AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene069798

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069798.t1 MTR_6g068850 98.182 110 2 0 1 110 1 110 9.56e-78 224
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069798.t1 AT5G51960 59.091 110 38 1 1 110 1 103 9.51e-42 133
MS.gene069798.t1 AT5G51960 59.091 110 38 1 1 110 1 103 9.51e-42 133

Find 21 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATTATACTTACATGCTTAA+TGG 0.209140 6.2:+72149383 MS.gene069798:CDS
AAGGCGGTCAAGAAACATAT+TGG 0.364646 6.2:+72149251 MS.gene069798:CDS
GGCGATAGATGTTAACAGTT+TGG 0.372669 6.2:-72149220 None:intergenic
TCTTGACCGCCTTGAGAAGA+TGG 0.432707 6.2:-72149241 None:intergenic
CCTCAGAGTTCCACAAGAAT+CGG 0.468221 6.2:+72149312 MS.gene069798:CDS
AGGCGGTCAAGAAACATATT+GGG 0.477390 6.2:+72149252 MS.gene069798:CDS
ATAGATGTTAACAGTTTGGA+AGG 0.532971 6.2:-72149216 None:intergenic
CATTATGATTGATAAACCTC+GGG 0.535278 6.2:-72149895 None:intergenic
GGAAAATCTGCTGCAAGTGT+TGG 0.560044 6.2:+72149862 MS.gene069798:CDS
CAGACAGATTCCGATTCTTG+TGG 0.562091 6.2:-72149322 None:intergenic
TCATTATGATTGATAAACCT+CGG 0.563220 6.2:-72149896 None:intergenic
CATCTATCGCCATCTTCTCA+AGG 0.575149 6.2:+72149232 MS.gene069798:CDS
AATGAAGTGAAAAGAACACT+TGG 0.586563 6.2:+72149841 MS.gene069798:CDS
TCGGAATCTGTCTGATGGTG+TGG 0.587780 6.2:+72149331 MS.gene069798:CDS
CCGATTCTTGTGGAACTCTG+AGG 0.596469 6.2:-72149312 None:intergenic
AACAAAGCAATACCTTGTGA+TGG 0.597418 6.2:-72149412 None:intergenic
AAGAATCGGAATCTGTCTGA+TGG 0.612539 6.2:+72149326 MS.gene069798:CDS
TAATGGTGTGCACCATCACA+AGG 0.617495 6.2:+72149400 MS.gene069798:CDS
GATAAACCTCGGGAAGCTGA+AGG 0.641065 6.2:-72149885 None:intergenic
TGTTGGCCTTCAGCTTCCCG+AGG 0.654165 6.2:+72149879 MS.gene069798:CDS
CTATCGCCATCTTCTCAAGG+CGG 0.739647 6.2:+72149235 MS.gene069798:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATTAGCAAAACAAAATG+TGG - chr6.2:72149750-72149769 None:intergenic 20.0%
! AGATTAATGACAATGATTCA+TGG - chr6.2:72149777-72149796 None:intergenic 25.0%
! AGTTTATCTCATTAATGTAC+AGG - chr6.2:72149480-72149499 None:intergenic 25.0%
! GATTATACTTACATGCTTAA+TGG + chr6.2:72149383-72149402 MS.gene069798:CDS 25.0%
AATACAAGTGACTGTTTGAA+GGG - chr6.2:72149451-72149470 None:intergenic 30.0%
AATGAAGTGAAAAGAACACT+TGG + chr6.2:72149841-72149860 MS.gene069798:CDS 30.0%
ATAGATGTTAACAGTTTGGA+AGG - chr6.2:72149219-72149238 None:intergenic 30.0%
ATCATTGTCATTAATCTTGC+AGG + chr6.2:72149780-72149799 MS.gene069798:intron 30.0%
TAAGACAATCTTCAGAGTAT+TGG - chr6.2:72149652-72149671 None:intergenic 30.0%
TGTTGCGAAATAAAAGTAAG+AGG + chr6.2:72149556-72149575 MS.gene069798:intron 30.0%
AACAAAGCAATACCTTGTGA+TGG - chr6.2:72149415-72149434 None:intergenic 35.0%
CAATACAAGTGACTGTTTGA+AGG - chr6.2:72149452-72149471 None:intergenic 35.0%
CTGTAGCGTAAATCATTACT+AGG + chr6.2:72149717-72149736 MS.gene069798:intron 35.0%
! AAAAGTAAGAGGTGTAGAAG+TGG + chr6.2:72149567-72149586 MS.gene069798:intron 35.0%
! CTCTGAAGATTGTCTTACAA+TGG + chr6.2:72149655-72149674 MS.gene069798:intron 35.0%
!!! GAGCAAGCTTTATTTTCTGT+TGG - chr6.2:72149361-72149380 None:intergenic 35.0%
AAGAATCGGAATCTGTCTGA+TGG + chr6.2:72149326-72149345 MS.gene069798:CDS 40.0%
AAGGCGGTCAAGAAACATAT+TGG + chr6.2:72149251-72149270 MS.gene069798:CDS 40.0%
AGGCGGTCAAGAAACATATT+GGG + chr6.2:72149252-72149271 MS.gene069798:CDS 40.0%
GGCGATAGATGTTAACAGTT+TGG - chr6.2:72149223-72149242 None:intergenic 40.0%
!! CAATCTTCAGAGTATTGGCT+TGG - chr6.2:72149647-72149666 None:intergenic 40.0%
CAGACAGATTCCGATTCTTG+TGG - chr6.2:72149325-72149344 None:intergenic 45.0%
CATCTATCGCCATCTTCTCA+AGG + chr6.2:72149232-72149251 MS.gene069798:CDS 45.0%
CCTCAGAGTTCCACAAGAAT+CGG + chr6.2:72149312-72149331 MS.gene069798:CDS 45.0%
GCAATTCAGCATAGCCAAGT+TGG + chr6.2:72149619-72149638 MS.gene069798:intron 45.0%
GGAAAATCTGCTGCAAGTGT+TGG + chr6.2:72149862-72149881 MS.gene069798:CDS 45.0%
TAATGGTGTGCACCATCACA+AGG + chr6.2:72149400-72149419 MS.gene069798:CDS 45.0%
!! GTATTGGCTTGGATCCAACT+TGG - chr6.2:72149636-72149655 None:intergenic 45.0%
CCGATTCTTGTGGAACTCTG+AGG - chr6.2:72149315-72149334 None:intergenic 50.0%
CTATCGCCATCTTCTCAAGG+CGG + chr6.2:72149235-72149254 MS.gene069798:CDS 50.0%
GATAAACCTCGGGAAGCTGA+AGG - chr6.2:72149888-72149907 None:intergenic 50.0%
TCTTGACCGCCTTGAGAAGA+TGG - chr6.2:72149244-72149263 None:intergenic 50.0%
! TCGGAATCTGTCTGATGGTG+TGG + chr6.2:72149331-72149350 MS.gene069798:CDS 50.0%
!! TGTTGGCCTTCAGCTTCCCG+AGG + chr6.2:72149879-72149898 MS.gene069798:CDS 60.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 72149203 72149915 72149203 ID=MS.gene069798
chr6.2 mRNA 72149203 72149915 72149203 ID=MS.gene069798.t1;Parent=MS.gene069798
chr6.2 exon 72149203 72149421 72149203 ID=MS.gene069798.t1.exon1;Parent=MS.gene069798.t1
chr6.2 CDS 72149203 72149421 72149203 ID=cds.MS.gene069798.t1;Parent=MS.gene069798.t1
chr6.2 exon 72149802 72149915 72149802 ID=MS.gene069798.t1.exon2;Parent=MS.gene069798.t1
chr6.2 CDS 72149802 72149915 72149802 ID=cds.MS.gene069798.t1;Parent=MS.gene069798.t1
Gene Sequence

>MS.gene069798

ATGAGAACTGAAGCCTTCCAAACTGTTAACATCTATCGCCATCTTCTCAAGGCGGTCAAGAAACATATTGGGAAAGACGAGAACAAGAAACATTTTTTAGAATTTGTAACCTCAGAGTTCCACAAGAATCGGAATCTGTCTGATGGTGTGGCTGTCCAACAGAAAATAAAGCTTGCTCGTGATTATACTTACATGCTTAATGGTGTGCACCATCACAAGGTATTGCTTTGTTTTTATTGTATTTTCCCTTCAAACAGTCACTTGTATTGTTAAGCCTGTACATTAATGAGATAAACTCATTCAATTGAACACTTAATGAGATATCAGCAGCTTTAGTTGTGTGTGTGTGTGTATGTTGCGAAATAAAAGTAAGAGGTGTAGAAGTGGATGTGATGCAATTATTTTGCTAGTGATGAGCAATTCAGCATAGCCAAGTTGGATCCAAGCCAATACTCTGAAGATTGTCTTACAATGGATATCAATCATATCATTATTGTTTTGACTCATTGTATGTCTGTAGCGTAAATCATTACTAGGACAAAAACCACATTTTGTTTTGCTAATTTTCTGACCATGAATCATTGTCATTAATCTTGCAGGATTTGCTTTTCTCATATAACATTGCAATTGATAGATCAAATGAAGTGAAAAGAACACTTGGAAAATCTGCTGCAAGTGTTGGCCTTCAGCTTCCCGAGGTTTATCAATCATAA
Protein sequence

>MS.gene069798.t1

MRTEAFQTVNIYRHLLKAVKKHIGKDENKKHFLEFVTSEFHKNRNLSDGVAVQQKIKLARDYTYMLNGVHHHKDLLFSYNIAIDRSNEVKRTLGKSAASVGLQLPEVYQS