AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene053104


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene053104.t1 MTR_6g004100 88.889 135 12 2 1 135 3 134 2.34e-84 243
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene053104.t1 AT5G23440 48.980 147 51 5 11 137 40 182 1.43e-34 119
MS.gene053104.t1 AT5G08410 62.921 89 30 3 47 135 97 182 6.10e-31 109
MS.gene053104.t1 AT5G08410 62.921 89 30 3 47 135 117 202 7.69e-31 109

Find 25 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAAACAGAACGTGACTTTC+TGG 0.206313 6.2:+122442 MS.gene053104:CDS
CTCTGCTAATCTTCCTTATA+AGG 0.228848 6.2:+122482 MS.gene053104:CDS
GCAACAAATTCAACCTTATA+AGG 0.312698 6.2:-122495 None:intergenic
CCAAGATTGGAGCGCGTGTT+AGG 0.324986 6.2:+122346 MS.gene053104:CDS
AAGTCACGTTCTGTTTGATT+TGG 0.360970 6.2:-122437 None:intergenic
CCTAACACGCGCTCCAATCT+TGG 0.382971 6.2:-122346 None:intergenic
GAGATCAACTTCAGGAACTT+TGG 0.391850 6.2:-122400 None:intergenic
TGGAGCGCGTGTTAGGGTTA+AGG 0.393600 6.2:+122353 MS.gene053104:CDS
CACTTCTTCAATTGCAACAT+TGG 0.395451 6.2:+122203 MS.gene053104:CDS
AGATCAACTTCAGGAACTTT+GGG 0.402665 6.2:-122399 None:intergenic
GATTCATCAACAGCCAAGAT+TGG 0.446077 6.2:+122333 MS.gene053104:CDS
CTTCAGGAACTTTGGGAACA+TGG 0.459074 6.2:-122392 None:intergenic
CTACCAGTGAGATCAACTTC+AGG 0.479502 6.2:-122408 None:intergenic
CAAGATTGGAGCGCGTGTTA+GGG 0.489458 6.2:+122347 MS.gene053104:CDS
TTTGTTGCTGATGATATTCA+AGG 0.490454 6.2:+122510 MS.gene053104:CDS
GGAACATGGTAGACTTTGAG+AGG 0.538879 6.2:-122378 None:intergenic
GTTCCTGAAGTTGATCTCAC+TGG 0.542999 6.2:+122405 MS.gene053104:CDS
ACTCAGATAAGATGTGATGT+TGG 0.560643 6.2:+122297 MS.gene053104:CDS
GTTGATCTCACTGGTAGAGA+AGG 0.573181 6.2:+122414 MS.gene053104:CDS
AGATGAGCAACAAACTTGAG+AGG 0.590824 6.2:-122543 None:intergenic
TTCTTCGTATTCATAAACAA+AGG 0.597181 6.2:-122237 None:intergenic
CAATGTTGCAATTGAAGAAG+TGG 0.598656 6.2:-122202 None:intergenic
GTATTCATAAACAAAGGTAA+CGG 0.650137 6.2:-122231 None:intergenic
GATGATATTCAAGGTCCTCG+TGG 0.683280 6.2:+122519 MS.gene053104:CDS
ACAAACTTGAGAGGACCACG+AGG 0.762532 6.2:-122534 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GTATTCATAAACAAAGGTAA+CGG - chr6.2:122234-122253 None:intergenic 25.0%
! TTCTTCGTATTCATAAACAA+AGG - chr6.2:122240-122259 None:intergenic 25.0%
GCAACAAATTCAACCTTATA+AGG - chr6.2:122498-122517 None:intergenic 30.0%
TTTGTTGCTGATGATATTCA+AGG + chr6.2:122510-122529 MS.gene053104:CDS 30.0%
AAGTCACGTTCTGTTTGATT+TGG - chr6.2:122440-122459 None:intergenic 35.0%
ACTCAGATAAGATGTGATGT+TGG + chr6.2:122297-122316 MS.gene053104:CDS 35.0%
AGATCAACTTCAGGAACTTT+GGG - chr6.2:122402-122421 None:intergenic 35.0%
CAATGTTGCAATTGAAGAAG+TGG - chr6.2:122205-122224 None:intergenic 35.0%
CACTTCTTCAATTGCAACAT+TGG + chr6.2:122203-122222 MS.gene053104:CDS 35.0%
CTCTGCTAATCTTCCTTATA+AGG + chr6.2:122482-122501 MS.gene053104:CDS 35.0%
AGATGAGCAACAAACTTGAG+AGG - chr6.2:122546-122565 None:intergenic 40.0%
GAGATCAACTTCAGGAACTT+TGG - chr6.2:122403-122422 None:intergenic 40.0%
GATTCATCAACAGCCAAGAT+TGG + chr6.2:122333-122352 MS.gene053104:CDS 40.0%
TCAAACAGAACGTGACTTTC+TGG + chr6.2:122442-122461 MS.gene053104:CDS 40.0%
CTACCAGTGAGATCAACTTC+AGG - chr6.2:122411-122430 None:intergenic 45.0%
GATGATATTCAAGGTCCTCG+TGG + chr6.2:122519-122538 MS.gene053104:CDS 45.0%
GGAACATGGTAGACTTTGAG+AGG - chr6.2:122381-122400 None:intergenic 45.0%
GTTGATCTCACTGGTAGAGA+AGG + chr6.2:122414-122433 MS.gene053104:CDS 45.0%
! CTTCAGGAACTTTGGGAACA+TGG - chr6.2:122395-122414 None:intergenic 45.0%
! GTTCCTGAAGTTGATCTCAC+TGG + chr6.2:122405-122424 MS.gene053104:CDS 45.0%
ACAAACTTGAGAGGACCACG+AGG - chr6.2:122537-122556 None:intergenic 50.0%
CAAGATTGGAGCGCGTGTTA+GGG + chr6.2:122347-122366 MS.gene053104:CDS 50.0%
CCAAGATTGGAGCGCGTGTT+AGG + chr6.2:122346-122365 MS.gene053104:CDS 55.0%
CCTAACACGCGCTCCAATCT+TGG - chr6.2:122349-122368 None:intergenic 55.0%
TGGAGCGCGTGTTAGGGTTA+AGG + chr6.2:122353-122372 MS.gene053104:CDS 55.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 122186 122599 122186 ID=MS.gene053104
chr6.2 mRNA 122186 122599 122186 ID=MS.gene053104.t1;Parent=MS.gene053104
chr6.2 exon 122186 122599 122186 ID=MS.gene053104.t1.exon1;Parent=MS.gene053104.t1
chr6.2 CDS 122186 122599 122186 ID=cds.MS.gene053104.t1;Parent=MS.gene053104.t1
Gene Sequence

>MS.gene053104

ATGAACATGACTAGCACCACTTCTTCAATTGCAACATTGGTGACTCCGTTACCTTTGTTTATGAATACGAAGAAGAAGAAGATGATGATTCAGAGAAGCATAAGAATGACGACTCAGATAAGATGTGATGTTGGAGAAGAAGAACAAGATTCATCAACAGCCAAGATTGGAGCGCGTGTTAGGGTTAAGGTTCCTCTCAAAGTCTACCATGTTCCCAAAGTTCCTGAAGTTGATCTCACTGGTAGAGAAGGCCAAATCAAACAGAACGTGACTTTCTGGAAAGATAATAAGCGAATCTCTGCTAATCTTCCTTATAAGGTTGAATTTGTTGCTGATGATATTCAAGGTCCTCGTGGTCCTCTCAAGTTTGTTGCTCATCTCAAAGATGATGAATTCGAATTTCTCTCTCAGTAA

Protein sequence

>MS.gene053104.t1

MNMTSTTSSIATLVTPLPLFMNTKKKKMMIQRSIRMTTQIRCDVGEEEQDSSTAKIGARVRVKVPLKVYHVPKVPEVDLTGREGQIKQNVTFWKDNKRISANLPYKVEFVADDIQGPRGPLKFVAHLKDDEFEFLSQ