 23 2 72 138 31 121 1.65e-17 74.3
MS.gene018020.t1 MTR_7g093660 63.462 52 18 1 98 149 1 51 1.64e-12 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 44 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATAATATCGATGGATCTT+TGG 0.212883 7.1:-13932472 MS.gene018020:CDS
AATAATATCGATGGATCTTT+GGG 0.246908 7.1:-13932471 MS.gene018020:CDS
GAACTGCACGAGATCTTTCT+TGG 0.257265 7.1:-13932701 MS.gene018020:CDS
ACACAATTTGCAACATAAAT+CGG 0.291650 7.1:-13932665 MS.gene018020:CDS
ACTATGTTGTTTCCTATGTA+TGG 0.367667 7.1:-13932579 MS.gene018020:CDS
CAAATCAAGGTTGATGTCAT+TGG 0.397831 7.1:+13932359 None:intergenic
GTGCAGTTCTGAAGGTTTCA+TGG 0.407889 7.1:+13932715 None:intergenic
TGCAAATTGTGTATGTGCTT+TGG 0.408651 7.1:+13932676 None:intergenic
CACAATTTGCAACATAAATC+GGG 0.419218 7.1:-13932664 MS.gene018020:CDS
ACAATTGGAACCTCTGGTAT+AGG 0.433089 7.1:+13932516 None:intergenic
TGGCAATGGTTGCATGGAAT+AGG 0.448209 7.1:+13932735 None:intergenic
TTCTGAAGGTTTCATGGCAA+TGG 0.457643 7.1:+13932721 None:intergenic
TCAGATGATGAGAGCAGTAC+TGG 0.465223 7.1:-13932783 MS.gene018020:CDS
CGATCAGTACGAGAGACAAT+TGG 0.466761 7.1:+13932501 None:intergenic
TCAGTTGGAGCTGAATCAAT+CGG 0.471657 7.1:+13932414 None:intergenic
CAACCTAGAGCTTCAAATCA+AGG 0.475468 7.1:+13932346 None:intergenic
CGAGAGACAATTGGAACCTC+TGG 0.486624 7.1:+13932510 None:intergenic
TCTCATCATCTGATTCAGAT+AGG 0.499444 7.1:+13932793 None:intergenic
TAATTACCGCTTCCATACAT+AGG 0.502800 7.1:+13932567 None:intergenic
CTTCCATCCCGCCACACCAC+TGG 0.504811 7.1:+13932384 None:intergenic
TCTGGTATAGGCCTCATGTA+TGG 0.510085 7.1:+13932528 None:intergenic
ACCACTGGTAATTCTTCAGT+TGG 0.510267 7.1:+13932399 None:intergenic
CAACCTTGATTTGAAGCTCT+AGG 0.512638 7.1:-13932349 None:intergenic
TGTGATGAAGGTGGTGGAGA+TGG 0.521845 7.1:+13932603 None:intergenic
TTACCAGTGGTGTGGCGGGA+TGG 0.529438 7.1:-13932387 MS.gene018020:CDS
CGTGATTACAATAATATCGA+TGG 0.538614 7.1:-13932480 MS.gene018020:CDS
GTTTCATGGCAATGGTTGCA+TGG 0.544580 7.1:+13932729 None:intergenic
TTGTTTCCTATGTATGGAAG+CGG 0.547988 7.1:-13932573 MS.gene018020:CDS
AAGAATTACCAGTGGTGTGG+CGG 0.548905 7.1:-13932392 MS.gene018020:CDS
GCCTCATGTATGGATGAAAA+CGG 0.550640 7.1:+13932538 None:intergenic
AAGATCTCGTGCAGTTCTGA+AGG 0.551614 7.1:+13932707 None:intergenic
TGGATCTTTGGGGAGAACAA+TGG 0.585871 7.1:-13932460 MS.gene018020:CDS
AACAACATAGTGTGTGATGA+AGG 0.595436 7.1:+13932591 None:intergenic
AGAATTACCAGTGGTGTGGC+GGG 0.597554 7.1:-13932391 MS.gene018020:CDS
GATGAAGGTGGTGGAGATGG+TGG 0.599841 7.1:+13932606 None:intergenic
GTGGAGATGGTGGTCCAATG+TGG 0.619599 7.1:+13932616 None:intergenic
CTAAACAACACACACCACAT+TGG 0.630539 7.1:-13932630 MS.gene018020:CDS
CTGAAGAATTACCAGTGGTG+TGG 0.651724 7.1:-13932395 MS.gene018020:CDS
ATACATGAGGCCTATACCAG+AGG 0.686494 7.1:-13932526 MS.gene018020:CDS
TCCAACTGAAGAATTACCAG+TGG 0.699300 7.1:-13932400 MS.gene018020:CDS
ATAGTGTGTGATGAAGGTGG+TGG 0.699659 7.1:+13932597 None:intergenic
ATAATATCGATGGATCTTTG+GGG 0.708326 7.1:-13932470 MS.gene018020:CDS
AACATAGTGTGTGATGAAGG+TGG 0.727614 7.1:+13932594 None:intergenic
TCATGTATGGATGAAAACGG+CGG 0.744847 7.1:+13932541 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATAATATCGATGGATCTTT+GGG - chr7.1:13932692-13932711 MS.gene018020:CDS 25.0%
! ACACAATTTGCAACATAAAT+CGG - chr7.1:13932498-13932517 MS.gene018020:CDS 25.0%
ATAATATCGATGGATCTTTG+GGG - chr7.1:13932693-13932712 MS.gene018020:CDS 30.0%
CAATAATATCGATGGATCTT+TGG - chr7.1:13932691-13932710 MS.gene018020:CDS 30.0%
CACAATTTGCAACATAAATC+GGG - chr7.1:13932499-13932518 MS.gene018020:CDS 30.0%
CGTGATTACAATAATATCGA+TGG - chr7.1:13932683-13932702 MS.gene018020:CDS 30.0%
!! ACTATGTTGTTTCCTATGTA+TGG - chr7.1:13932584-13932603 MS.gene018020:CDS 30.0%
AACAACATAGTGTGTGATGA+AGG + chr7.1:13932575-13932594 None:intergenic 35.0%
TAATTACCGCTTCCATACAT+AGG + chr7.1:13932599-13932618 None:intergenic 35.0%
TCTCATCATCTGATTCAGAT+AGG + chr7.1:13932373-13932392 None:intergenic 35.0%
TGCAAATTGTGTATGTGCTT+TGG + chr7.1:13932490-13932509 None:intergenic 35.0%
TTGTTTCCTATGTATGGAAG+CGG - chr7.1:13932590-13932609 MS.gene018020:CDS 35.0%
!! CAAATCAAGGTTGATGTCAT+TGG + chr7.1:13932807-13932826 None:intergenic 35.0%
AACATAGTGTGTGATGAAGG+TGG + chr7.1:13932572-13932591 None:intergenic 40.0%
ACAATTGGAACCTCTGGTAT+AGG + chr7.1:13932650-13932669 None:intergenic 40.0%
ACCACTGGTAATTCTTCAGT+TGG + chr7.1:13932767-13932786 None:intergenic 40.0%
CTAAACAACACACACCACAT+TGG - chr7.1:13932533-13932552 MS.gene018020:CDS 40.0%
GCCTCATGTATGGATGAAAA+CGG + chr7.1:13932628-13932647 None:intergenic 40.0%
TCAGTTGGAGCTGAATCAAT+CGG + chr7.1:13932752-13932771 None:intergenic 40.0%
TCATGTATGGATGAAAACGG+CGG + chr7.1:13932625-13932644 None:intergenic 40.0%
TCCAACTGAAGAATTACCAG+TGG - chr7.1:13932763-13932782 MS.gene018020:CDS 40.0%
! TTCTGAAGGTTTCATGGCAA+TGG + chr7.1:13932445-13932464 None:intergenic 40.0%
AAGAATTACCAGTGGTGTGG+CGG - chr7.1:13932771-13932790 MS.gene018020:CDS 45.0%
ATACATGAGGCCTATACCAG+AGG - chr7.1:13932637-13932656 MS.gene018020:CDS 45.0%
ATAGTGTGTGATGAAGGTGG+TGG + chr7.1:13932569-13932588 None:intergenic 45.0%
CGATCAGTACGAGAGACAAT+TGG + chr7.1:13932665-13932684 None:intergenic 45.0%
CTGAAGAATTACCAGTGGTG+TGG - chr7.1:13932768-13932787 MS.gene018020:CDS 45.0%
GAACTGCACGAGATCTTTCT+TGG - chr7.1:13932462-13932481 MS.gene018020:CDS 45.0%
GTTTCATGGCAATGGTTGCA+TGG + chr7.1:13932437-13932456 None:intergenic 45.0%
TCAGATGATGAGAGCAGTAC+TGG - chr7.1:13932380-13932399 MS.gene018020:CDS 45.0%
TCTGGTATAGGCCTCATGTA+TGG + chr7.1:13932638-13932657 None:intergenic 45.0%
TGGCAATGGTTGCATGGAAT+AGG + chr7.1:13932431-13932450 None:intergenic 45.0%
! AAGATCTCGTGCAGTTCTGA+AGG + chr7.1:13932459-13932478 None:intergenic 45.0%
! TGGATCTTTGGGGAGAACAA+TGG - chr7.1:13932703-13932722 MS.gene018020:CDS 45.0%
!! GCCGTTTTCATCCATACATG+AGG - chr7.1:13932624-13932643 MS.gene018020:CDS 45.0%
!! GTGCAGTTCTGAAGGTTTCA+TGG + chr7.1:13932451-13932470 None:intergenic 45.0%
AGAATTACCAGTGGTGTGGC+GGG - chr7.1:13932772-13932791 MS.gene018020:CDS 50.0%
CGAGAGACAATTGGAACCTC+TGG + chr7.1:13932656-13932675 None:intergenic 50.0%
!! TGTGATGAAGGTGGTGGAGA+TGG + chr7.1:13932563-13932582 None:intergenic 50.0%
! GTGGAGATGGTGGTCCAATG+TGG + chr7.1:13932550-13932569 None:intergenic 55.0%
!! GATGAAGGTGGTGGAGATGG+TGG + chr7.1:13932560-13932579 None:intergenic 55.0%
! TTACCAGTGGTGTGGCGGGA+TGG - chr7.1:13932776-13932795 MS.gene018020:CDS 60.0%
CTTCCATCCCGCCACACCAC+TGG + chr7.1:13932782-13932801 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 13932350 13932835 13932350 ID=MS.gene018020
chr7.1 mRNA 13932350 13932835 13932350 ID=MS.gene018020.t1;Parent=MS.gene018020
chr7.1 exon 13932350 13932835 13932350 ID=MS.gene018020.t1.exon1;Parent=MS.gene018020.t1
chr7.1 CDS 13932350 13932835 13932350 ID=cds.MS.gene018020.t1;Parent=MS.gene018020.t1
Gene Sequence

>MS.gene018020

ATGGAGTCAGATATTGAACTCCTATCTGAATCAGATGATGAGAGCAGTACTGGCAGCAGCATCATTACTAACGTTGCTCCTATTCCATGCAACCATTGCCATGAAACCTTCAGAACTGCACGAGATCTTTCTTGGCACCAAAGCACATACACAATTTGCAACATAAATCGGGCTTTATTGAGACTAAACAACACACACCACATTGGACCACCATCTCCACCACCTTCATCACACACTATGTTGTTTCCTATGTATGGAAGCGGTAATTATAACCGCCGTTTTCATCCATACATGAGGCCTATACCAGAGGTTCCAATTGTCTCTCGTACTGATCGTGATTACAATAATATCGATGGATCTTTGGGGAGAACAATGGATCTTATTTCTCTGATCGACAAGCCGATTGATTCAGCTCCAACTGAAGAATTACCAGTGGTGTGGCGGGATGGAAGCACCAATGACATCAACCTTGATTTGAAGCTCTAG
Protein sequence

>MS.gene018020.t1

MESDIELLSESDDESSTGSSIITNVAPIPCNHCHETFRTARDLSWHQSTYTICNINRALLRLNNTHHIGPPSPPPSSHTMLFPMYGSGNYNRRFHPYMRPIPEVPIVSRTDRDYNNIDGSLGRTMDLISLIDKPIDSAPTEELPVVWRDGSTNDINLDLKL