AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene017970

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017970.t1 MTR_5g094680 67.424 132 39 1 1 128 92 223 1.17e-62 191
MS.gene017970.t1 MTR_7g092960 76.636 107 19 1 22 128 1 101 2.35e-56 171
MS.gene017970.t1 MTR_7g093310 67.188 128 26 1 1 128 29 140 5.78e-55 168
MS.gene017970.t1 MTR_1g029860 32.558 129 73 5 1 125 59 177 2.72e-18 76.6
MS.gene017970.t1 MTR_8g085520 35.606 132 76 3 3 125 18 149 3.44e-18 75.9
MS.gene017970.t1 MTR_8g085550 36.364 132 75 3 3 125 18 149 1.97e-17 73.6
MS.gene017970.t1 MTR_5g006240 32.374 139 78 3 3 127 91 227 4.45e-15 68.9
MS.gene017970.t1 MTR_5g037840 39.098 133 46 7 19 124 5 129 4.49e-15 67.0
MS.gene017970.t1 MTR_5g037810 39.098 133 46 8 19 124 5 129 8.19e-15 66.2
MS.gene017970.t1 MTR_8g085530 49.020 51 26 0 73 123 245 295 7.28e-11 58.2
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 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGGAAAATACAGTCTTTA+TGG 0.129460 7.1:-14578623 None:intergenic
TTTAATATGTCAGAAGAAAT+AGG 0.252518 7.1:-14578333 None:intergenic
TGTGAAAGCCGTACTTCTTT+TGG 0.320920 7.1:+14578473 MS.gene017970:CDS
TGGTCGCAAATAACGATAAT+AGG 0.338217 7.1:+14578394 MS.gene017970:CDS
AGATCGATGTTCAATTTGTT+TGG 0.347270 7.1:+14578542 MS.gene017970:CDS
ATGGAAAACATGCAAACATT+TGG 0.365955 7.1:-14578604 None:intergenic
AAACAAATCCTGCCCGAGAT+TGG 0.394328 7.1:+14578354 MS.gene017970:CDS
AATGGTTCAAAAGTTGCTTC+AGG 0.423475 7.1:+14578643 MS.gene017970:CDS
TGTTTGGAAGAGCTCTTCAA+TGG 0.444613 7.1:+14578558 MS.gene017970:CDS
CAAATCATCCAAAAGAAGTA+CGG 0.463193 7.1:-14578481 None:intergenic
CGAAGCTTTCTGTCTATACA+TGG 0.511539 7.1:+14578430 MS.gene017970:CDS
CGCAAATAACGATAATAGGT+GGG 0.562926 7.1:+14578398 MS.gene017970:CDS
TACATGGTATATTGAAGATG+AGG 0.583955 7.1:+14578446 MS.gene017970:CDS
TGGAAAATATGCTAAGGAGA+TGG 0.590448 7.1:+14578374 MS.gene017970:CDS
TCGCAAATAACGATAATAGG+TGG 0.592355 7.1:+14578397 MS.gene017970:CDS
CGAGATTGGAAAATATGCTA+AGG 0.597845 7.1:+14578368 MS.gene017970:CDS
ATCTCATCGCTGCGACACAA+TGG 0.598436 7.1:-14578687 None:intergenic
TATGTCAGAAGAAATAGGCA+TGG 0.623169 7.1:-14578328 None:intergenic
GCGACACAATGGACACGTGA+GGG 0.635994 7.1:-14578676 None:intergenic
TGCGACACAATGGACACGTG+AGG 0.652897 7.1:-14578677 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTAATATGTCAGAAGAAAT+AGG - chr7.1:14578336-14578355 None:intergenic 20.0%
! ATTGGAAAATACAGTCTTTA+TGG - chr7.1:14578626-14578645 None:intergenic 25.0%
!! ATAAAGACTGTATTTTCCAA+TGG + chr7.1:14578625-14578644 MS.gene017970:CDS 25.0%
!! TCTTTTGGATGATTTGAAAA+AGG + chr7.1:14578488-14578507 MS.gene017970:CDS 25.0%
ATGGAAAACATGCAAACATT+TGG - chr7.1:14578607-14578626 None:intergenic 30.0%
CAAATCATCCAAAAGAAGTA+CGG - chr7.1:14578484-14578503 None:intergenic 30.0%
TACATGGTATATTGAAGATG+AGG + chr7.1:14578446-14578465 MS.gene017970:CDS 30.0%
TGATTTGAAAAAGGTTGGAA+TGG + chr7.1:14578497-14578516 MS.gene017970:CDS 30.0%
TTGGATGATTTGAAAAAGGT+TGG + chr7.1:14578492-14578511 MS.gene017970:CDS 30.0%
! AGATCGATGTTCAATTTGTT+TGG + chr7.1:14578542-14578561 MS.gene017970:CDS 30.0%
! CTTAGCATATTTTCCAATCT+CGG - chr7.1:14578370-14578389 None:intergenic 30.0%
! TTAGCATATTTTCCAATCTC+GGG - chr7.1:14578369-14578388 None:intergenic 30.0%
AATGGTTCAAAAGTTGCTTC+AGG + chr7.1:14578643-14578662 MS.gene017970:CDS 35.0%
CGAGATTGGAAAATATGCTA+AGG + chr7.1:14578368-14578387 MS.gene017970:CDS 35.0%
CGCAAATAACGATAATAGGT+GGG + chr7.1:14578398-14578417 MS.gene017970:CDS 35.0%
TCGCAAATAACGATAATAGG+TGG + chr7.1:14578397-14578416 MS.gene017970:CDS 35.0%
TGGAAAATATGCTAAGGAGA+TGG + chr7.1:14578374-14578393 MS.gene017970:CDS 35.0%
TGGTCGCAAATAACGATAAT+AGG + chr7.1:14578394-14578413 MS.gene017970:CDS 35.0%
! TGAAGCAACTTTTGAACCAT+TGG - chr7.1:14578644-14578663 None:intergenic 35.0%
CGAAGCTTTCTGTCTATACA+TGG + chr7.1:14578430-14578449 MS.gene017970:CDS 40.0%
TGTTTGGAAGAGCTCTTCAA+TGG + chr7.1:14578558-14578577 MS.gene017970:CDS 40.0%
! TGTGAAAGCCGTACTTCTTT+TGG + chr7.1:14578473-14578492 MS.gene017970:CDS 40.0%
AAACAAATCCTGCCCGAGAT+TGG + chr7.1:14578354-14578373 MS.gene017970:CDS 45.0%
! CATATTTTCCAATCTCGGGC+AGG - chr7.1:14578365-14578384 None:intergenic 45.0%
ATCTCATCGCTGCGACACAA+TGG - chr7.1:14578690-14578709 None:intergenic 50.0%
GCGACACAATGGACACGTGA+GGG - chr7.1:14578679-14578698 None:intergenic 55.0%
TGCGACACAATGGACACGTG+AGG - chr7.1:14578680-14578699 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 14578330 14578716 14578330 ID=MS.gene017970
chr7.1 mRNA 14578330 14578716 14578330 ID=MS.gene017970.t1;Parent=MS.gene017970
chr7.1 exon 14578330 14578716 14578330 ID=MS.gene017970.t1.exon1;Parent=MS.gene017970.t1
chr7.1 CDS 14578330 14578716 14578330 ID=cds.MS.gene017970.t1;Parent=MS.gene017970.t1
Gene Sequence

>MS.gene017970

ATGCCTATTTCTTCTGACATATTAAAACAAATCCTGCCCGAGATTGGAAAATATGCTAAGGAGATGGTCGCAAATAACGATAATAGGTGGGAGATAAATACGAAGCTTTCTGTCTATACATGGTATATTGAAGATGAGGATGCTGTGAAAGCCGTACTTCTTTTGGATGATTTGAAAAAGGTTGGAATGGATAACTCATCTTGTTACTCTACAGATCGATGTTCAATTTGTTTGGAAGAGCTCTTCAATGGATCAAAGTCTGAATGTGTTATGACCAAATGTTTGCATGTTTTCCATAAAGACTGTATTTTCCAATGGTTCAAAAGTTGCTTCAGGAATGAATCATCCCTCACGTGTCCATTGTGTCGCAGCGATGAGATATTTTAA
Protein sequence

>MS.gene017970.t1

MPISSDILKQILPEIGKYAKEMVANNDNRWEINTKLSVYTWYIEDEDAVKAVLLLDDLKKVGMDNSSCYSTDRCSICLEELFNGSKSECVMTKCLHVFHKDCIFQWFKSCFRNESSLTCPLCRSDEIF