AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055202


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055202.t1 MTR_7g063490 93.023 86 6 0 1 86 1 86 1.05e-46 144
MS.gene055202.t1 MTR_4g021330 55.056 89 36 3 1 85 1 89 1.31e-23 85.9
MS.gene055202.t1 MTR_2g104750 50.000 86 38 4 1 81 1 86 3.85e-12 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 20 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGACTTCCAACCGGTGATTC+CGG 0.332515 7.4:-40579182 MS.gene055202:CDS
AATGGAGGGTCTTATACCTT+TGG 0.361131 7.4:-40579291 MS.gene055202:CDS
GCACAAATCATTGTTTCATC+TGG 0.387174 7.4:-40579101 MS.gene055202:CDS
GGTGGTAAAGAAGGTGCTAT+AGG 0.442411 7.4:-40579242 MS.gene055202:CDS
AAGAAGGTGCTATAGGATCA+TGG 0.480205 7.4:-40579235 MS.gene055202:CDS
TTGAAACCGACCGGAATCAC+CGG 0.491223 7.4:+40579172 None:intergenic
CAATACAAAGGTGGTAAAGA+AGG 0.512508 7.4:-40579251 MS.gene055202:CDS
AACATGGTTGGAAGATGAAG+TGG 0.530962 7.4:+40579142 None:intergenic
ATTATTGTCTTGTAAACCAA+AGG 0.536810 7.4:+40579275 None:intergenic
AGAAGGTGCTATAGGATCAT+GGG 0.557929 7.4:-40579234 MS.gene055202:CDS
GGTTTGCATTTGAAACCGAC+CGG 0.571028 7.4:+40579163 None:intergenic
TCATACATGAGACTTCCAAC+CGG 0.604318 7.4:-40579191 MS.gene055202:CDS
TTCCAACCGGTGATTCCGGT+CGG 0.604554 7.4:-40579178 MS.gene055202:CDS
AACCGACCGGAATCACCGGT+TGG 0.622675 7.4:+40579176 None:intergenic
AGTCTCATGTATGAATATGA+AGG 0.623950 7.4:+40579200 None:intergenic
AGTAGAAGAAGAAACATGGT+TGG 0.627898 7.4:+40579130 None:intergenic
CGATGTGTGAGACAATTATG+TGG 0.634825 7.4:+40579068 None:intergenic
ACAATAATTCAATACAAAGG+TGG 0.639646 7.4:-40579260 MS.gene055202:CDS
AAGACAATAATTCAATACAA+AGG 0.658842 7.4:-40579263 MS.gene055202:CDS
TTGCAGTAGAAGAAGAAACA+TGG 0.697263 7.4:+40579126 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGACAATAATTCAATACAA+AGG - chr7.4:40579079-40579098 MS.gene055202:CDS 20.0%
! ACAATAATTCAATACAAAGG+TGG - chr7.4:40579082-40579101 MS.gene055202:CDS 25.0%
! ATTATTGTCTTGTAAACCAA+AGG + chr7.4:40579070-40579089 None:intergenic 25.0%
AGTCTCATGTATGAATATGA+AGG + chr7.4:40579145-40579164 None:intergenic 30.0%
AGTAGAAGAAGAAACATGGT+TGG + chr7.4:40579215-40579234 None:intergenic 35.0%
CAATACAAAGGTGGTAAAGA+AGG - chr7.4:40579091-40579110 MS.gene055202:CDS 35.0%
GCACAAATCATTGTTTCATC+TGG - chr7.4:40579241-40579260 MS.gene055202:CDS 35.0%
TTGCAGTAGAAGAAGAAACA+TGG + chr7.4:40579219-40579238 None:intergenic 35.0%
AACATGGTTGGAAGATGAAG+TGG + chr7.4:40579203-40579222 None:intergenic 40.0%
CGATGTGTGAGACAATTATG+TGG + chr7.4:40579277-40579296 None:intergenic 40.0%
TCATACATGAGACTTCCAAC+CGG - chr7.4:40579151-40579170 MS.gene055202:CDS 40.0%
!! AAGAAGGTGCTATAGGATCA+TGG - chr7.4:40579107-40579126 MS.gene055202:CDS 40.0%
!! AGAAGGTGCTATAGGATCAT+GGG - chr7.4:40579108-40579127 MS.gene055202:CDS 40.0%
! GGTTTGCATTTGAAACCGAC+CGG + chr7.4:40579182-40579201 None:intergenic 45.0%
!! GGTGGTAAAGAAGGTGCTAT+AGG - chr7.4:40579100-40579119 MS.gene055202:CDS 45.0%
AGACTTCCAACCGGTGATTC+CGG - chr7.4:40579160-40579179 MS.gene055202:CDS 50.0%
TTGAAACCGACCGGAATCAC+CGG + chr7.4:40579173-40579192 None:intergenic 50.0%
TTCCAACCGGTGATTCCGGT+CGG - chr7.4:40579164-40579183 MS.gene055202:CDS 55.0%
AACCGACCGGAATCACCGGT+TGG + chr7.4:40579169-40579188 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 40579052 40579312 40579052 ID=MS.gene055202
chr7.4 mRNA 40579052 40579312 40579052 ID=MS.gene055202.t1;Parent=MS.gene055202
chr7.4 exon 40579052 40579312 40579052 ID=MS.gene055202.t1.exon1;Parent=MS.gene055202.t1
chr7.4 CDS 40579052 40579312 40579052 ID=cds.MS.gene055202.t1;Parent=MS.gene055202.t1
Gene Sequence

>MS.gene055202

ATGGAGGGTCTTATACCTTTGGTTTACAAGACAATAATTCAATACAAAGGTGGTAAAGAAGGTGCTATAGGATCATGGGTTTGTGATTCACCTTCATATTCATACATGAGACTTCCAACCGGTGATTCCGGTCGGTTTCAAATGCAAACCACTTCATCTTCCAACCATGTTTCTTCTTCTACTGCAAGTGCACAAATCATTGTTTCATCTGGTGTTCAATCTCCACATAATTGTCTCACACATCGTCGAATTGCTGCATGA

Protein sequence

>MS.gene055202.t1

MEGLIPLVYKTIIQYKGGKEGAIGSWVCDSPSYSYMRLPTGDSGRFQMQTTSSSNHVSSSTASAQIIVSSGVQSPHNCLTHRRIAA