AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene017995

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017995.t1 MTR_5g094680 63.905 169 46 3 2 155 55 223 1.11e-69 210
MS.gene017995.t1 MTR_7g093310 66.447 152 39 1 4 155 1 140 1.26e-66 199
MS.gene017995.t1 MTR_7g092960 72.897 107 19 3 53 155 1 101 4.12e-48 151
MS.gene017995.t1 MTR_1g029860 34.839 155 88 4 8 152 26 177 1.79e-21 85.9
MS.gene017995.t1 MTR_5g006240 33.908 174 89 5 3 154 58 227 2.43e-21 86.7
MS.gene017995.t1 MTR_8g085550 35.417 144 78 6 22 152 8 149 6.45e-15 68.2
MS.gene017995.t1 MTR_8g085520 33.099 142 80 4 24 152 10 149 6.53e-15 68.2
MS.gene017995.t1 MTR_1g029910 31.818 154 88 5 8 151 46 192 3.37e-13 64.3
MS.gene017995.t1 MTR_5g037840 52.830 53 23 1 98 150 78 128 3.36e-12 60.5
MS.gene017995.t1 MTR_5g037810 35.714 126 54 6 50 150 5 128 7.34e-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 21 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGATCAATGTTCAATTTGTT+TGG 0.342532 7.4:-15555103 MS.gene017995:CDS
TGCTGTGGATGAGTTGAAAA+AGG 0.343485 7.4:-15555157 MS.gene017995:CDS
AAGAGATGGTCGCAAATAAT+AGG 0.352634 7.4:-15555245 MS.gene017995:CDS
AAACAAATCCTGCCCGAGAT+TGG 0.394328 7.4:-15555279 MS.gene017995:CDS
TGTTTGGAAGAGCTCTTCAA+TGG 0.444613 7.4:-15555087 MS.gene017995:CDS
TTTAATATGTCAGGGGAAAG+AGG 0.486682 7.4:+15555300 None:intergenic
CAACTCATCCACAGCAAGTA+CGG 0.500849 7.4:+15555164 None:intergenic
ATAAAGACTGTATGTTCCAA+TGG 0.507185 7.4:-15555020 MS.gene017995:CDS
TGTCTATACTATTGAAGATG+AGG 0.535871 7.4:-15555199 MS.gene017995:CDS
AGTGTAATGTAAGAACGTGT+TGG 0.569826 7.4:+15555335 None:intergenic
CAAGAGGGATGATTGATGAC+TGG 0.577086 7.4:+15554984 None:intergenic
TGGAAAATATGCTAAAGAGA+TGG 0.588569 7.4:-15555259 MS.gene017995:CDS
ATCTCATCATTGCGACACAA+TGG 0.592800 7.4:+15554958 None:intergenic
AGATGGTCGCAAATAATAGG+TGG 0.604832 7.4:-15555242 MS.gene017995:CDS
CAATTAGATAAGATGTCACA+AGG 0.627221 7.4:+15555366 None:intergenic
GCGACACAATGGACACAAGA+GGG 0.627582 7.4:+15554969 None:intergenic
GATGGTCGCAAATAATAGGT+GGG 0.637132 7.4:-15555241 MS.gene017995:CDS
TGCGACACAATGGACACAAG+AGG 0.641637 7.4:+15554968 None:intergenic
TGTGAAAGCCGTACTTGCTG+TGG 0.642419 7.4:-15555172 MS.gene017995:CDS
TATGTCAGGGGAAAGAGGCA+CGG 0.651738 7.4:+15555305 None:intergenic
GTCAGGGGAAAGAGGCACGG+AGG 0.717185 7.4:+15555308 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAAAAAAGATTCGATTCA+TGG + chr7.4:15554961-15554980 None:intergenic 20.0%
!! AGATCAATGTTCAATTTGTT+TGG - chr7.4:15555244-15555263 MS.gene017995:CDS 25.0%
!! TTTAGCATATTTTCCAATCT+CGG + chr7.4:15555084-15555103 None:intergenic 25.0%
!!! AGGATTTGTTTTAATATGTC+AGG + chr7.4:15555059-15555078 None:intergenic 25.0%
!!! GATTTGTTTTAATATGTCAG+GGG + chr7.4:15555057-15555076 None:intergenic 25.0%
!!! GGATTTGTTTTAATATGTCA+GGG + chr7.4:15555058-15555077 None:intergenic 25.0%
AAAAAAGATTCGATTCATGG+TGG + chr7.4:15554958-15554977 None:intergenic 30.0%
ATAAAGACTGTATGTTCCAA+TGG - chr7.4:15555327-15555346 MS.gene017995:CDS 30.0%
CAATTAGATAAGATGTCACA+AGG + chr7.4:15554984-15555003 None:intergenic 30.0%
TGGAAAATATGCTAAAGAGA+TGG - chr7.4:15555088-15555107 MS.gene017995:CDS 30.0%
TGTCTATACTATTGAAGATG+AGG - chr7.4:15555148-15555167 MS.gene017995:CDS 30.0%
! TTAGCATATTTTCCAATCTC+GGG + chr7.4:15555083-15555102 None:intergenic 30.0%
AAGAGATGGTCGCAAATAAT+AGG - chr7.4:15555102-15555121 MS.gene017995:CDS 35.0%
AGTGTAATGTAAGAACGTGT+TGG + chr7.4:15555015-15555034 None:intergenic 35.0%
TTTAATATGTCAGGGGAAAG+AGG + chr7.4:15555050-15555069 None:intergenic 35.0%
! TGAGTTGAAAAAGGTTGGAA+TGG - chr7.4:15555199-15555218 MS.gene017995:CDS 35.0%
AGATGGTCGCAAATAATAGG+TGG - chr7.4:15555105-15555124 MS.gene017995:CDS 40.0%
ATCTCATCATTGCGACACAA+TGG + chr7.4:15555392-15555411 None:intergenic 40.0%
GATGGTCGCAAATAATAGGT+GGG - chr7.4:15555106-15555125 MS.gene017995:CDS 40.0%
TGTTTGGAAGAGCTCTTCAA+TGG - chr7.4:15555260-15555279 MS.gene017995:CDS 40.0%
! GTGGATGAGTTGAAAAAGGT+TGG - chr7.4:15555194-15555213 MS.gene017995:CDS 40.0%
! TGCTGTGGATGAGTTGAAAA+AGG - chr7.4:15555190-15555209 MS.gene017995:CDS 40.0%
AAACAAATCCTGCCCGAGAT+TGG - chr7.4:15555068-15555087 MS.gene017995:CDS 45.0%
CAACTCATCCACAGCAAGTA+CGG + chr7.4:15555186-15555205 None:intergenic 45.0%
! CAAGAGGGATGATTGATGAC+TGG + chr7.4:15555366-15555385 None:intergenic 45.0%
! CATATTTTCCAATCTCGGGC+AGG + chr7.4:15555079-15555098 None:intergenic 45.0%
!! TGGAGCATCTTTTGAGCCAT+TGG + chr7.4:15555346-15555365 None:intergenic 45.0%
GCGACACAATGGACACAAGA+GGG + chr7.4:15555381-15555400 None:intergenic 50.0%
TATGTCAGGGGAAAGAGGCA+CGG + chr7.4:15555045-15555064 None:intergenic 50.0%
TGCGACACAATGGACACAAG+AGG + chr7.4:15555382-15555401 None:intergenic 50.0%
! TGTGAAAGCCGTACTTGCTG+TGG - chr7.4:15555175-15555194 MS.gene017995:CDS 50.0%
! GTCAGGGGAAAGAGGCACGG+AGG + chr7.4:15555042-15555061 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 15554951 15555418 15554951 ID=MS.gene017995
chr7.4 mRNA 15554951 15555418 15554951 ID=MS.gene017995.t1;Parent=MS.gene017995
chr7.4 exon 15554951 15555418 15554951 ID=MS.gene017995.t1.exon1;Parent=MS.gene017995.t1
chr7.4 CDS 15554951 15555418 15554951 ID=cds.MS.gene017995.t1;Parent=MS.gene017995.t1
Gene Sequence

>MS.gene017995

ATGACCACCATGAATCGAATCTTTTTTATTCCTTGTGACATCTTATCTAATTGCGATGATGCCAACACGTTCTTACATTACACTTTTTCCTCCGTGCCTCTTTCCCCTGACATATTAAAACAAATCCTGCCCGAGATTGGAAAATATGCTAAAGAGATGGTCGCAAATAATAGGTGGGAGATAGATGTGACACTTTCTGTCTATACTATTGAAGATGAGGATGCTGTGAAAGCCGTACTTGCTGTGGATGAGTTGAAAAAGGTTGGAATGGATCACTCATCTTGTTACTCATCAGATCAATGTTCAATTTGTTTGGAAGAGCTCTTCAATGGATCAAAGTCTGAATGTGTTATGACTGAATGTTTGCATGTTTTTCATAAAGACTGTATGTTCCAATGGCTCAAAAGATGCTCCAGTCATCAATCATCCCTCTTGTGTCCATTGTGTCGCAATGATGAGATATTTTAA
Protein sequence

>MS.gene017995.t1

MTTMNRIFFIPCDILSNCDDANTFLHYTFSSVPLSPDILKQILPEIGKYAKEMVANNRWEIDVTLSVYTIEDEDAVKAVLAVDELKKVGMDHSSCYSSDQCSICLEELFNGSKSECVMTECLHVFHKDCMFQWLKRCSSHQSSLLCPLCRNDEIF