AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680032075.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680032075.01.T01 MTR_6g036570 87.288 118 14 1 1 118 1 117 7.29e-59 177
MsG0680032075.01.T01 MTR_6g036573 95.238 42 2 0 77 118 1 42 8.65e-23 84.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680032075.01.T01 AT2G25720 57.983 119 47 2 1 118 1 117 6.77e-29 101

Find 17 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAGTTGAAGCGAAGAAATT+TGG 0.144441 6:+33197102 MsG0680032075.01.T01:CDS
CCAAATTTCTTCGCTTCAAC+TGG 0.287408 6:-33197102 None:intergenic
AGGGTTTCGTCTTCGATATT+AGG 0.297701 6:-33196982 None:intergenic
CGTCTTCGATATTAGGATTA+GGG 0.305469 6:-33196975 None:intergenic
TCGTCTTCGATATTAGGATT+AGG 0.306582 6:-33196976 None:intergenic
TCGATATTAGGATTAGGGTT+AGG 0.333649 6:-33196970 None:intergenic
CGATATTAGGATTAGGGTTA+GGG 0.368938 6:-33196969 None:intergenic
CAGTTGAAGCGAAGAAATTT+GGG 0.374119 6:+33197103 MsG0680032075.01.T01:CDS
GGCTAGGGTTCCTCCTTTGA+AGG 0.375947 6:-33196893 None:intergenic
CCTAATCGAAGAAGAAGAAA+AGG 0.463408 6:+33197002 MsG0680032075.01.T01:CDS
CCTGCTTTAACGCGTGCGTA+TGG 0.491981 6:-33196862 None:intergenic
GAAAAGGAGAAACTCGTTGA+TGG 0.492593 6:+33197018 MsG0680032075.01.T01:CDS
CCATACGCACGCGTTAAAGC+AGG 0.561975 6:+33196862 MsG0680032075.01.T01:CDS
CGTGCGTATGGATCTGACAT+TGG 0.586152 6:-33196850 None:intergenic
GCAGGTCGCTTATCCTTCAA+AGG 0.586946 6:+33196880 MsG0680032075.01.T01:CDS
GGTCGCTTATCCTTCAAAGG+AGG 0.672974 6:+33196883 MsG0680032075.01.T01:CDS
TGGGTATGAACCGAAAACGA+AGG 0.707448 6:+33197122 MsG0680032075.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CTTCTTTTTCTTTTTGTCGA+TGG - Chr6:33196932-33196951 None:intergenic 30.0%
! CTTTTCTTCTTCTTCGATTA+GGG - Chr6:33197004-33197023 None:intergenic 30.0%
! TTTCTTTTTGTCGATGGTTT+TGG - Chr6:33196926-33196945 None:intergenic 30.0%
CAGTTGAAGCGAAGAAATTT+GGG + Chr6:33197103-33197122 MsG0680032075.01.T01:CDS 35.0%
CCTAATCGAAGAAGAAGAAA+AGG + Chr6:33197002-33197021 MsG0680032075.01.T01:CDS 35.0%
CGATATTAGGATTAGGGTTA+GGG - Chr6:33196972-33196991 None:intergenic 35.0%
CGTCTTCGATATTAGGATTA+GGG - Chr6:33196978-33196997 None:intergenic 35.0%
TCGATATTAGGATTAGGGTT+AGG - Chr6:33196973-33196992 None:intergenic 35.0%
TCGTCTTCGATATTAGGATT+AGG - Chr6:33196979-33196998 None:intergenic 35.0%
! ACAGATTTCACCTTCGTTTT+CGG - Chr6:33197135-33197154 None:intergenic 35.0%
! CCTTTTCTTCTTCTTCGATT+AGG - Chr6:33197005-33197024 None:intergenic 35.0%
AGGGTTTCGTCTTCGATATT+AGG - Chr6:33196985-33197004 None:intergenic 40.0%
CCAAATTTCTTCGCTTCAAC+TGG - Chr6:33197105-33197124 None:intergenic 40.0%
CCAGTTGAAGCGAAGAAATT+TGG + Chr6:33197102-33197121 MsG0680032075.01.T01:CDS 40.0%
GAAAAGGAGAAACTCGTTGA+TGG + Chr6:33197018-33197037 MsG0680032075.01.T01:CDS 40.0%
!!! CTTTTTGTCGATGGTTTTGG+AGG - Chr6:33196923-33196942 None:intergenic 40.0%
TGGGTATGAACCGAAAACGA+AGG + Chr6:33197122-33197141 MsG0680032075.01.T01:CDS 45.0%
GCAGGTCGCTTATCCTTCAA+AGG + Chr6:33196880-33196899 MsG0680032075.01.T01:CDS 50.0%
GGTCGCTTATCCTTCAAAGG+AGG + Chr6:33196883-33196902 MsG0680032075.01.T01:CDS 50.0%
!!! GGTTTTGGAGGTTGTGGCTA+GGG - Chr6:33196911-33196930 None:intergenic 50.0%
!!! GTCGATGGTTTTGGAGGTTG+TGG - Chr6:33196917-33196936 None:intergenic 50.0%
!!! TGGTTTTGGAGGTTGTGGCT+AGG - Chr6:33196912-33196931 None:intergenic 50.0%
CCATACGCACGCGTTAAAGC+AGG + Chr6:33196862-33196881 MsG0680032075.01.T01:CDS 55.0%
CCTGCTTTAACGCGTGCGTA+TGG - Chr6:33196865-33196884 None:intergenic 55.0%
GGCTAGGGTTCCTCCTTTGA+AGG - Chr6:33196896-33196915 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr6 gene 33196853 33197209 33196853 ID=MsG0680032075.01;Name=MsG0680032075.01
Chr6 mRNA 33196853 33197209 33196853 ID=MsG0680032075.01.T01;Parent=MsG0680032075.01;Name=MsG0680032075.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|118
Chr6 exon 33196853 33197209 33196853 ID=MsG0680032075.01.T01:exon:18317;Parent=MsG0680032075.01.T01
Chr6 CDS 33196853 33197209 33196853 ID=MsG0680032075.01.T01:cds;Parent=MsG0680032075.01.T01
Gene Sequence

>MsG0680032075.01.T01

ATGTCAGATCCATACGCACGCGTTAAAGCAGGTCGCTTATCCTTCAAAGGAGGAACCCTAGCCACAACCTCCAAAACCATCGACAAAAAGAAAAAGAAGAAAAAACACAACAAAAACCCTAACCCTAATCCTAATATCGAAGACGAAACCCTAATCGAAGAAGAAGAAAAGGAGAAACTCGTTGATGGTGCAGAATCTTCAGAGTATACTATCGATGCAGCGAAGAAAATGAAGTACGATCAACTTTTTCCAGTTGAAGCGAAGAAATTTGGGTATGAACCGAAAACGAAGGTGAAATCTGTTGAAGATGCGCTTGATGATCGTGTTAAGAAGAAAGCTGATCGTTACTGTAAATAG

Protein sequence

>MsG0680032075.01.T01

MSDPYARVKAGRLSFKGGTLATTSKTIDKKKKKKKHNKNPNPNPNIEDETLIEEEEKEKLVDGAESSEYTIDAAKKMKYDQLFPVEAKKFGYEPKTKVKSVEDALDDRVKKKADRYCK*