AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene73434


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73434.t1 MTR_1g109370 93.642 173 7 1 23 195 48 216 1.40e-112 320
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73434.t1 AT1G68185 46.452 155 81 2 42 195 62 215 4.32e-39 133
MS.gene73434.t1 AT1G68185 46.452 155 81 2 42 195 62 215 4.32e-39 133
MS.gene73434.t1 AT1G68185 46.452 155 81 2 42 195 108 261 1.87e-38 133

Find 45 sgRNAs with CRISPR-Local

Find 98 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCCTCATCAGTCTTCTTA+TGG 0.228908 1.4:+83737141 None:intergenic
ACCATCGAGGCACACGATAT+TGG 0.263756 1.4:+83737537 None:intergenic
AAAGCAGATTCGGATGTTTA+TGG 0.264643 1.4:-83736455 MS.gene73434:intron
CAAATTGTGTTGTCATTTGA+TGG 0.307014 1.4:-83736128 MS.gene73434:CDS
TATCATTATCTTCCATTTCA+AGG 0.332434 1.4:+83736072 None:intergenic
CACGGAAGGTTGCAATGAAT+TGG 0.349044 1.4:+83736555 None:intergenic
CCATCGAGGCACACGATATT+GGG 0.373094 1.4:+83737538 None:intergenic
AGTCTTCTTATGGGCCTTAC+CGG 0.377421 1.4:+83737151 None:intergenic
CTCCTCATCAGTCTTCTTAT+GGG 0.387413 1.4:+83737142 None:intergenic
AAACAAGGGTTCAAGTTCTT+CGG 0.392297 1.4:+83737579 None:intergenic
AACCCCTGCCAGCCTTGAAA+TGG 0.394451 1.4:-83736084 MS.gene73434:CDS
ATTCAACTTTGAAGAATTTG+AGG 0.439470 1.4:-83737118 MS.gene73434:intron
CCCAATATCGTGTGCCTCGA+TGG 0.441844 1.4:-83737538 MS.gene73434:intron
TTTGGGGTTTAGGTTGAGAA+TGG 0.451301 1.4:-83737251 MS.gene73434:intron
TCTTCCATTTCAAGGCTGGC+AGG 0.456162 1.4:+83736080 None:intergenic
AGGATGAAACAAAGCAGATT+CGG 0.459454 1.4:-83736465 MS.gene73434:CDS
TTCCATTTCAAGGCTGGCAG+GGG 0.465493 1.4:+83736082 None:intergenic
GCCTTACCGGTGACCCTTGG+TGG 0.466237 1.4:+83737164 None:intergenic
TGGGCCTTACCGGTGACCCT+TGG 0.476360 1.4:+83737161 None:intergenic
CAATTCATTGCAACCTTCCG+TGG 0.476932 1.4:-83736554 MS.gene73434:CDS
ATTATCTTCCATTTCAAGGC+TGG 0.485099 1.4:+83736076 None:intergenic
GCCACCAAGGGTCACCGGTA+AGG 0.490738 1.4:-83737165 MS.gene73434:CDS
CTTCCATTTCAAGGCTGGCA+GGG 0.494291 1.4:+83736081 None:intergenic
TTGGGGTTTAGGTTGAGAAT+GGG 0.505216 1.4:-83737250 MS.gene73434:intron
AGAATCTTTGCTCGTTCAGA+AGG 0.520871 1.4:+83736505 None:intergenic
TTTGTATAGATTGAAGAAGC+AGG 0.529052 1.4:-83736650 MS.gene73434:intron
TCACTTACGTCGTCCACGGA+AGG 0.541348 1.4:+83736541 None:intergenic
CCGGTGACCCTTGGTGGCGA+AGG 0.548861 1.4:+83737170 None:intergenic
TGTAGGATGACCAGTTTGAA+AGG 0.550107 1.4:-83736193 MS.gene73434:intron
CCTTCGCCACCAAGGGTCAC+CGG 0.569098 1.4:-83737170 MS.gene73434:CDS
TGAGAATGGGAAGAATACTA+AGG 0.569816 1.4:-83737237 MS.gene73434:CDS
TTGGTTACCTTCGCCACCAA+GGG 0.579619 1.4:-83737177 MS.gene73434:CDS
AACGCGACTGTAATCAAACA+AGG 0.602179 1.4:+83737564 None:intergenic
GAATGGGAAGAATACTAAGG+TGG 0.613980 1.4:-83737234 MS.gene73434:CDS
TGGACCTCGAGGATGATGAT+TGG 0.623297 1.4:-83737196 MS.gene73434:CDS
TCTCATCTCTGTTCAAGACA+AGG 0.626807 1.4:-83736485 MS.gene73434:CDS
CCATAAGAAGACTGATGAGG+AGG 0.627181 1.4:-83737141 MS.gene73434:CDS
ATTGGTTACCTTCGCCACCA+AGG 0.629138 1.4:-83737178 MS.gene73434:CDS
TAAGGTGGAAACAGTGAATG+TGG 0.687527 1.4:-83737219 MS.gene73434:CDS
GGCCCATAAGAAGACTGATG+AGG 0.692280 1.4:-83737144 MS.gene73434:CDS
AGTGAATGTGGTGGACCTCG+AGG 0.707436 1.4:-83737207 MS.gene73434:CDS
GGTGGAAACAGTGAATGTGG+TGG 0.711849 1.4:-83737216 MS.gene73434:CDS
TTAAGGAGTGCTAACCATCG+AGG 0.734889 1.4:+83737524 None:intergenic
ACGCGACTGTAATCAAACAA+GGG 0.742183 1.4:+83737565 None:intergenic
GTAACCAATCATCATCCTCG+AGG 0.759157 1.4:+83737192 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAACAAAAAATTAAACATT+TGG + chr1.4:83736163-83736182 None:intergenic 10.0%
!! AAACAAAAAATTAAACATTT+GGG + chr1.4:83736162-83736181 None:intergenic 10.0%
!! TTAATTTCAATTTGAATAAT+CGG + chr1.4:83736135-83736154 None:intergenic 10.0%
!! AACAAAAAATTAAACATTTG+GGG + chr1.4:83736161-83736180 None:intergenic 15.0%
!! CTGATAAAGAAAATAAAAAA+AGG + chr1.4:83737332-83737351 None:intergenic 15.0%
!!! GTAAATTTTGATAATGTTTT+GGG - chr1.4:83736360-83736379 MS.gene73434:intron 15.0%
!!! TAAATTTTGATAATGTTTTG+GGG - chr1.4:83736361-83736380 MS.gene73434:intron 15.0%
!!! TGTAAATTTTGATAATGTTT+TGG - chr1.4:83736359-83736378 MS.gene73434:intron 15.0%
!! AATGGCAAAAAACAAAAATT+TGG + chr1.4:83736573-83736592 None:intergenic 20.0%
!! ACAAAAAATTAAACATTTGG+GGG + chr1.4:83736160-83736179 None:intergenic 20.0%
!! ATGAGTAGAATAACTTATAT+TGG + chr1.4:83736887-83736906 None:intergenic 20.0%
!! CAAAACAAAAAACACAAATT+TGG + chr1.4:83736312-83736331 None:intergenic 20.0%
!! TAAAATAACATGCTCATAAA+GGG - chr1.4:83736754-83736773 MS.gene73434:intron 20.0%
!! TAAAGAAAATAAAAAAAGGC+AGG + chr1.4:83737328-83737347 None:intergenic 20.0%
!! TTAAAATAACATGCTCATAA+AGG - chr1.4:83736753-83736772 MS.gene73434:intron 20.0%
!!! TTGTATAAAAAAAGTGTGTT+GGG - chr1.4:83736802-83736821 MS.gene73434:intron 20.0%
! ACATCTTATAAGAAACTGTA+TGG + chr1.4:83736952-83736971 None:intergenic 25.0%
! TAACTAATTAAGCCTATTCT+TGG - chr1.4:83736849-83736868 MS.gene73434:intron 25.0%
! TAAGTAAACAAACAATGCAA+TGG + chr1.4:83736591-83736610 None:intergenic 25.0%
! TATCATTATCTTCCATTTCA+AGG + chr1.4:83737559-83737578 None:intergenic 25.0%
! TGTTGATGTTCTTAATATTG+TGG - chr1.4:83737227-83737246 MS.gene73434:CDS 25.0%
! TTGAATAATCGGAATAGTTA+AGG + chr1.4:83736124-83736143 None:intergenic 25.0%
!! AGTTTGTTTGAAATGGTATA+AGG - chr1.4:83737285-83737304 MS.gene73434:intron 25.0%
!! ATTCAACTTTGAAGAATTTG+AGG - chr1.4:83736510-83736529 MS.gene73434:CDS 25.0%
!! CTTGTATAAAAAAAGTGTGT+TGG - chr1.4:83736801-83736820 MS.gene73434:intron 25.0%
!! GTTTGTTTGAAATGGTATAA+GGG - chr1.4:83737286-83737305 MS.gene73434:intron 25.0%
!!! TAGTTGTAGTTTGTTTGAAA+TGG - chr1.4:83737278-83737297 MS.gene73434:intron 25.0%
!!! TGTAGCAATGTTTTAAAAAC+CGG + chr1.4:83736719-83736738 None:intergenic 25.0%
!!! TGTGTTTTTTGTTTTGTACA+AGG - chr1.4:83736316-83736335 MS.gene73434:intron 25.0%
!!! TTTTGATAATCCTTTCAAAC+TGG + chr1.4:83737448-83737467 None:intergenic 25.0%
AATTAAGCCTATTCTTGGTT+TGG - chr1.4:83736854-83736873 MS.gene73434:intron 30.0%
ATCCTACAGAGAATTGAAAA+AGG + chr1.4:83737423-83737442 None:intergenic 30.0%
GAATTCTTCTTTCTCTTCTT+AGG + chr1.4:83736258-83736277 None:intergenic 30.0%
TAAAGTTCCAAACCAAGAAT+AGG + chr1.4:83736864-83736883 None:intergenic 30.0%
TTTGTATAGATTGAAGAAGC+AGG - chr1.4:83736978-83736997 MS.gene73434:intron 30.0%
TTTGTTTACTTAACACTCCT+AGG - chr1.4:83736599-83736618 MS.gene73434:CDS 30.0%
! AACTTTGAAGAATTTGAGGT+TGG - chr1.4:83736514-83736533 MS.gene73434:CDS 30.0%
! CAAATTGTGTTGTCATTTGA+TGG - chr1.4:83737500-83737519 MS.gene73434:intron 30.0%
! TCAACATGTAGTGAGTATTT+TGG - chr1.4:83736284-83736303 MS.gene73434:intron 30.0%
!! TATTTGTCACTTTATCTAGC+TGG - chr1.4:83737385-83737404 MS.gene73434:intron 30.0%
!! TTGTTTTGTACAAGGATGTT+TGG - chr1.4:83736324-83736343 MS.gene73434:intron 30.0%
!! TTTTCCGATTCGTTTGATTT+CGG + chr1.4:83736690-83736709 None:intergenic 30.0%
!!! GTAGCAATGTTTTAAAAACC+GGG + chr1.4:83736718-83736737 None:intergenic 30.0%
!!! TTGATAATGTTTTGGGGTTT+AGG - chr1.4:83736367-83736386 MS.gene73434:intron 30.0%
AAAGCAGATTCGGATGTTTA+TGG - chr1.4:83737173-83737192 MS.gene73434:CDS 35.0%
ACAATGTAGTCTGATTGAAC+TGG + chr1.4:83736665-83736684 None:intergenic 35.0%
AGGATGAAACAAAGCAGATT+CGG - chr1.4:83737163-83737182 MS.gene73434:CDS 35.0%
ATTATCTTCCATTTCAAGGC+TGG + chr1.4:83737555-83737574 None:intergenic 35.0%
GTAACCGAAATCAAACGAAT+CGG - chr1.4:83736683-83736702 MS.gene73434:intron 35.0%
TATCAGAGCTGCATTTCTTT+AGG - chr1.4:83737346-83737365 MS.gene73434:intron 35.0%
TGAGAATGGGAAGAATACTA+AGG - chr1.4:83736391-83736410 MS.gene73434:intron 35.0%
! AAACAAGGGTTCAAGTTCTT+CGG + chr1.4:83736052-83736071 None:intergenic 35.0%
!! CGGTTTAACTTGTTAAACCT+AGG + chr1.4:83736619-83736638 None:intergenic 35.0%
!!! CTCCTTTTTCAATTCTCTGT+AGG - chr1.4:83737418-83737437 MS.gene73434:intron 35.0%
!!! GGTTGTTTTTATTAGTGCTC+TGG - chr1.4:83737248-83737267 MS.gene73434:intron 35.0%
!!! TTTTGCTGATTCAGCAAAAG+CGG + chr1.4:83737010-83737029 None:intergenic 35.0%
AACGCGACTGTAATCAAACA+AGG + chr1.4:83736067-83736086 None:intergenic 40.0%
ACGCGACTGTAATCAAACAA+GGG + chr1.4:83736066-83736085 None:intergenic 40.0%
AGAATCTTTGCTCGTTCAGA+AGG + chr1.4:83737126-83737145 None:intergenic 40.0%
CTCCTCATCAGTCTTCTTAT+GGG + chr1.4:83736489-83736508 None:intergenic 40.0%
GAATGGGAAGAATACTAAGG+TGG - chr1.4:83736394-83736413 MS.gene73434:intron 40.0%
GAGTTGAATCAGTTGAATCG+CGG + chr1.4:83736643-83736662 None:intergenic 40.0%
TAAGGTGGAAACAGTGAATG+TGG - chr1.4:83736409-83736428 MS.gene73434:intron 40.0%
TCTCATCTCTGTTCAAGACA+AGG - chr1.4:83737143-83737162 MS.gene73434:CDS 40.0%
TGTAGGATGACCAGTTTGAA+AGG - chr1.4:83737435-83737454 MS.gene73434:intron 40.0%
! TTTTTCACTTACGTCGTCCA+CGG + chr1.4:83737094-83737113 None:intergenic 40.0%
!! TTGGGGTTTAGGTTGAGAAT+GGG - chr1.4:83736378-83736397 MS.gene73434:intron 40.0%
!! TTTGGGGTTTAGGTTGAGAA+TGG - chr1.4:83736377-83736396 MS.gene73434:intron 40.0%
ACGAATCGGAAAACTGAACC+CGG - chr1.4:83736697-83736716 MS.gene73434:intron 45.0%
AGTCTTCTTATGGGCCTTAC+CGG + chr1.4:83736480-83736499 None:intergenic 45.0%
CAATTCATTGCAACCTTCCG+TGG - chr1.4:83737074-83737093 MS.gene73434:intron 45.0%
CACGGAAGGTTGCAATGAAT+TGG + chr1.4:83737076-83737095 None:intergenic 45.0%
CCATAAGAAGACTGATGAGG+AGG - chr1.4:83736487-83736506 MS.gene73434:CDS 45.0%
CCTCCTCATCAGTCTTCTTA+TGG + chr1.4:83736490-83736509 None:intergenic 45.0%
GTAACCAATCATCATCCTCG+AGG + chr1.4:83736439-83736458 None:intergenic 45.0%
TGAATCAGTTGAATCGCGGT+CGG + chr1.4:83736639-83736658 None:intergenic 45.0%
!! TTAAGGAGTGCTAACCATCG+AGG + chr1.4:83736107-83736126 None:intergenic 45.0%
!!! TATTTTAGAATAAAAATAAA+AGG + chr1.4:83736186-83736205 None:intergenic 5.0%
ACCATCGAGGCACACGATAT+TGG + chr1.4:83736094-83736113 None:intergenic 50.0%
AGGCAGGCAGATCAGAAACA+TGG + chr1.4:83737312-83737331 None:intergenic 50.0%
ATTGGTTACCTTCGCCACCA+AGG - chr1.4:83736450-83736469 MS.gene73434:intron 50.0%
CCATCGAGGCACACGATATT+GGG + chr1.4:83736093-83736112 None:intergenic 50.0%
CTTCCATTTCAAGGCTGGCA+GGG + chr1.4:83737550-83737569 None:intergenic 50.0%
GGCCCATAAGAAGACTGATG+AGG - chr1.4:83736484-83736503 MS.gene73434:CDS 50.0%
GGTGGAAACAGTGAATGTGG+TGG - chr1.4:83736412-83736431 MS.gene73434:intron 50.0%
TCTTCCATTTCAAGGCTGGC+AGG + chr1.4:83737551-83737570 None:intergenic 50.0%
TGGACCTCGAGGATGATGAT+TGG - chr1.4:83736432-83736451 MS.gene73434:intron 50.0%
TTCCATTTCAAGGCTGGCAG+GGG + chr1.4:83737549-83737568 None:intergenic 50.0%
TTGGTTACCTTCGCCACCAA+GGG - chr1.4:83736451-83736470 MS.gene73434:intron 50.0%
AACCCCTGCCAGCCTTGAAA+TGG - chr1.4:83737544-83737563 MS.gene73434:CDS 55.0%
CCCAATATCGTGTGCCTCGA+TGG - chr1.4:83736090-83736109 MS.gene73434:CDS 55.0%
TCACTTACGTCGTCCACGGA+AGG + chr1.4:83737090-83737109 None:intergenic 55.0%
!! AGTGAATGTGGTGGACCTCG+AGG - chr1.4:83736421-83736440 MS.gene73434:intron 55.0%
CCTTCGCCACCAAGGGTCAC+CGG - chr1.4:83736458-83736477 MS.gene73434:CDS 65.0%
GCCACCAAGGGTCACCGGTA+AGG - chr1.4:83736463-83736482 MS.gene73434:CDS 65.0%
GCCTTACCGGTGACCCTTGG+TGG + chr1.4:83736467-83736486 None:intergenic 65.0%
TGGGCCTTACCGGTGACCCT+TGG + chr1.4:83736470-83736489 None:intergenic 65.0%
!! CCGGTGACCCTTGGTGGCGA+AGG + chr1.4:83736461-83736480 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 83736043 83737607 83736043 ID=MS.gene73434
chr1.4 mRNA 83736043 83737607 83736043 ID=MS.gene73434.t1;Parent=MS.gene73434
chr1.4 exon 83737539 83737607 83737539 ID=MS.gene73434.t1.exon1;Parent=MS.gene73434.t1
chr1.4 CDS 83737539 83737607 83737539 ID=cds.MS.gene73434.t1;Parent=MS.gene73434.t1
chr1.4 exon 83737119 83737261 83737119 ID=MS.gene73434.t1.exon2;Parent=MS.gene73434.t1
chr1.4 CDS 83737119 83737261 83737119 ID=cds.MS.gene73434.t1;Parent=MS.gene73434.t1
chr1.4 exon 83736456 83736663 83736456 ID=MS.gene73434.t1.exon3;Parent=MS.gene73434.t1
chr1.4 CDS 83736456 83736663 83736456 ID=cds.MS.gene73434.t1;Parent=MS.gene73434.t1
chr1.4 exon 83736043 83736210 83736043 ID=MS.gene73434.t1.exon4;Parent=MS.gene73434.t1
chr1.4 CDS 83736043 83736210 83736043 ID=cds.MS.gene73434.t1;Parent=MS.gene73434.t1
Gene Sequence

>MS.gene73434

ATGAAACCGAAGAACTTGAACCCTTGTTTGATTACAGTCGCGTTCAACCCAATATCGTGTGCCTCGATGGTTAGCACTCCTTAACTATTCCGATTATTCAAATTGAAATTAAAACCCCCAAATGTTTAATTTTTTGTTTTCCTTTTATTTTTATTCTAAAATATTGTTGATGAACTGCTGCAGATGATGAAGACGATGATGTTGTTGCTGTTCCTAAGAAGAGAAAGAAGAATTCTAAGTCTCAACATGTAGTGAGTATTTTGGTTCCAAATTTGTGTTTTTTGTTTTGTACAAGGATGTTTGGTTATTCTGTTTTTGTAAATTTTGATAATGTTTTGGGGTTTAGGTTGAGAATGGGAAGAATACTAAGGTGGAAACAGTGAATGTGGTGGACCTCGAGGATGATGATTGGTTACCTTCGCCACCAAGGGTCACCGGTAAGGCCCATAAGAAGACTGATGAGGAGGATTCAACTTTGAAGAATTTGAGGTTGGTTACATTTAAGTATTAATAGAATTTTTTAGCTGCCAAATTTTTGTTTTTTGCCATTGCATTGTTTGTTTACTTAACACTCCTAGGTTTAACAAGTTAAACCGACCGCGATTCAACTGATTCAACTCCAGTTCAATCAGACTACATTGTAACCGAAATCAAACGAATCGGAAAACTGAACCCGGTTTTTAAAACATTGCTACAGAGAGATGTCATAATTAAAATAACATGCTCATAAAGGGTGCTCATGCATTTACTTACATGCTCTTGTATAAAAAAAGTGTGTTGGGTGAAGAAAATGATTTTAGTTTTTTTAACTAATTAAGCCTATTCTTGGTTTGGAACTTTACCAATATAAGTTATTCTACTCATACTTTCTTATCATTATGCTGATGTGCTTATATTCTTTATTTACCATACAGTTTCTTATAAGATGTTTATCATTTGTATAGATTGAAGAAGCAGGAGCTTGCCGCTTTTGCTGAATCAGCAAAAAAATTGTTGAAAACTGTTGAGAATTCTGTAGAAATTGAAAATTCCAATTCATTGCAACCTTCCGTGGACGACGTAAGTGAAAAAGCGTCAAAACCTTCTGAACGAGCAAAGATTCTCATCTCTGTTCAAGACAAGGATGAAACAAAGCAGATTCGGATGTTTATGGTACTGATTACTTCATCATATATACTTTATGTTGTTGATGTTCTTAATATTGTGGTTGTTTTTATTAGTGCTCTGGTCAAATCTAGTTGTAGTTTGTTTGAAATGGTATAAGGGCCATGTTTCTGATCTGCCTGCCTTTTTTTATTTTCTTTATCAGAGCTGCATTTCTTTAGGTCATATTGAATGATTGTATTTGTCACTTTATCTAGCTGGAAATCTTAATCTCCTTTTTCAATTCTCTGTAGGATGACCAGTTTGAAAGGATTATCAAAACATATGCTGAGAAAATGAAGTGTGATCTGAAACAAATTGTGTTGTCATTTGATGGTGATAAAATAAGTTCATCTCAAACCCCTGCCAGCCTTGAAATGGAAGATAATGATATTATTGAAGTTCATGTGAAGTCAAGTTGA

Protein sequence

>MS.gene73434.t1

MKPKNLNPCLITVAFNPISCASMVENGKNTKVETVNVVDLEDDDWLPSPPRVTGKAHKKTDEEDSTLKNLRLKKQELAAFAESAKKLLKTVENSVEIENSNSLQPSVDDVSEKASKPSERAKILISVQDKDETKQIRMFMDDQFERIIKTYAEKMKCDLKQIVLSFDGDKISSSQTPASLEMEDNDIIEVHVKSS