AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene68270

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene68270.t1 MTR_4g039380 83.761 117 18 1 1 116 1 117 1.64e-61 184
MS.gene68270.t1 MTR_4g039340 74.809 131 18 2 1 116 1 131 8.09e-57 172
MS.gene68270.t1 MTR_4g039640 77.778 117 25 1 1 116 1 117 4.28e-48 150
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 17 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGGTTCGGGCTGGTTATT+TGG 0.202950 4.3:+61431158 None:intergenic
TCTCATTCATCTGGTGTATA+AGG 0.203991 4.3:+61430957 None:intergenic
ACTCGATTCTAATATAAAAT+CGG 0.323743 4.3:+61431196 None:intergenic
CTCATTCATCTGGTGTATAA+GGG 0.375685 4.3:+61430958 None:intergenic
CTCGATTCTAATATAAAATC+GGG 0.421980 4.3:+61431197 None:intergenic
GGAGGTTGGTTCAAGTCAAA+TGG 0.461699 4.3:+61431005 None:intergenic
TTGAGGTCGAAAGCTCGAAC+AGG 0.496472 4.3:+61430984 None:intergenic
TCGGGCTGGTTATTTGGTGG+TGG 0.505201 4.3:+61431164 None:intergenic
AAGTCAAATGGTTGCACATG+TGG 0.522527 4.3:+61431017 None:intergenic
AATGGTTGCACATGTGGAGG+TGG 0.555990 4.3:+61431023 None:intergenic
GGTTCGGGCTGGTTATTTGG+TGG 0.558588 4.3:+61431161 None:intergenic
CGAAAGCTCGAACAGGAGGT+TGG 0.564077 4.3:+61430991 None:intergenic
CTGGTGTATAAGGGAGATTG+AGG 0.611261 4.3:+61430967 None:intergenic
ACTGCTAAAGCTTCACGAGA+TGG 0.614779 4.3:+61431242 None:intergenic
ATATTAGAATCGAGTAAACA+AGG 0.624706 4.3:-61431188 MS.gene68270:CDS
AGGTCGAAAGCTCGAACAGG+AGG 0.636300 4.3:+61430987 None:intergenic
TCAAATGGTTGCACATGTGG+AGG 0.671560 4.3:+61431020 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACTCGATTCTAATATAAAAT+CGG + chr4.3:61431053-61431072 None:intergenic 20.0%
! ATATTAGAATCGAGTAAACA+AGG - chr4.3:61431058-61431077 MS.gene68270:CDS 25.0%
! CTCGATTCTAATATAAAATC+GGG + chr4.3:61431052-61431071 None:intergenic 25.0%
! TGTTCAACATTTTGTGGTTG+AGG + chr4.3:61431124-61431143 None:intergenic 35.0%
! TGTTGTTCAACATTTTGTGG+TGG + chr4.3:61431169-61431188 None:intergenic 35.0%
!! GGTTGATGTTCAACATTTTG+TGG + chr4.3:61431130-61431149 None:intergenic 35.0%
!! GGTTGTTGTTCAACATTTTG+TGG + chr4.3:61431172-61431191 None:intergenic 35.0%
AAGTCAAATGGTTGCACATG+TGG + chr4.3:61431232-61431251 None:intergenic 40.0%
ACTGCTAAAGCTTCACGAGA+TGG + chr4.3:61431007-61431026 None:intergenic 45.0%
CTGGTGTATAAGGGAGATTG+AGG + chr4.3:61431282-61431301 None:intergenic 45.0%
TCAAATGGTTGCACATGTGG+AGG + chr4.3:61431229-61431248 None:intergenic 45.0%
! GGAGGTTGGTTCAAGTCAAA+TGG + chr4.3:61431244-61431263 None:intergenic 45.0%
!!! AGGCTGAGCATTTTCTGGTT+CGG + chr4.3:61431104-61431123 None:intergenic 45.0%
AATGGTTGCACATGTGGAGG+TGG + chr4.3:61431226-61431245 None:intergenic 50.0%
TTGAGGTCGAAAGCTCGAAC+AGG + chr4.3:61431265-61431284 None:intergenic 50.0%
! GGTGGAGCTAGTGCATTTTG+TGG + chr4.3:61431151-61431170 None:intergenic 50.0%
! GGTTGAGGCTGAGCATTTTC+TGG + chr4.3:61431109-61431128 None:intergenic 50.0%
! TGTGGAGGTGGTGCATTTTG+TGG + chr4.3:61431214-61431233 None:intergenic 50.0%
!! TCTGGTTCGGGCTGGTTATT+TGG + chr4.3:61431091-61431110 None:intergenic 50.0%
!!! GGCTGAGCATTTTCTGGTTC+GGG + chr4.3:61431103-61431122 None:intergenic 50.0%
AGGTCGAAAGCTCGAACAGG+AGG + chr4.3:61431262-61431281 None:intergenic 55.0%
CGAAAGCTCGAACAGGAGGT+TGG + chr4.3:61431258-61431277 None:intergenic 55.0%
! GGAGGTGGTGCATTTTGTGG+TGG + chr4.3:61431211-61431230 None:intergenic 55.0%
! GGTGGAGCTGGTGCATTTTG+TGG + chr4.3:61431193-61431212 None:intergenic 55.0%
!! GGTGCATTTTGTGGTGGAGC+TGG + chr4.3:61431205-61431224 None:intergenic 55.0%
!! GGTTCGGGCTGGTTATTTGG+TGG + chr4.3:61431088-61431107 None:intergenic 55.0%
!! TCGGGCTGGTTATTTGGTGG+TGG + chr4.3:61431085-61431104 None:intergenic 55.0%
!!! GAGCATTTTCTGGTTCGGGC+TGG + chr4.3:61431099-61431118 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 61430959 61431309 61430959 ID=MS.gene68270
chr4.3 mRNA 61430959 61431309 61430959 ID=MS.gene68270.t1;Parent=MS.gene68270
chr4.3 exon 61430959 61431309 61430959 ID=MS.gene68270.t1.exon1;Parent=MS.gene68270.t1
chr4.3 CDS 61430959 61431309 61430959 ID=cds.MS.gene68270.t1;Parent=MS.gene68270.t1
Gene Sequence

>MS.gene68270

ATGTCAAAGCTAGAATTCTTATGCAGTGAATGTGACACAATGTTTCCATCTCGTGAAGCTTTAGCAGTGCATGTTATCGAAGAACATCATCCCGATTTTATATTAGAATCGAGTAAACAAGGTCCACCACCAAATAACCAGCCCGAACCAGAAAATGCTCAGCCTCAACCACAAAATGTTGAACATCAACCACAAAATGCACTAGCTCCACCACAAAATGTTGAACAACAACCACAAAATGCACCAGCTCCACCACAAAATGCACCACCTCCACATGTGCAACCATTTGACTTGAACCAACCTCCTGTTCGAGCTTTCGACCTCAATCTCCCTTATACACCAGATGAATGA
Protein sequence

>MS.gene68270.t1

MSKLEFLCSECDTMFPSREALAVHVIEEHHPDFILESSKQGPPPNNQPEPENAQPQPQNVEHQPQNALAPPQNVEQQPQNAPAPPQNAPPPHVQPFDLNQPPVRAFDLNLPYTPDE