AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene065957

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene065957.t1 MTR_4g039380 84.615 117 17 1 1 116 1 117 1.26e-61 184
MS.gene065957.t1 MTR_4g039340 74.046 131 19 2 1 116 1 131 7.24e-56 170
MS.gene065957.t1 MTR_4g039640 76.068 117 27 1 1 116 1 117 1.23e-45 144
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 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGGTTCAGGCTGGTTATT+TGG 0.175696 4.3:+61076289 None:intergenic
TCTCATTCATCTGGTGTATA+AGG 0.203991 4.3:+61076088 None:intergenic
CTTGATTCTAATATATAATC+TGG 0.305373 4.3:+61076328 None:intergenic
CTCATTCATCTGGTGTATAA+GGG 0.375685 4.3:+61076089 None:intergenic
TCAGGCTGGTTATTTGGTGG+TGG 0.452210 4.3:+61076295 None:intergenic
TTGAGGTCGAAAGCTTGAAC+AGG 0.493044 4.3:+61076115 None:intergenic
GGAGGCTGGTTCAAGTCAAA+TGG 0.506887 4.3:+61076136 None:intergenic
GGTTCAGGCTGGTTATTTGG+TGG 0.509510 4.3:+61076292 None:intergenic
CGAAAGCTTGAACAGGAGGC+TGG 0.520977 4.3:+61076122 None:intergenic
AAGTCAAATGGTTGCACATG+TGG 0.522527 4.3:+61076148 None:intergenic
AATGGTTGCACATGTGGAGG+TGG 0.555990 4.3:+61076154 None:intergenic
ACTGTTAAAGCTTCTCGAGA+TGG 0.587984 4.3:+61076373 None:intergenic
CTGGTGTATAAGGGAGATTG+AGG 0.611261 4.3:+61076098 None:intergenic
AGGTCGAAAGCTTGAACAGG+AGG 0.614849 4.3:+61076118 None:intergenic
ATATTAGAATCAAGTAAACA+AGG 0.665430 4.3:-61076319 MS.gene065957:CDS
TCAAATGGTTGCACATGTGG+AGG 0.671560 4.3:+61076151 None:intergenic
TCAAAGCTAGAATTCTTATG+CGG 0.715209 4.3:-61076415 MS.gene065957:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATTAGAATCAAGTAAACA+AGG - chr4.3:61076189-61076208 MS.gene065957:CDS 20.0%
!! CTTGATTCTAATATATAATC+TGG + chr4.3:61076183-61076202 None:intergenic 20.0%
TCAAAGCTAGAATTCTTATG+CGG - chr4.3:61076093-61076112 MS.gene065957:CDS 30.0%
! TGATGTTCAACATTTTGTGG+TGG + chr4.3:61076258-61076277 None:intergenic 35.0%
! TGTTCAACATTTTGTGGTTG+AGG + chr4.3:61076255-61076274 None:intergenic 35.0%
!! GGTTGATGTTCAACATTTTG+TGG + chr4.3:61076261-61076280 None:intergenic 35.0%
AAGTCAAATGGTTGCACATG+TGG + chr4.3:61076363-61076382 None:intergenic 40.0%
ACTGTTAAAGCTTCTCGAGA+TGG + chr4.3:61076138-61076157 None:intergenic 40.0%
CTGGTGTATAAGGGAGATTG+AGG + chr4.3:61076413-61076432 None:intergenic 45.0%
TCAAATGGTTGCACATGTGG+AGG + chr4.3:61076360-61076379 None:intergenic 45.0%
TTGAGGTCGAAAGCTTGAAC+AGG + chr4.3:61076396-61076415 None:intergenic 45.0%
! TCTGGTTCAGGCTGGTTATT+TGG + chr4.3:61076222-61076241 None:intergenic 45.0%
!! TCAACATTTTGTGGTGGAGC+TGG + chr4.3:61076294-61076313 None:intergenic 45.0%
AATGGTTGCACATGTGGAGG+TGG + chr4.3:61076357-61076376 None:intergenic 50.0%
AGGTCGAAAGCTTGAACAGG+AGG + chr4.3:61076393-61076412 None:intergenic 50.0%
! GGAGGCTGGTTCAAGTCAAA+TGG + chr4.3:61076375-61076394 None:intergenic 50.0%
! GGTTCAGGCTGGTTATTTGG+TGG + chr4.3:61076219-61076238 None:intergenic 50.0%
! GGTTGAGGCTGAGCATTTTC+TGG + chr4.3:61076240-61076259 None:intergenic 50.0%
! TCAGGCTGGTTATTTGGTGG+TGG + chr4.3:61076216-61076235 None:intergenic 50.0%
! TGTGGAGGTGGTGCATTTTG+TGG + chr4.3:61076345-61076364 None:intergenic 50.0%
!! GGTGCATTTTGTGGTGGAGT+TGG + chr4.3:61076336-61076355 None:intergenic 50.0%
!!! GAGCATTTTCTGGTTCAGGC+TGG + chr4.3:61076230-61076249 None:intergenic 50.0%
!!! GGCTGAGCATTTTCTGGTTC+AGG + chr4.3:61076234-61076253 None:intergenic 50.0%
!!! GGTGGAGTTGGTGCATTTTG+TGG + chr4.3:61076324-61076343 None:intergenic 50.0%
CGAAAGCTTGAACAGGAGGC+TGG + chr4.3:61076389-61076408 None:intergenic 55.0%
! GGAGGTGGTGCATTTTGTGG+TGG + chr4.3:61076342-61076361 None:intergenic 55.0%
! GGTGGAGCTGGTGCATTTTG+TGG + chr4.3:61076282-61076301 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 61076090 61076440 61076090 ID=MS.gene065957
chr4.3 mRNA 61076090 61076440 61076090 ID=MS.gene065957.t1;Parent=MS.gene065957
chr4.3 exon 61076090 61076440 61076090 ID=MS.gene065957.t1.exon1;Parent=MS.gene065957.t1
chr4.3 CDS 61076090 61076440 61076090 ID=cds.MS.gene065957.t1;Parent=MS.gene065957.t1
Gene Sequence

>MS.gene065957

ATGTCAAAGCTAGAATTCTTATGCGGTGAATGTGACACAATGTTTCCATCTCGAGAAGCTTTAACAGTGCATGTTATCGAAGAACATCATCCAGATTATATATTAGAATCAAGTAAACAAGGTCCACCACCAAATAACCAGCCTGAACCAGAAAATGCTCAGCCTCAACCACAAAATGTTGAACATCAACCACAAAATGCACCAGCTCCACCACAAAATGTTGAACATCAACCACAAAATGCACCAACTCCACCACAAAATGCACCACCTCCACATGTGCAACCATTTGACTTGAACCAGCCTCCTGTTCAAGCTTTCGACCTCAATCTCCCTTATACACCAGATGAATGA
Protein sequence

>MS.gene065957.t1

MSKLEFLCGECDTMFPSREALTVHVIEEHHPDYILESSKQGPPPNNQPEPENAQPQPQNVEHQPQNAPAPPQNVEHQPQNAPTPPQNAPPPHVQPFDLNQPPVQAFDLNLPYTPDE