AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene69147

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69147.t1 MTR_4g037750 94.545 110 6 0 1 110 1 110 1.26e-74 218
MS.gene69147.t1 MTR_6g004540 93.333 75 5 0 1 75 1 75 7.56e-49 151
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69147.t1 AT3G52090 86.792 106 14 0 1 106 1 106 9.35e-68 201
MS.gene69147.t1 AT3G52090 67.647 136 14 1 1 106 1 136 1.98e-60 183

Find 32 sgRNAs with CRISPR-Local

Find 92 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAACATAAAGTTGATAGTT+TGG 0.275803 4.2:-65257679 MS.gene69147:CDS
AAGCGTTCTTTGCATGCATT+TGG 0.326468 4.2:-65257729 MS.gene69147:CDS
TATCCAGCGAATAACACATT+AGG 0.348978 4.2:+65259002 None:intergenic
GTAACGATCGGGTGCATTCA+TGG 0.369473 4.2:+65259358 None:intergenic
TTCAGTACAAAATTATCATC+AGG 0.382359 4.2:-65258962 MS.gene69147:CDS
TAGTTTGGATTGGATGTGTT+TGG 0.388311 4.2:-65257664 MS.gene69147:CDS
TACCTCAAAACCACTCTTCA+AGG 0.393375 4.2:+65258052 None:intergenic
GGGAATAGTTTGTGGAGGAC+AGG 0.423629 4.2:-65257708 MS.gene69147:CDS
TAACCAGTCTATTAATGATC+TGG 0.435786 4.2:-65258090 MS.gene69147:CDS
ATCCAGCGAATAACACATTA+GGG 0.445494 4.2:+65259003 None:intergenic
AGCGTTCTTTGCATGCATTT+GGG 0.449687 4.2:-65257728 MS.gene69147:CDS
AGTGTGATCTTCTCTTTCAA+TGG 0.460602 4.2:+65259158 None:intergenic
ATGTGTTTGGATGATTTAGA+AGG 0.466519 4.2:-65257651 MS.gene69147:CDS
GACCCTAATGTGTTATTCGC+TGG 0.469437 4.2:-65259005 MS.gene69147:CDS
ATAAAGTTGATAGTTTGGAT+TGG 0.478047 4.2:-65257674 MS.gene69147:CDS
CAGCCAGTCTTCACCAATGC+AGG 0.497359 4.2:-65258117 MS.gene69147:CDS
TGTCCAGATCATTAATAGAC+TGG 0.498287 4.2:+65258087 None:intergenic
GACGAAACGCTCGTAACGAT+CGG 0.522382 4.2:+65259346 None:intergenic
ATGCATTTGGGAATAGTTTG+TGG 0.528527 4.2:-65257716 MS.gene69147:CDS
ACGAAACGCTCGTAACGATC+GGG 0.531962 4.2:+65259347 None:intergenic
CTGCATTGGTGAAGACTGGC+TGG 0.534907 4.2:+65258118 None:intergenic
AATAAAGGGTTTCGTACGAG+AGG 0.538852 4.2:-65259212 MS.gene69147:intron
ATGCCTGCATTGGTGAAGAC+TGG 0.541956 4.2:+65258114 None:intergenic
GAGCGTTTCGTCGTCCCCGA+AGG 0.559317 4.2:-65259335 MS.gene69147:CDS
TCAGTACAAAATTATCATCA+GGG 0.570840 4.2:-65258961 MS.gene69147:intron
GAACTTGATACCTTGAAGAG+TGG 0.588358 4.2:-65258062 MS.gene69147:CDS
GAAAGAGAAGATCACACTAT+CGG 0.589235 4.2:-65259153 MS.gene69147:CDS
GACTGGTTATATGCCTGCAT+TGG 0.605258 4.2:+65258104 None:intergenic
CATTTGGGAATAGTTTGTGG+AGG 0.618905 4.2:-65257713 MS.gene69147:CDS
ATAAAGGGTTTCGTACGAGA+GGG 0.647792 4.2:-65259211 MS.gene69147:intron
GTCTATTAATGATCTGGACA+AGG 0.664690 4.2:-65258084 MS.gene69147:CDS
TGGGTAGTACATACATGCGG+AGG 0.701441 4.2:+65259124 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACAAAAAATAAAAAAGTT+AGG + chr4.2:65257927-65257946 None:intergenic 10.0%
!! AACAAAAAATAAAAAAGTTA+GGG + chr4.2:65257926-65257945 None:intergenic 10.0%
!!! ATTTTTTTTTTAATGTTTTC+AGG - chr4.2:65257957-65257976 MS.gene69147:intron 10.0%
!! ATATATTTATTTGGAGAAAA+TGG - chr4.2:65258354-65258373 MS.gene69147:intron 15.0%
!!! ATTTTTTTTCGAGTAAATAA+AGG - chr4.2:65257770-65257789 MS.gene69147:intron 15.0%
!!! TTTTTTTCTTTTCTTAAAGT+AGG - chr4.2:65258768-65258787 MS.gene69147:intron 15.0%
!!! TTTTTTTTCGAGTAAATAAA+GGG - chr4.2:65257771-65257790 MS.gene69147:intron 15.0%
!! AAAAAAAACACAACATACAT+AGG + chr4.2:65258751-65258770 None:intergenic 20.0%
!! AAAATGAGAAAAAAGAGAAT+AGG + chr4.2:65257738-65257757 None:intergenic 20.0%
!! AAACAGGCTATATATTTATT+TGG - chr4.2:65258345-65258364 MS.gene69147:intron 20.0%
!! AAATAAATATATAGCCTGTT+TGG + chr4.2:65258346-65258365 None:intergenic 20.0%
!! AAGATAAAAAAAGATCCATT+AGG + chr4.2:65258451-65258470 None:intergenic 20.0%
!! GTATATAAACTGAAAACTTA+TGG + chr4.2:65258571-65258590 None:intergenic 20.0%
!!! TGTCATTTTTTAATTACTAC+CGG + chr4.2:65258109-65258128 None:intergenic 20.0%
! AAAAAGAGAATAGGTAAAGA+AGG + chr4.2:65257729-65257748 None:intergenic 25.0%
! ACTTTCTTATAGCAATGAAT+TGG - chr4.2:65258479-65258498 MS.gene69147:intron 25.0%
! ATGGAAAATGTAAATAGAAG+CGG + chr4.2:65259015-65259034 None:intergenic 25.0%
! ATTTATTTACTCTCCTTTCT+TGG - chr4.2:65259035-65259054 MS.gene69147:intron 25.0%
! GAAAGGAGAGTAAATAAATA+TGG + chr4.2:65259034-65259053 None:intergenic 25.0%
! TCAGTACAAAATTATCATCA+GGG - chr4.2:65258036-65258055 MS.gene69147:intron 25.0%
! TTCAGTACAAAATTATCATC+AGG - chr4.2:65258035-65258054 MS.gene69147:intron 25.0%
!! ATGATAATTTTGTACTGAAG+AGG + chr4.2:65258034-65258053 None:intergenic 25.0%
!! ATTTTTATCTGTATGCGAAT+TGG - chr4.2:65258809-65258828 MS.gene69147:intron 25.0%
!! TAAATGAACTGAATTGGTTT+CGG - chr4.2:65258424-65258443 MS.gene69147:intron 25.0%
!! TTTTTATCTGTATGCGAATT+GGG - chr4.2:65258810-65258829 MS.gene69147:intron 25.0%
!!! AGAACATAAAGTTGATAGTT+TGG - chr4.2:65259318-65259337 MS.gene69147:intron 25.0%
!!! ATAAAGTTGATAGTTTGGAT+TGG - chr4.2:65259323-65259342 MS.gene69147:intron 25.0%
AAAAACGAAGAAAGAGAAAG+TGG + chr4.2:65257896-65257915 None:intergenic 30.0%
AAAACGAAGAAAGAGAAAGT+GGG + chr4.2:65257895-65257914 None:intergenic 30.0%
AAATAAGCTGAAAACAGCTT+AGG - chr4.2:65258237-65258256 MS.gene69147:intron 30.0%
ATGTGTTTGGATGATTTAGA+AGG - chr4.2:65259346-65259365 MS.gene69147:CDS 30.0%
CATGTGTAAATGAACTGAAT+TGG - chr4.2:65258418-65258437 MS.gene69147:intron 30.0%
TAACCAGTCTATTAATGATC+TGG - chr4.2:65258907-65258926 MS.gene69147:intron 30.0%
TCAAATAAGTCAATCCAAAC+AGG - chr4.2:65258329-65258348 MS.gene69147:intron 30.0%
TGATTTATCTGTCTTATCCA+AGG + chr4.2:65258400-65258419 None:intergenic 30.0%
TGTATAAGAATTGCCAAGAA+AGG + chr4.2:65259051-65259070 None:intergenic 30.0%
TTCATTGCTATAAGAAAGTG+TGG + chr4.2:65258478-65258497 None:intergenic 30.0%
! GACATTTTCATAAGCTATCT+TGG - chr4.2:65258202-65258221 MS.gene69147:intron 30.0%
!!! AGATACTTTTTTATGCCTTC+GGG + chr4.2:65257680-65257699 None:intergenic 30.0%
!!! GAGATACTTTTTTATGCCTT+CGG + chr4.2:65257681-65257700 None:intergenic 30.0%
AGTGTGATCTTCTCTTTCAA+TGG + chr4.2:65257842-65257861 None:intergenic 35.0%
ATCCAGCGAATAACACATTA+GGG + chr4.2:65257997-65258016 None:intergenic 35.0%
ATGCATTTGGGAATAGTTTG+TGG - chr4.2:65259281-65259300 MS.gene69147:intron 35.0%
CAACATACATAGGTCATGTT+TGG + chr4.2:65258741-65258760 None:intergenic 35.0%
GAAAGAGAAGATCACACTAT+CGG - chr4.2:65257844-65257863 MS.gene69147:intron 35.0%
GCATTGAGCTTATTAATCCT+TGG - chr4.2:65258380-65258399 MS.gene69147:intron 35.0%
GTCTATTAATGATCTGGACA+AGG - chr4.2:65258913-65258932 MS.gene69147:intron 35.0%
TATCCAGCGAATAACACATT+AGG + chr4.2:65257998-65258017 None:intergenic 35.0%
TGTAAATAGAAGCGGTATTG+AGG + chr4.2:65259007-65259026 None:intergenic 35.0%
TGTCCAGATCATTAATAGAC+TGG + chr4.2:65258913-65258932 None:intergenic 35.0%
! ATTTTGTACTGAAGAGGATG+AGG + chr4.2:65258028-65258047 None:intergenic 35.0%
! CAAATTTTTCCATGACCACT+GGG + chr4.2:65259204-65259223 None:intergenic 35.0%
! TAGTTTGGATTGGATGTGTT+TGG - chr4.2:65259333-65259352 MS.gene69147:CDS 35.0%
!!! GATACTTTTTTATGCCTTCG+GGG + chr4.2:65257679-65257698 None:intergenic 35.0%
AAGCGTTCTTTGCATGCATT+TGG - chr4.2:65259268-65259287 MS.gene69147:intron 40.0%
AAGTGGGTAGTACATACATG+CGG + chr4.2:65257879-65257898 None:intergenic 40.0%
AATAAAGGGTTTCGTACGAG+AGG - chr4.2:65257785-65257804 MS.gene69147:intron 40.0%
AGCGTTCTTTGCATGCATTT+GGG - chr4.2:65259269-65259288 MS.gene69147:intron 40.0%
ATAAAGGGTTTCGTACGAGA+GGG - chr4.2:65257786-65257805 MS.gene69147:intron 40.0%
CCAGTGGTCATGGAAAAATT+TGG - chr4.2:65259202-65259221 MS.gene69147:CDS 40.0%
GAACTTGATACCTTGAAGAG+TGG - chr4.2:65258935-65258954 MS.gene69147:intron 40.0%
GAGTTATATACGCTGAACCT+CGG + chr4.2:65259234-65259253 None:intergenic 40.0%
GTTGTATGCATAAGCTACTC+TGG + chr4.2:65258599-65258618 None:intergenic 40.0%
TACCTCAAAACCACTCTTCA+AGG + chr4.2:65258948-65258967 None:intergenic 40.0%
TCAGTGTCTGTGCTTCAAAT+GGG + chr4.2:65258076-65258095 None:intergenic 40.0%
! AGATTTGTCATTTGACCCAG+TGG - chr4.2:65259186-65259205 MS.gene69147:CDS 40.0%
! CATTTGGGAATAGTTTGTGG+AGG - chr4.2:65259284-65259303 MS.gene69147:intron 40.0%
! CCAAATTTTTCCATGACCAC+TGG + chr4.2:65259205-65259224 None:intergenic 40.0%
! GAAAAATTTGGAGTTGACCG+AGG - chr4.2:65259214-65259233 MS.gene69147:intron 40.0%
! TGAATTGGTTTCGGTCCTAA+TGG - chr4.2:65258433-65258452 MS.gene69147:intron 40.0%
!! TACCTTGAAGAGTGGTTTTG+AGG - chr4.2:65258943-65258962 MS.gene69147:intron 40.0%
CTTCCAAACAGTGTCACAAG+CGG - chr4.2:65258288-65258307 MS.gene69147:intron 45.0%
GCTGAAAACAGCTTAGGAAG+AGG - chr4.2:65258243-65258262 MS.gene69147:intron 45.0%
GTATTAGCGCTATTACTGCC+AGG - chr4.2:65259082-65259101 MS.gene69147:intron 45.0%
GTCAGTGTCTGTGCTTCAAA+TGG + chr4.2:65258077-65258096 None:intergenic 45.0%
TAACCGCTTGTGACACTGTT+TGG + chr4.2:65258294-65258313 None:intergenic 45.0%
! GACCCTAATGTGTTATTCGC+TGG - chr4.2:65257992-65258011 MS.gene69147:intron 45.0%
! GACTGGTTATATGCCTGCAT+TGG + chr4.2:65258896-65258915 None:intergenic 45.0%
!!! TTATTTTTTGTTTTTTAATT+TGG - chr4.2:65257934-65257953 MS.gene69147:intron 5.0%
ACGAAACGCTCGTAACGATC+GGG + chr4.2:65257653-65257672 None:intergenic 50.0%
GACGAAACGCTCGTAACGAT+CGG + chr4.2:65257654-65257673 None:intergenic 50.0%
GTCATTTGACCCAGTGGTCA+TGG - chr4.2:65259192-65259211 MS.gene69147:CDS 50.0%
TGGGTAGTACATACATGCGG+AGG + chr4.2:65257876-65257895 None:intergenic 50.0%
! ATGCCTGCATTGGTGAAGAC+TGG + chr4.2:65258886-65258905 None:intergenic 50.0%
! GGGAATAGTTTGTGGAGGAC+AGG - chr4.2:65259289-65259308 MS.gene69147:intron 50.0%
AGACACTGACACGTCGACAC+CGG - chr4.2:65258087-65258106 MS.gene69147:CDS 55.0%
AGCGCTATTACTGCCAGGCT+AGG - chr4.2:65259087-65259106 MS.gene69147:intron 55.0%
CAGCCAGTCTTCACCAATGC+AGG - chr4.2:65258880-65258899 MS.gene69147:intron 55.0%
! ACTGGCTGGTCGTGTGTATC+TGG + chr4.2:65258868-65258887 None:intergenic 55.0%
! CTGCATTGGTGAAGACTGGC+TGG + chr4.2:65258882-65258901 None:intergenic 55.0%
AACGACTAGCGAGCCTAGCC+TGG + chr4.2:65259103-65259122 None:intergenic 60.0%
GAGCGTTTCGTCGTCCCCGA+AGG - chr4.2:65257662-65257681 MS.gene69147:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 65257641 65259378 65257641 ID=MS.gene69147
chr4.2 mRNA 65257641 65259378 65257641 ID=MS.gene69147.t1;Parent=MS.gene69147
chr4.2 exon 65259326 65259378 65259326 ID=MS.gene69147.t1.exon1;Parent=MS.gene69147.t1
chr4.2 CDS 65259326 65259378 65259326 ID=cds.MS.gene69147.t1;Parent=MS.gene69147.t1
chr4.2 exon 65259138 65259227 65259138 ID=MS.gene69147.t1.exon2;Parent=MS.gene69147.t1
chr4.2 CDS 65259138 65259227 65259138 ID=cds.MS.gene69147.t1;Parent=MS.gene69147.t1
chr4.2 exon 65258962 65259040 65258962 ID=MS.gene69147.t1.exon3;Parent=MS.gene69147.t1
chr4.2 CDS 65258962 65259040 65258962 ID=cds.MS.gene69147.t1;Parent=MS.gene69147.t1
chr4.2 exon 65258055 65258150 65258055 ID=MS.gene69147.t1.exon4;Parent=MS.gene69147.t1
chr4.2 CDS 65258055 65258150 65258055 ID=cds.MS.gene69147.t1;Parent=MS.gene69147.t1
chr4.2 exon 65257641 65257751 65257641 ID=MS.gene69147.t1.exon5;Parent=MS.gene69147.t1
chr4.2 CDS 65257641 65257751 65257641 ID=cds.MS.gene69147.t1;Parent=MS.gene69147.t1
Gene Sequence

>MS.gene69147

ATGAATGCACCCGATCGTTACGAGCGTTTCGTCGTCCCCGAAGGCATAAAAAAGTATCTCTATTCGTTCAACTCTTCTTCTTTCACCTTCTTTACCTATTCTCTTTTTTCTCATTTTTTTTTTTTTATAATTTTTTTTCGAGTAAATAAAGGGTTTCGTACGAGAGGGACACGAAGATCATCAACGCAGCATCTTTCACCATTGAAAGAGAAGATCACACTATCGGCAATATCCTCCGCATGTATGTACTACCCACTTTCTCTTTCTTCGTTTTTATCAAAACCCTAACTTTTTTATTTTTTGTTTTTTAATTTGGATTTTTTTTTTAATGTTTTCAGGCAGCTTCACAAAGACCCTAATGTGTTATTCGCTGGATACATGCTTCCTCATCCTCTTCAGTACAAAATTATCATCAGGGTTAGTTTCTTACTTCCCATTTGAAGCACAGACACTGACACGTCGACACCGGTAGTAATTAAAAAATGACATAATTAAATATAATATCGTATAATTGAAAGATTAGAGAGACTTAAAGTCAAACTATTTTCGTATAAAATGTAAGACATTTTCATAAGCTATCTTGGAGAGCTTTATAGAAATAAGCTGAAAACAGCTTAGGAAGAGGTTATAAGCTATTTTCGTAAATTCTTCCAAACAGTGTCACAAGCGGTTATGCTAGTTGATAAGCTCAAATAAGTCAATCCAAACAGGCTATATATTTATTTGGAGAAAATGGATTGCATTGAGCTTATTAATCCTTGGATAAGACAGATAAATCATGTGTAAATGAACTGAATTGGTTTCGGTCCTAATGGATCTTTTTTTATCTTCTAACCACACTTTCTTATAGCAATGAATTGGATTTCTTTGAGATTATGTACTTACAAAAGCACTAGTGAGATGTTCAAGAGAGAGCTTATGACATGTCCATAAGTTTTCAGTTTATATACACTCTCCAGAGTAGCTTATGCATACAACTTATAGCTTATATGAAAACAATTTGATTTCATTTTATCTTGTTATAGAGTTAGTTCATACATTAACACTTAAATGATATGCGATTATATTATAAGCGTTTTGTAAAGTTGTTTGTTTATCCAAACATGACCTATGTATGTTGTGTTTTTTTTTTTTCTTTTCTTAAAGTAGGAGTTAGAAGTGAATATTTATTTTTATCTGTATGCGAATTGGGAGCTCAGTATCAACTGTTCTGTTGTTATTTTTCCAGATACACACGACCAGCCAGTCTTCACCAATGCAGGCATATAACCAGTCTATTAATGATCTGGACAAGGAACTTGATACCTTGAAGAGTGGTTTTGAGGTACAGTGTTTCTGCTTTTTTGTTCTTTGTGCGATGCGTCCTCAATACCGCTTCTATTTACATTTTCCATATTTATTTACTCTCCTTTCTTGGCAATTCTTATACATGTTAAATAAAGTATTAGCGCTATTACTGCCAGGCTAGGCTCGCTAGTCGTTACACTTGTCACTTTTCAATATCTTTAATATTCTTGAAAGTAGTAGCAGATTTTAACTACTATTAGATTTGTCATTTGACCCAGTGGTCATGGAAAAATTTGGAGTTGACCGAGGTTCAGCGTATATAACTCATTTTATTAATTAGAAGCGTTCTTTGCATGCATTTGGGAATAGTTTGTGGAGGACAGGTAGTTTAGAACATAAAGTTGATAGTTTGGATTGGATGTGTTTGGATGATTTAGAAGGAGAAGAATAG
Protein sequence

>MS.gene69147.t1

MNAPDRYERFVVPEGIKKVSYERDTKIINAASFTIEREDHTIGNILRMQLHKDPNVLFAGYMLPHPLQYKIIIRIHTTSQSSPMQAYNQSINDLDKELDTLKSGFEKRSLHAFGNSLWRTGSLEHKVDSLDWMCLDDLEGEE