AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene058171


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058171.t1 MTR_2g035170 99.338 151 1 0 1 151 7 157 2.52e-107 302
MS.gene058171.t1 MTR_2g035100 60.927 151 59 0 1 151 7 157 1.13e-61 187
MS.gene058171.t1 MTR_2g035105 59.603 151 61 0 1 151 7 157 2.05e-60 184
MS.gene058171.t1 MTR_2g035150 58.940 151 62 0 1 151 7 157 2.44e-60 184
MS.gene058171.t1 MTR_2g035120 58.278 151 63 0 1 151 7 157 5.99e-58 177
MS.gene058171.t1 MTR_2g035130 56.954 151 65 0 1 151 7 157 1.37e-56 174
MS.gene058171.t1 MTR_6g033450 53.642 151 70 0 1 151 7 157 1.25e-52 164
MS.gene058171.t1 MTR_4g120970 53.642 151 70 0 1 151 7 157 1.25e-52 164
MS.gene058171.t1 MTR_2g035320 49.315 146 74 0 6 151 12 157 4.62e-49 155
MS.gene058171.t1 MTR_2g035190 48.630 146 75 0 6 151 12 157 1.68e-47 151
MS.gene058171.t1 MTR_2g035220 49.315 146 74 0 6 151 12 157 3.00e-47 150
MS.gene058171.t1 MTR_2g035210 48.630 146 75 0 6 151 12 157 3.10e-47 150
MS.gene058171.t1 MTR_2g035320 50.000 100 50 0 52 151 23 122 9.56e-31 107
MS.gene058171.t1 MTR_2g435310 36.000 150 93 2 1 149 9 156 1.81e-29 105
MS.gene058171.t1 MTR_4g120760 32.414 145 97 1 6 149 12 156 1.14e-26 98.6
MS.gene058171.t1 MTR_4g120760 32.414 145 97 1 6 149 12 156 1.14e-26 98.6
MS.gene058171.t1 MTR_4g120950 40.972 144 78 5 12 151 18 158 3.13e-23 89.7
MS.gene058171.t1 MTR_4g120940 56.164 73 32 0 79 151 47 119 1.19e-20 82.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 45 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGTACAACTTTAGCATTAT+TGG 0.213546 2.2:-53726999 MS.gene058171:CDS
TGTACAACTTTAGCATTATT+GGG 0.243931 2.2:-53726998 MS.gene058171:CDS
TGGATCACTTCCACAAGCTT+TGG 0.317240 2.2:+53727639 None:intergenic
ATTAAACACATTCAGTAATC+AGG 0.345127 2.2:+53726774 None:intergenic
CATTTGGTCCTTCAACCAAT+TGG 0.345692 2.2:+53726931 None:intergenic
GGATCACTTCCACAAGCTTT+GGG 0.357297 2.2:+53727640 None:intergenic
ATGGCTTTGAAGAGCCTAAC+AGG 0.389381 2.2:+53727687 None:intergenic
CTGCTGCTGTTCCTCCTGTT+AGG 0.389483 2.2:-53727701 MS.gene058171:CDS
CTTCAGTGAACTCAATACTT+TGG 0.401346 2.2:+53727619 None:intergenic
ATCAACATGTACATTCCTAA+TGG 0.402440 2.2:+53726902 None:intergenic
ACTTAAATTATAATCACCTT+TGG 0.409104 2.2:+53726872 None:intergenic
TTCCTAATGGACCCTCCATT+TGG 0.409557 2.2:+53726915 None:intergenic
GCTTGTTGAAGGGTACCTTT+TGG 0.410083 2.2:-53726802 MS.gene058171:CDS
CACTCTGTGTAGCACATACT+TGG 0.421047 2.2:+53727046 None:intergenic
CTTCCACAAGCTTTGGGAAG+AGG 0.431558 2.2:+53727646 None:intergenic
AGTGAGGAGGAGTTGAAAGC+TGG 0.432811 2.2:-53726852 MS.gene058171:CDS
GGACTTGTAAAGCTTGTTGA+AGG 0.441945 2.2:-53726813 MS.gene058171:CDS
GACCAAATGGAGGGTCCATT+AGG 0.448487 2.2:-53726917 MS.gene058171:CDS
GCTGGTAAAGCAAAGGTTGA+AGG 0.449190 2.2:-53726834 MS.gene058171:CDS
AAGAAGCTCACCACAGTTGA+AGG 0.458485 2.2:-53727573 MS.gene058171:intron
ACTGAAGGAACTGGTGGTGC+TGG 0.463110 2.2:-53727603 MS.gene058171:CDS
AGTAATCAGGATTTGCCAAA+AGG 0.469472 2.2:+53726787 None:intergenic
CTAACAGGAGGAACAGCAGC+AGG 0.474433 2.2:+53727702 None:intergenic
AGTCTCATTCAAGAGCCAAT+TGG 0.492931 2.2:-53726946 MS.gene058171:CDS
TTCAAGAGCCAATTGGTTGA+AGG 0.493896 2.2:-53726939 MS.gene058171:CDS
ATTGAGTTCACTGAAGGAAC+TGG 0.500969 2.2:-53727612 MS.gene058171:CDS
TAACCTCTTCCCAAAGCTTG+TGG 0.518650 2.2:-53727649 MS.gene058171:CDS
CACTGGATTGGCTGACACAT+TGG 0.522999 2.2:-53726973 MS.gene058171:CDS
TGATTATAATTTAAGTGAGG+AGG 0.547716 2.2:-53726865 MS.gene058171:CDS
CAATTGGTTGAAGGACCAAA+TGG 0.561796 2.2:-53726930 MS.gene058171:CDS
AACAGGAGGAACAGCAGCAG+GGG 0.564864 2.2:+53727704 None:intergenic
GTACAACTTTAGCATTATTG+GGG 0.564914 2.2:-53726997 MS.gene058171:CDS
CAAAGTATTGAGTTCACTGA+AGG 0.574960 2.2:-53727618 MS.gene058171:CDS
TAATTACTGACCTTCAACTG+TGG 0.582513 2.2:+53727563 None:intergenic
TAACAGGAGGAACAGCAGCA+GGG 0.612336 2.2:+53727703 None:intergenic
TTGGTTGAAGGACCAAATGG+AGG 0.621672 2.2:-53726927 MS.gene058171:CDS
GACTTGTAAAGCTTGTTGAA+GGG 0.631158 2.2:-53726812 MS.gene058171:CDS
TGGTTGAAGGACCAAATGGA+GGG 0.640692 2.2:-53726926 MS.gene058171:CDS
GTTGAAAGCTGGTAAAGCAA+AGG 0.651458 2.2:-53726841 MS.gene058171:CDS
CAAGTATGTGCTACACAGAG+TGG 0.654201 2.2:-53727045 MS.gene058171:CDS
AGGTGATTATAATTTAAGTG+AGG 0.654716 2.2:-53726868 MS.gene058171:CDS
TACAACTTTAGCATTATTGG+GGG 0.677045 2.2:-53726996 MS.gene058171:CDS
GTTATGAAACTCTAATGACA+TGG 0.696174 2.2:+53727668 None:intergenic
GAGTTCACTGAAGGAACTGG+TGG 0.720921 2.2:-53727609 MS.gene058171:CDS
GCTTTGAAGAGCCTAACAGG+AGG 0.746272 2.2:+53727690 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAAAAAATAATGATCA+TGG + chr2.2:53727269-53727288 None:intergenic 10.0%
!! AGTTAGTTAAATTAAATTAA+TGG - chr2.2:53727390-53727409 MS.gene058171:intron 10.0%
!!! ATTTTCTCTTATTTTAATTG+AGG + chr2.2:53727045-53727064 None:intergenic 15.0%
!!! TTTTTATAGAAAAATGTTAG+TGG - chr2.2:53727290-53727309 MS.gene058171:intron 15.0%
!! ACTTAAATTATAATCACCTT+TGG + chr2.2:53727630-53727649 None:intergenic 20.0%
!! TGGTTAATTCGTTAAATTAA+AGG - chr2.2:53727310-53727329 MS.gene058171:intron 20.0%
!! TTCGTTAAATTAAAGGAATA+TGG - chr2.2:53727317-53727336 MS.gene058171:intron 20.0%
!!! TATTTTAATTCCATGACTTT+AGG - chr2.2:53726966-53726985 MS.gene058171:CDS 20.0%
! AAGTTTACAACGATATAAGT+AGG + chr2.2:53727152-53727171 None:intergenic 25.0%
! AGGTGATTATAATTTAAGTG+AGG - chr2.2:53727631-53727650 MS.gene058171:CDS 25.0%
! ATATAAGTAGGTGCAAATTA+TGG + chr2.2:53727140-53727159 None:intergenic 25.0%
! TGATTATAATTTAAGTGAGG+AGG - chr2.2:53727634-53727653 MS.gene058171:CDS 25.0%
! TGTACAACTTTAGCATTATT+GGG - chr2.2:53727501-53727520 MS.gene058171:intron 25.0%
!!! CATGTTGATTATTTTACCAA+AGG - chr2.2:53727611-53727630 MS.gene058171:CDS 25.0%
ATCAACATGTACATTCCTAA+TGG + chr2.2:53727600-53727619 None:intergenic 30.0%
GTACAACTTTAGCATTATTG+GGG - chr2.2:53727502-53727521 MS.gene058171:intron 30.0%
GTGTACAACTTTAGCATTAT+TGG - chr2.2:53727500-53727519 MS.gene058171:intron 30.0%
GTTATGAAACTCTAATGACA+TGG + chr2.2:53726834-53726853 None:intergenic 30.0%
TACAACTTTAGCATTATTGG+GGG - chr2.2:53727503-53727522 MS.gene058171:intron 30.0%
TGAGTGAATTTGATGAATAC+AGG - chr2.2:53727422-53727441 MS.gene058171:intron 30.0%
! GTCTTACTTGTGATGATTTT+TGG + chr2.2:53727212-53727231 None:intergenic 30.0%
AGACTCAAATCCTAAAGTCA+TGG + chr2.2:53726979-53726998 None:intergenic 35.0%
AGTAATCAGGATTTGCCAAA+AGG + chr2.2:53727715-53727734 None:intergenic 35.0%
CTTCAGTGAACTCAATACTT+TGG + chr2.2:53726883-53726902 None:intergenic 35.0%
GTGAATTTGATGAATACAGG+TGG - chr2.2:53727425-53727444 MS.gene058171:intron 35.0%
TAATTACTGACCTTCAACTG+TGG + chr2.2:53726939-53726958 None:intergenic 35.0%
! TCATTTTACAGTTGTCTCAG+AGG - chr2.2:53727092-53727111 MS.gene058171:intron 35.0%
!! CAAAGTATTGAGTTCACTGA+AGG - chr2.2:53726881-53726900 MS.gene058171:CDS 35.0%
!! GACTTGTAAAGCTTGTTGAA+GGG - chr2.2:53727687-53727706 MS.gene058171:CDS 35.0%
AGTCTCATTCAAGAGCCAAT+TGG - chr2.2:53727553-53727572 MS.gene058171:intron 40.0%
ATTGAGTTCACTGAAGGAAC+TGG - chr2.2:53726887-53726906 MS.gene058171:CDS 40.0%
CAATTGGTTGAAGGACCAAA+TGG - chr2.2:53727569-53727588 MS.gene058171:intron 40.0%
CATTTGGTCCTTCAACCAAT+TGG + chr2.2:53727571-53727590 None:intergenic 40.0%
CTTTGTTAGAGTGACAAGTG+AGG - chr2.2:53726997-53727016 MS.gene058171:CDS 40.0%
GTTGAAAGCTGGTAAAGCAA+AGG - chr2.2:53727658-53727677 MS.gene058171:CDS 40.0%
TTCAAGAGCCAATTGGTTGA+AGG - chr2.2:53727560-53727579 MS.gene058171:intron 40.0%
!! GGACTTGTAAAGCTTGTTGA+AGG - chr2.2:53727686-53727705 MS.gene058171:CDS 40.0%
AAGAAGCTCACCACAGTTGA+AGG - chr2.2:53726926-53726945 MS.gene058171:CDS 45.0%
CAAGTATGTGCTACACAGAG+TGG - chr2.2:53727454-53727473 MS.gene058171:intron 45.0%
CACTCTGTGTAGCACATACT+TGG + chr2.2:53727456-53727475 None:intergenic 45.0%
GCTGGTAAAGCAAAGGTTGA+AGG - chr2.2:53727665-53727684 MS.gene058171:CDS 45.0%
GGATCACTTCCACAAGCTTT+GGG + chr2.2:53726862-53726881 None:intergenic 45.0%
TAACCTCTTCCCAAAGCTTG+TGG - chr2.2:53726850-53726869 MS.gene058171:CDS 45.0%
TGGATCACTTCCACAAGCTT+TGG + chr2.2:53726863-53726882 None:intergenic 45.0%
TGGTTGAAGGACCAAATGGA+GGG - chr2.2:53727573-53727592 MS.gene058171:intron 45.0%
TTGGTTGAAGGACCAAATGG+AGG - chr2.2:53727572-53727591 MS.gene058171:intron 45.0%
! TTCCTAATGGACCCTCCATT+TGG + chr2.2:53727587-53727606 None:intergenic 45.0%
! TTTAGCATTATTGGGGGCAC+TGG - chr2.2:53727509-53727528 MS.gene058171:intron 45.0%
!! ATGGCTTTGAAGAGCCTAAC+AGG + chr2.2:53726815-53726834 None:intergenic 45.0%
!!! GCTTGTTGAAGGGTACCTTT+TGG - chr2.2:53727697-53727716 MS.gene058171:CDS 45.0%
AGTGAGGAGGAGTTGAAAGC+TGG - chr2.2:53727647-53727666 MS.gene058171:CDS 50.0%
GACCAAATGGAGGGTCCATT+AGG - chr2.2:53727582-53727601 MS.gene058171:CDS 50.0%
GAGTTCACTGAAGGAACTGG+TGG - chr2.2:53726890-53726909 MS.gene058171:CDS 50.0%
TAACAGGAGGAACAGCAGCA+GGG + chr2.2:53726799-53726818 None:intergenic 50.0%
!! CACTGGATTGGCTGACACAT+TGG - chr2.2:53727526-53727545 MS.gene058171:intron 50.0%
!! CATTATTGGGGGCACTGGAT+TGG - chr2.2:53727514-53727533 MS.gene058171:intron 50.0%
!! CTTCCACAAGCTTTGGGAAG+AGG + chr2.2:53726856-53726875 None:intergenic 50.0%
!! GCTTTGAAGAGCCTAACAGG+AGG + chr2.2:53726812-53726831 None:intergenic 50.0%
AACAGGAGGAACAGCAGCAG+GGG + chr2.2:53726798-53726817 None:intergenic 55.0%
CTAACAGGAGGAACAGCAGC+AGG + chr2.2:53726800-53726819 None:intergenic 55.0%
CTGCTGCTGTTCCTCCTGTT+AGG - chr2.2:53726798-53726817 MS.gene058171:CDS 55.0%
! ACTGAAGGAACTGGTGGTGC+TGG - chr2.2:53726896-53726915 MS.gene058171:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 53726785 53727736 53726785 ID=MS.gene058171
chr2.2 mRNA 53726785 53727736 53726785 ID=MS.gene058171.t1;Parent=MS.gene058171
chr2.2 exon 53727574 53727736 53727574 ID=MS.gene058171.t1.exon1;Parent=MS.gene058171.t1
chr2.2 CDS 53727574 53727736 53727574 ID=cds.MS.gene058171.t1;Parent=MS.gene058171.t1
chr2.2 exon 53726785 53727077 53726785 ID=MS.gene058171.t1.exon2;Parent=MS.gene058171.t1
chr2.2 CDS 53726785 53727077 53726785 ID=cds.MS.gene058171.t1;Parent=MS.gene058171.t1
Gene Sequence

>MS.gene058171

GAGTATGCTACCCCTGCTGCTGTTCCTCCTGTTAGGCTCTTCAAAGCCATGTCATTAGAGTTTCATAACCTCTTCCCAAAGCTTGTGGAAGTGATCCAAAGTATTGAGTTCACTGAAGGAACTGGTGGTGCTGGAACAATCAAGAAGCTCACCACAGTTGAAGGTCAGTAATTAAATGCTATATTTTAATTCCATGACTTTAGGATTTGAGTCTTTGTTAGAGTGACAAGTGAGGACTTGTATTGTAGAAAAATGATCCTCAATTAAAATAAGAGAAAATTATAATTAATTAAAATGACACTAATGATCATTTTACAGTTGTCTCAGAGGATTTTAACTCTGTCTCTTTAGACCATAATTTGCACCTACTTATATCGTTGTAAACTTGAGCTTTTTGAATCGATTATGAGACTAATTCACATATCCAAAAATCATCACAAGTAAGACGAAGAAAAATGTTATGATTGTTTTTAATGAGAAACCATGATCATTATTTTTTTTTTTTTTTTTATAGAAAAATGTTAGTGGTTAATTCGTTAAATTAAAGGAATATGGTCATAGTTATTTCATTTGAAAATCATTTATATAACATAATTTATAATCATAGTTAGTTAAATTAAATTAATGGAATATGAAATGAGTGAATTTGATGAATACAGGTGGAGAGACCAAGTATGTGCTACACAGAGTGGATGAAATTGATGAGACTAAATTTGTGTACAACTTTAGCATTATTGGGGGCACTGGATTGGCTGACACATTGGAGAAAGTCTCATTCAAGAGCCAATTGGTTGAAGGACCAAATGGAGGGTCCATTAGGAATGTACATGTTGATTATTTTACCAAAGGTGATTATAATTTAAGTGAGGAGGAGTTGAAAGCTGGTAAAGCAAAGGTTGAAGGACTTGTAAAGCTTGTTGAAGGGTACCTTTTGGCAAATCCTGATTACTGA

Protein sequence

>MS.gene058171.t1

EYATPAAVPPVRLFKAMSLEFHNLFPKLVEVIQSIEFTEGTGGAGTIKKLTTVEGGETKYVLHRVDEIDETKFVYNFSIIGGTGLADTLEKVSFKSQLVEGPNGGSIRNVHVDYFTKGDYNLSEEELKAGKAKVEGLVKLVEGYLLANPDY