AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene52690

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene52690.t1 MTR_7g093700 94.410 161 9 0 1 161 1 161 4.05e-104 295
MS.gene52690.t1 MTR_7g093670 82.927 82 14 0 80 161 1 82 5.95e-43 137
MS.gene52690.t1 MTR_7g093690 62.264 106 25 3 69 161 33 136 6.25e-33 114
MS.gene52690.t1 MTR_3g011210 48.352 91 23 2 72 138 31 121 7.50e-18 75.5
MS.gene52690.t1 MTR_7g093660 63.462 52 18 1 98 149 1 51 1.83e-12 59.7
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 7.2:-15798240 MS.gene52690:CDS
AATAATATCGATGGATCTTT+GGG 0.246908 7.2:-15798239 MS.gene52690:CDS
GAACTGCACGAGATCTTTCT+TGG 0.257265 7.2:-15798469 MS.gene52690:CDS
ACACAATTTGCAACATAAAT+CGG 0.291650 7.2:-15798433 MS.gene52690:CDS
CAAATCAAGGTTGATGTCAT+TGG 0.397831 7.2:+15798127 None:intergenic
GTGCAGTTCTGAAGGTTTCA+TGG 0.407889 7.2:+15798483 None:intergenic
TGCAAATTGTGTATGTGCTT+TGG 0.408651 7.2:+15798444 None:intergenic
CACAATTTGCAACATAAATC+GGG 0.419218 7.2:-15798432 MS.gene52690:CDS
ACAATTGGAACCTCTGGTAT+AGG 0.430649 7.2:+15798284 None:intergenic
TGGCAATGGTTGCATGGAAT+AGG 0.448209 7.2:+15798503 None:intergenic
CGATCAGTACGAGTGACAAT+TGG 0.450600 7.2:+15798269 None:intergenic
TTCTGAAGGTTTCATGGCAA+TGG 0.457643 7.2:+15798489 None:intergenic
TCAGATGATGAGAGCAGTAC+TGG 0.465223 7.2:-15798551 MS.gene52690:CDS
TCAGTTGGAGCTGAATCAAT+CGG 0.471657 7.2:+15798182 None:intergenic
CAACCTAGAGCTTCAAATCA+AGG 0.475468 7.2:+15798114 None:intergenic
CGAGTGACAATTGGAACCTC+TGG 0.493144 7.2:+15798278 None:intergenic
TCTCATCATCTGATTCAGAT+AGG 0.499444 7.2:+15798561 None:intergenic
CTTCCATCCCGCCACACCAC+TGG 0.504811 7.2:+15798152 None:intergenic
TCTGGTATAGGCCTCATGTA+TGG 0.510085 7.2:+15798296 None:intergenic
ACCACTGGTAATTCTTCAGT+TGG 0.510267 7.2:+15798167 None:intergenic
CAACCTTGATTTGAAGCTCT+AGG 0.512638 7.2:-15798117 None:intergenic
TGTGATGAAGGTGGTGGAGA+TGG 0.521845 7.2:+15798371 None:intergenic
TAATTACCGCTTCCATGCAT+AGG 0.528205 7.2:+15798335 None:intergenic
ACTATGTTGTTTCCTATGCA+TGG 0.528781 7.2:-15798347 MS.gene52690:CDS
TTACCAGTGGTGTGGCGGGA+TGG 0.529438 7.2:-15798155 MS.gene52690:CDS
CGTGATTACAATAATATCGA+TGG 0.538614 7.2:-15798248 MS.gene52690:CDS
GTTTCATGGCAATGGTTGCA+TGG 0.544580 7.2:+15798497 None:intergenic
AAGAATTACCAGTGGTGTGG+CGG 0.548905 7.2:-15798160 MS.gene52690:CDS
GCCTCATGTATGGATGAAAA+CGG 0.550640 7.2:+15798306 None:intergenic
AAGATCTCGTGCAGTTCTGA+AGG 0.551614 7.2:+15798475 None:intergenic
TTGTTTCCTATGCATGGAAG+CGG 0.563807 7.2:-15798341 MS.gene52690:CDS
TGGATCTTTGGGGAGAACAA+TGG 0.585871 7.2:-15798228 MS.gene52690:CDS
AACAACATAGTGTGTGATGA+AGG 0.595436 7.2:+15798359 None:intergenic
AGAATTACCAGTGGTGTGGC+GGG 0.597554 7.2:-15798159 MS.gene52690:CDS
GATGAAGGTGGTGGAGATGG+TGG 0.599841 7.2:+15798374 None:intergenic
GTGGAGATGGTGGTCCAATG+TGG 0.619599 7.2:+15798384 None:intergenic
CTAAACAACACACACCACAT+TGG 0.630539 7.2:-15798398 MS.gene52690:CDS
CTGAAGAATTACCAGTGGTG+TGG 0.651724 7.2:-15798163 MS.gene52690:CDS
ATACATGAGGCCTATACCAG+AGG 0.686494 7.2:-15798294 MS.gene52690:CDS
TCCAACTGAAGAATTACCAG+TGG 0.699300 7.2:-15798168 MS.gene52690:CDS
ATAGTGTGTGATGAAGGTGG+TGG 0.699659 7.2:+15798365 None:intergenic
ATAATATCGATGGATCTTTG+GGG 0.708326 7.2:-15798238 MS.gene52690:CDS
AACATAGTGTGTGATGAAGG+TGG 0.727614 7.2:+15798362 None:intergenic
TCATGTATGGATGAAAACGG+CGG 0.744847 7.2:+15798309 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATAATATCGATGGATCTTT+GGG - chr7.2:15798460-15798479 MS.gene52690:CDS 25.0%
! ACACAATTTGCAACATAAAT+CGG - chr7.2:15798266-15798285 MS.gene52690:CDS 25.0%
ATAATATCGATGGATCTTTG+GGG - chr7.2:15798461-15798480 MS.gene52690:CDS 30.0%
CAATAATATCGATGGATCTT+TGG - chr7.2:15798459-15798478 MS.gene52690:CDS 30.0%
CACAATTTGCAACATAAATC+GGG - chr7.2:15798267-15798286 MS.gene52690:CDS 30.0%
CGTGATTACAATAATATCGA+TGG - chr7.2:15798451-15798470 MS.gene52690:CDS 30.0%
AACAACATAGTGTGTGATGA+AGG + chr7.2:15798343-15798362 None:intergenic 35.0%
TCTCATCATCTGATTCAGAT+AGG + chr7.2:15798141-15798160 None:intergenic 35.0%
TGCAAATTGTGTATGTGCTT+TGG + chr7.2:15798258-15798277 None:intergenic 35.0%
!! ACTATGTTGTTTCCTATGCA+TGG - chr7.2:15798352-15798371 MS.gene52690:CDS 35.0%
!! CAAATCAAGGTTGATGTCAT+TGG + chr7.2:15798575-15798594 None:intergenic 35.0%
AACATAGTGTGTGATGAAGG+TGG + chr7.2:15798340-15798359 None:intergenic 40.0%
ACAATTGGAACCTCTGGTAT+AGG + chr7.2:15798418-15798437 None:intergenic 40.0%
ACCACTGGTAATTCTTCAGT+TGG + chr7.2:15798535-15798554 None:intergenic 40.0%
CTAAACAACACACACCACAT+TGG - chr7.2:15798301-15798320 MS.gene52690:CDS 40.0%
GCCTCATGTATGGATGAAAA+CGG + chr7.2:15798396-15798415 None:intergenic 40.0%
TAATTACCGCTTCCATGCAT+AGG + chr7.2:15798367-15798386 None:intergenic 40.0%
TCAGTTGGAGCTGAATCAAT+CGG + chr7.2:15798520-15798539 None:intergenic 40.0%
TCATGTATGGATGAAAACGG+CGG + chr7.2:15798393-15798412 None:intergenic 40.0%
TCCAACTGAAGAATTACCAG+TGG - chr7.2:15798531-15798550 MS.gene52690:CDS 40.0%
TTGTTTCCTATGCATGGAAG+CGG - chr7.2:15798358-15798377 MS.gene52690:CDS 40.0%
! TTCTGAAGGTTTCATGGCAA+TGG + chr7.2:15798213-15798232 None:intergenic 40.0%
AAGAATTACCAGTGGTGTGG+CGG - chr7.2:15798539-15798558 MS.gene52690:CDS 45.0%
ATACATGAGGCCTATACCAG+AGG - chr7.2:15798405-15798424 MS.gene52690:CDS 45.0%
ATAGTGTGTGATGAAGGTGG+TGG + chr7.2:15798337-15798356 None:intergenic 45.0%
CGATCAGTACGAGTGACAAT+TGG + chr7.2:15798433-15798452 None:intergenic 45.0%
CTGAAGAATTACCAGTGGTG+TGG - chr7.2:15798536-15798555 MS.gene52690:CDS 45.0%
GAACTGCACGAGATCTTTCT+TGG - chr7.2:15798230-15798249 MS.gene52690:CDS 45.0%
GTTTCATGGCAATGGTTGCA+TGG + chr7.2:15798205-15798224 None:intergenic 45.0%
TCAGATGATGAGAGCAGTAC+TGG - chr7.2:15798148-15798167 MS.gene52690:CDS 45.0%
TCTGGTATAGGCCTCATGTA+TGG + chr7.2:15798406-15798425 None:intergenic 45.0%
TGGCAATGGTTGCATGGAAT+AGG + chr7.2:15798199-15798218 None:intergenic 45.0%
! AAGATCTCGTGCAGTTCTGA+AGG + chr7.2:15798227-15798246 None:intergenic 45.0%
! TGGATCTTTGGGGAGAACAA+TGG - chr7.2:15798471-15798490 MS.gene52690:CDS 45.0%
!! GCCGTTTTCATCCATACATG+AGG - chr7.2:15798392-15798411 MS.gene52690:CDS 45.0%
!! GTGCAGTTCTGAAGGTTTCA+TGG + chr7.2:15798219-15798238 None:intergenic 45.0%
AGAATTACCAGTGGTGTGGC+GGG - chr7.2:15798540-15798559 MS.gene52690:CDS 50.0%
CGAGTGACAATTGGAACCTC+TGG + chr7.2:15798424-15798443 None:intergenic 50.0%
!! TGTGATGAAGGTGGTGGAGA+TGG + chr7.2:15798331-15798350 None:intergenic 50.0%
! GTGGAGATGGTGGTCCAATG+TGG + chr7.2:15798318-15798337 None:intergenic 55.0%
!! GATGAAGGTGGTGGAGATGG+TGG + chr7.2:15798328-15798347 None:intergenic 55.0%
! TTACCAGTGGTGTGGCGGGA+TGG - chr7.2:15798544-15798563 MS.gene52690:CDS 60.0%
CTTCCATCCCGCCACACCAC+TGG + chr7.2:15798550-15798569 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 15798118 15798603 15798118 ID=MS.gene52690
chr7.2 mRNA 15798118 15798603 15798118 ID=MS.gene52690.t1;Parent=MS.gene52690
chr7.2 exon 15798118 15798603 15798118 ID=MS.gene52690.t1.exon1;Parent=MS.gene52690.t1
chr7.2 CDS 15798118 15798603 15798118 ID=cds.MS.gene52690.t1;Parent=MS.gene52690.t1
Gene Sequence

>MS.gene52690

ATGGAGTCAGATATTGAACTCCTATCTGAATCAGATGATGAGAGCAGTACTGGCAGCAGCATCATTACTAACGTTGCTCCTATTCCATGCAACCATTGCCATGAAACCTTCAGAACTGCACGAGATCTTTCTTGGCACCAAAGCACATACACAATTTGCAACATAAATCGGGCTTTATTGAGACTAAACAACACACACCACATTGGACCACCATCTCCACCACCTTCATCACACACTATGTTGTTTCCTATGCATGGAAGCGGTAATTATAACCGCCGTTTTCATCCATACATGAGGCCTATACCAGAGGTTCCAATTGTCACTCGTACTGATCGTGATTACAATAATATCGATGGATCTTTGGGGAGAACAATGGATCTTATTTCTCTGATCGACAAGCCGATTGATTCAGCTCCAACTGAAGAATTACCAGTGGTGTGGCGGGATGGAAGCACCAATGACATCAACCTTGATTTGAAGCTCTAG
Protein sequence

>MS.gene52690.t1

MESDIELLSESDDESSTGSSIITNVAPIPCNHCHETFRTARDLSWHQSTYTICNINRALLRLNNTHHIGPPSPPPSSHTMLFPMHGSGNYNRRFHPYMRPIPEVPIVTRTDRDYNNIDGSLGRTMDLISLIDKPIDSAPTEELPVVWRDGSTNDINLDLKL