AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene75952

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75952.t1 MTR_3g070120 31.646 158 94 4 28 174 146 300 4.28e-13 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 38 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTTGATGTTTGCTTCTTTA+AGG 0.138534 6.4:-4433742 None:intergenic
CTTAGATTTCAAATCCAATT+TGG 0.142363 6.4:+4433818 MS.gene75952:CDS
TTTACCTTTCTCACAAGATT+TGG 0.226819 6.4:+4434027 MS.gene75952:CDS
GAAGAGGGTTTCTCTTGTTT+TGG 0.245975 6.4:-4433717 None:intergenic
GGAGCGTGCACGGTTAATTA+AGG 0.290096 6.4:+4434136 MS.gene75952:CDS
TCAAGAGCCGGAATTGGATT+TGG 0.301896 6.4:+4434115 MS.gene75952:CDS
TTACCTTTCTCACAAGATTT+GGG 0.302378 6.4:+4434028 MS.gene75952:CDS
TTTGGGGACAAGAGTTGATT+GGG 0.351467 6.4:+4434045 MS.gene75952:CDS
GGCAGCTTAGAAAGAGGATA+TGG 0.353135 6.4:+4433916 MS.gene75952:CDS
TTAGATTTCAAATCCAATTT+GGG 0.355655 6.4:+4433819 MS.gene75952:CDS
GAAAGTTCAAGAGCCGGAAT+TGG 0.391991 6.4:+4434109 MS.gene75952:CDS
ATTTGGGGACAAGAGTTGAT+TGG 0.406484 6.4:+4434044 MS.gene75952:CDS
ACAAGAGTTGATTGGGGAAT+CGG 0.415419 6.4:+4434052 MS.gene75952:CDS
GCACGCTCCAAATCCAATTC+CGG 0.440433 6.4:-4434122 None:intergenic
GTCCCCAAATCTTGTGAGAA+AGG 0.458776 6.4:-4434031 None:intergenic
TCAAGATCATTATAGAATCT+AGG 0.460182 6.4:-4433993 None:intergenic
CTAAGAAGCCATTGAGAATG+AGG 0.476463 6.4:-4433800 None:intergenic
ATCCTCTTTCTAAGCTGCCC+TGG 0.495595 6.4:-4433912 None:intergenic
ATATGAGAACATGAAGAAAG+AGG 0.508111 6.4:+4433953 MS.gene75952:CDS
CTTTCTAAGCTGCCCTGGTG+TGG 0.513545 6.4:-4433907 None:intergenic
GTCATTTCTAAGTTATTGCA+AGG 0.515777 6.4:+4434170 MS.gene75952:CDS
ATTCTATAATGATCTTGAGC+AGG 0.520209 6.4:+4433998 MS.gene75952:CDS
GACGAAATCCTCATTCTCAA+TGG 0.536241 6.4:+4433792 MS.gene75952:CDS
GGATAGAGTTGGATGAAATG+TGG 0.536445 6.4:+4434078 MS.gene75952:CDS
AATTGGATTTGGAGCGTGCA+CGG 0.556576 6.4:+4434126 MS.gene75952:CDS
GGAATTGAAAGTTCAAGAGC+CGG 0.565005 6.4:+4434103 MS.gene75952:CDS
CTTACTGTGAAAACCACACC+AGG 0.566823 6.4:+4433894 MS.gene75952:CDS
TGCTTCTTTAAGGAAGAAGA+GGG 0.572401 6.4:-4433732 None:intergenic
CACCAGGGCAGCTTAGAAAG+AGG 0.573849 6.4:+4433910 MS.gene75952:CDS
TACCTTTCTCACAAGATTTG+GGG 0.576919 6.4:+4434029 MS.gene75952:CDS
TTGGGGACAAGAGTTGATTG+GGG 0.578511 6.4:+4434046 MS.gene75952:CDS
TTGCTTCTTTAAGGAAGAAG+AGG 0.590446 6.4:-4433733 None:intergenic
AGAGTTGGATGAAATGTGGA+AGG 0.591400 6.4:+4434082 MS.gene75952:CDS
GGAATCGGATCGGATAGAGT+TGG 0.604264 6.4:+4434067 MS.gene75952:CDS
GATTTCGTCATCGAAAGTGA+AGG 0.605806 6.4:-4433778 None:intergenic
AGTTGATTGGGGAATCGGAT+CGG 0.606498 6.4:+4434057 MS.gene75952:CDS
AGATCATTATAGAATCTAGG+AGG 0.675424 6.4:-4433990 None:intergenic
TTACTGTGAAAACCACACCA+GGG 0.799910 6.4:+4433895 MS.gene75952:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAGATTTCAAATCCAATTT+GGG + chr6.4:4433819-4433838 MS.gene75952:CDS 20.0%
! CTTAGATTTCAAATCCAATT+TGG + chr6.4:4433818-4433837 MS.gene75952:CDS 25.0%
! TCAAGATCATTATAGAATCT+AGG - chr6.4:4433996-4434015 None:intergenic 25.0%
!!! TTTCTCTTGTTTTGGATTTT+GGG - chr6.4:4433712-4433731 None:intergenic 25.0%
AGATCATTATAGAATCTAGG+AGG - chr6.4:4433993-4434012 None:intergenic 30.0%
ATATGAGAACATGAAGAAAG+AGG + chr6.4:4433953-4433972 MS.gene75952:CDS 30.0%
ATTCTATAATGATCTTGAGC+AGG + chr6.4:4433998-4434017 MS.gene75952:CDS 30.0%
GTCATTTCTAAGTTATTGCA+AGG + chr6.4:4434170-4434189 MS.gene75952:CDS 30.0%
GTTTGATGTTTGCTTCTTTA+AGG - chr6.4:4433745-4433764 None:intergenic 30.0%
TTACCTTTCTCACAAGATTT+GGG + chr6.4:4434028-4434047 MS.gene75952:CDS 30.0%
TTTACCTTTCTCACAAGATT+TGG + chr6.4:4434027-4434046 MS.gene75952:CDS 30.0%
! AGAATCTAGGAGGAAATTTT+TGG - chr6.4:4433983-4434002 None:intergenic 30.0%
!!! GTTTCTCTTGTTTTGGATTT+TGG - chr6.4:4433713-4433732 None:intergenic 30.0%
TACCTTTCTCACAAGATTTG+GGG + chr6.4:4434029-4434048 MS.gene75952:CDS 35.0%
! TGCTTCTTTAAGGAAGAAGA+GGG - chr6.4:4433735-4433754 None:intergenic 35.0%
! TTGCTTCTTTAAGGAAGAAG+AGG - chr6.4:4433736-4433755 None:intergenic 35.0%
!! CATTGCATTTTGACCCAAAT+TGG - chr6.4:4433835-4433854 None:intergenic 35.0%
AGAGTTGGATGAAATGTGGA+AGG + chr6.4:4434082-4434101 MS.gene75952:CDS 40.0%
CTAAGAAGCCATTGAGAATG+AGG - chr6.4:4433803-4433822 None:intergenic 40.0%
GACGAAATCCTCATTCTCAA+TGG + chr6.4:4433792-4433811 MS.gene75952:CDS 40.0%
GATTTCGTCATCGAAAGTGA+AGG - chr6.4:4433781-4433800 None:intergenic 40.0%
GGAATTGAAAGTTCAAGAGC+CGG + chr6.4:4434103-4434122 MS.gene75952:CDS 40.0%
GGATAGAGTTGGATGAAATG+TGG + chr6.4:4434078-4434097 MS.gene75952:CDS 40.0%
TTACTGTGAAAACCACACCA+GGG + chr6.4:4433895-4433914 MS.gene75952:CDS 40.0%
! ACAAGAGTTGATTGGGGAAT+CGG + chr6.4:4434052-4434071 MS.gene75952:CDS 40.0%
! ATTTGGGGACAAGAGTTGAT+TGG + chr6.4:4434044-4434063 MS.gene75952:CDS 40.0%
! TTTGGGGACAAGAGTTGATT+GGG + chr6.4:4434045-4434064 MS.gene75952:CDS 40.0%
!! GAAGAGGGTTTCTCTTGTTT+TGG - chr6.4:4433720-4433739 None:intergenic 40.0%
AGTTGATTGGGGAATCGGAT+CGG + chr6.4:4434057-4434076 MS.gene75952:CDS 45.0%
CTTACTGTGAAAACCACACC+AGG + chr6.4:4433894-4433913 MS.gene75952:CDS 45.0%
GAAAGTTCAAGAGCCGGAAT+TGG + chr6.4:4434109-4434128 MS.gene75952:CDS 45.0%
GGCAGCTTAGAAAGAGGATA+TGG + chr6.4:4433916-4433935 MS.gene75952:CDS 45.0%
GTCCCCAAATCTTGTGAGAA+AGG - chr6.4:4434034-4434053 None:intergenic 45.0%
TCAAGAGCCGGAATTGGATT+TGG + chr6.4:4434115-4434134 MS.gene75952:CDS 45.0%
! AATTGGATTTGGAGCGTGCA+CGG + chr6.4:4434126-4434145 MS.gene75952:CDS 45.0%
! TTGGGGACAAGAGTTGATTG+GGG + chr6.4:4434046-4434065 MS.gene75952:CDS 45.0%
ATCCTCTTTCTAAGCTGCCC+TGG - chr6.4:4433915-4433934 None:intergenic 50.0%
GCACGCTCCAAATCCAATTC+CGG - chr6.4:4434125-4434144 None:intergenic 50.0%
GGAATCGGATCGGATAGAGT+TGG + chr6.4:4434067-4434086 MS.gene75952:CDS 50.0%
GGAGCGTGCACGGTTAATTA+AGG + chr6.4:4434136-4434155 MS.gene75952:CDS 50.0%
CACCAGGGCAGCTTAGAAAG+AGG + chr6.4:4433910-4433929 MS.gene75952:CDS 55.0%
CTTTCTAAGCTGCCCTGGTG+TGG - chr6.4:4433910-4433929 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 4433678 4434208 4433678 ID=MS.gene75952
chr6.4 mRNA 4433678 4434208 4433678 ID=MS.gene75952.t1;Parent=MS.gene75952
chr6.4 exon 4433678 4434208 4433678 ID=MS.gene75952.t1.exon1;Parent=MS.gene75952.t1
chr6.4 CDS 4433678 4434208 4433678 ID=cds.MS.gene75952.t1;Parent=MS.gene75952.t1
Gene Sequence

>MS.gene75952

ATGGCAAAGAAATCAAGTTGTTCTTCTTCATCCCAAAATCCAAAACAAGAGAAACCCTCTTCTTCCTTAAAGAAGCAAACATCAAACTCACGTAAGAAAACCTTCACTTTCGATGACGAAATCCTCATTCTCAATGGCTTCTTAGATTTCAAATCCAATTTGGGTCAAAATGCAATGACAGATTACACACTTTTTTATAACTCTGTGAAAGATTTGCTTACTGTGAAAACCACACCAGGGCAGCTTAGAAAGAGGATATGGAAGTTAAAACAAAAATATGAGAACATGAAGAAAGAGGAAAACCAAAAATTTCCTCCTAGATTCTATAATGATCTTGAGCAGGAAATAATTTACCTTTCTCACAAGATTTGGGGACAAGAGTTGATTGGGGAATCGGATCGGATAGAGTTGGATGAAATGTGGAAGGAATTGAAAGTTCAAGAGCCGGAATTGGATTTGGAGCGTGCACGGTTAATTAAGGACTCGATTGACGTCATTTCTAAGTTATTGCAAGGATCATCTTCGTCTTAG
Protein sequence

>MS.gene75952.t1

MAKKSSCSSSSQNPKQEKPSSSLKKQTSNSRKKTFTFDDEILILNGFLDFKSNLGQNAMTDYTLFYNSVKDLLTVKTTPGQLRKRIWKLKQKYENMKKEENQKFPPRFYNDLEQEIIYLSHKIWGQELIGESDRIELDEMWKELKVQEPELDLERARLIKDSIDVISKLLQGSSSS