AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055712


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055712.t1 MTR_7g088520 92.982 114 8 0 12 125 28 141 8.73e-70 206
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 31 sgRNAs with CRISPR-Local

Find 89 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTCTTCAATTTCTTCATCT+TGG 0.341918 7.4:-19944926 None:intergenic
TTCTGTAGATAAGCTTCCTT+TGG 0.349663 7.4:+19944780 MS.gene055712:CDS
TGAGAATGTGGTTGTGGTTG+TGG 0.368327 7.4:+19943726 None:intergenic
AGTTGAGAAAGAAGGGTAAT+TGG 0.374960 7.4:+19944896 MS.gene055712:CDS
TTCAGACCCATCTGCAACAT+TGG 0.400037 7.4:-19944728 None:intergenic
AAGAGGAAGTTGAGAAAGAA+GGG 0.409426 7.4:+19944889 MS.gene055712:CDS
TTCAATTTCTTCATCTTGGA+AGG 0.432102 7.4:-19944922 None:intergenic
TCCTTTGGAATCAAAATTGA+AGG 0.438799 7.4:+19944795 MS.gene055712:CDS
AAAGAGGAAGTTGAGAAAGA+AGG 0.445671 7.4:+19944888 MS.gene055712:CDS
AAGTCCCTTCAATGAGTTTG+TGG 0.462466 7.4:-19944635 None:intergenic
AATGTGGTTGTGGTTGTGGT+TGG 0.471828 7.4:+19943730 None:intergenic
GAAAGAGACTTGTTCAAAAG+AGG 0.482878 7.4:+19944872 MS.gene055712:CDS
TTGATAAGAAGATAAGGTTG+AGG 0.486048 7.4:+19944848 MS.gene055712:CDS
TGGAATCAAAATTGAAGGAG+AGG 0.491503 7.4:+19944800 MS.gene055712:CDS
TGAAGCTTGATAAGAAGATA+AGG 0.493499 7.4:+19944842 MS.gene055712:CDS
TCCCTCGGTTTCACAACAAA+GGG 0.494277 7.4:-19944670 None:intergenic
GGAATCAAAATTGAAGGAGA+GGG 0.508757 7.4:+19944801 MS.gene055712:CDS
TGGTTGTGGTTGTGGTTGGT+TGG 0.513049 7.4:+19943734 MS.gene055712:CDS
AGTCCCTTCAATGAGTTTGT+GGG 0.524517 7.4:-19944634 None:intergenic
GAAGGGTGAGAATGTGGTTG+TGG 0.527446 7.4:+19943720 None:intergenic
TTTGCCCACAAACTCATTGA+AGG 0.534777 7.4:+19944630 MS.gene055712:CDS
TTCCCTCGGTTTCACAACAA+AGG 0.535738 7.4:-19944671 None:intergenic
ACTGAATCCAATGTTGCAGA+TGG 0.538749 7.4:+19944721 MS.gene055712:CDS
TGAAGGAGAGGGAAGAGCAG+AGG 0.551586 7.4:+19944812 MS.gene055712:CDS
ATTGAAGGGACTTCGAATCT+CGG 0.553791 7.4:+19944645 MS.gene055712:CDS
TTGCCCACAAACTCATTGAA+GGG 0.555855 7.4:+19944631 MS.gene055712:CDS
AATTTCTTCATCTTGGAAGG+TGG 0.562678 7.4:-19944919 None:intergenic
CACCCTTTGTTGTGAAACCG+AGG 0.599124 7.4:+19944668 MS.gene055712:CDS
CTGAATCCAATGTTGCAGAT+GGG 0.613616 7.4:+19944722 MS.gene055712:CDS
ACCCTTTGTTGTGAAACCGA+GGG 0.617169 7.4:+19944669 MS.gene055712:CDS
TCAGTTTCAAGAGTGCACGT+TGG 0.725975 7.4:+19944607 MS.gene055712:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACAAGAATAATAAAAACAT+GGG - chr7.4:19944543-19944562 None:intergenic 15.0%
!! TAACAAGAATAATAAAAACA+TGG - chr7.4:19944544-19944563 None:intergenic 15.0%
!!! TGCTTTTGAATAATAAATAT+GGG - chr7.4:19944215-19944234 None:intergenic 15.0%
!!! TTGCTTTTGAATAATAAATA+TGG - chr7.4:19944216-19944235 None:intergenic 15.0%
!! AATTGTTGACGAAAATTTAA+AGG - chr7.4:19944079-19944098 None:intergenic 20.0%
!! CATGTAAGGAAAAATAAAAT+AGG + chr7.4:19943991-19944010 MS.gene055712:intron 20.0%
!! TTGGATTATCAAAAATGTTA+CGG - chr7.4:19944153-19944172 None:intergenic 20.0%
!!! TGTTACGGAAATTTTTTATA+AGG - chr7.4:19944138-19944157 None:intergenic 20.0%
! AAAAGTGATTATATTTCCAG+TGG + chr7.4:19944270-19944289 MS.gene055712:intron 25.0%
! AAATAAAATAGGCAAGGAAA+TGG + chr7.4:19944002-19944021 MS.gene055712:intron 25.0%
! AAGGAAAAATAAAATAGGCA+AGG + chr7.4:19943996-19944015 MS.gene055712:intron 25.0%
! AATGTATTGTGGAGAAATTA+AGG - chr7.4:19944520-19944539 None:intergenic 25.0%
! ATCTTCACGGTTAAATATTA+GGG - chr7.4:19944242-19944261 None:intergenic 25.0%
! GATATAGATTATCAACATGT+TGG - chr7.4:19944182-19944201 None:intergenic 25.0%
! TATCTTCACGGTTAAATATT+AGG - chr7.4:19944243-19944262 None:intergenic 25.0%
!! AAGATTTTGTTGAGACAAAT+AGG - chr7.4:19944355-19944374 None:intergenic 25.0%
!! ATAAAAATTGCATTTTCCCT+CGG - chr7.4:19944688-19944707 None:intergenic 25.0%
!! TTTGATTGATTTCACATGTA+AGG + chr7.4:19943977-19943996 MS.gene055712:intron 25.0%
!!! CTTTTAGAGTTTTATCTTCA+CGG - chr7.4:19944255-19944274 None:intergenic 25.0%
!!! GAATTGTTTTATGGATAAGA+AGG - chr7.4:19944333-19944352 None:intergenic 25.0%
!!! GACAAATAGGAATTGTTTTA+TGG - chr7.4:19944342-19944361 None:intergenic 25.0%
AAAAACATGGGAATGTATTG+TGG - chr7.4:19944531-19944550 None:intergenic 30.0%
AATTAAGGAAGAAGAAGTGA+TGG - chr7.4:19944505-19944524 None:intergenic 30.0%
ACTCTTCAATTTCTTCATCT+TGG - chr7.4:19944929-19944948 None:intergenic 30.0%
TCTTCACGGTTAAATATTAG+GGG - chr7.4:19944241-19944260 None:intergenic 30.0%
TGAAGCTTGATAAGAAGATA+AGG + chr7.4:19944842-19944861 MS.gene055712:CDS 30.0%
TTCAATTTCTTCATCTTGGA+AGG - chr7.4:19944925-19944944 None:intergenic 30.0%
TTGATAAGAAGATAAGGTTG+AGG + chr7.4:19944848-19944867 MS.gene055712:CDS 30.0%
!! CTGTATCTGAAAGTTGATAA+TGG + chr7.4:19943763-19943782 MS.gene055712:intron 30.0%
!! TAATGGATTCATGTCATTGA+TGG + chr7.4:19943780-19943799 MS.gene055712:intron 30.0%
!! TCCTTTGGAATCAAAATTGA+AGG + chr7.4:19944795-19944814 MS.gene055712:CDS 30.0%
!!! TCCTTCAATTTTGATTCCAA+AGG - chr7.4:19944799-19944818 None:intergenic 30.0%
AAAATGGAGGAAGAAGAAAG+AGG - chr7.4:19944452-19944471 None:intergenic 35.0%
AAAGAGGAAGTTGAGAAAGA+AGG + chr7.4:19944888-19944907 MS.gene055712:CDS 35.0%
AAATGGAGGAAGAAGAAAGA+GGG - chr7.4:19944451-19944470 None:intergenic 35.0%
AACAATCGAAAATTCCACAC+AGG - chr7.4:19943916-19943935 None:intergenic 35.0%
AAGAAGTGATGGTACTTACT+TGG - chr7.4:19944494-19944513 None:intergenic 35.0%
AAGAGGAAGTTGAGAAAGAA+GGG + chr7.4:19944889-19944908 MS.gene055712:CDS 35.0%
AATTTCTTCATCTTGGAAGG+TGG - chr7.4:19944922-19944941 None:intergenic 35.0%
AGAAGTGATGGTACTTACTT+GGG - chr7.4:19944493-19944512 None:intergenic 35.0%
AGTTGAGAAAGAAGGGTAAT+TGG + chr7.4:19944896-19944915 MS.gene055712:CDS 35.0%
ATCAACATGTTGGAAGAGTT+TGG - chr7.4:19944172-19944191 None:intergenic 35.0%
GGAATCAAAATTGAAGGAGA+GGG + chr7.4:19944801-19944820 MS.gene055712:CDS 35.0%
TATGAAATTGAGGAAGGGAA+AGG + chr7.4:19943841-19943860 MS.gene055712:intron 35.0%
TGGAATCAAAATTGAAGGAG+AGG + chr7.4:19944800-19944819 MS.gene055712:CDS 35.0%
TTCTGTAGATAAGCTTCCTT+TGG + chr7.4:19944780-19944799 MS.gene055712:CDS 35.0%
! GAAAGAGACTTGTTCAAAAG+AGG + chr7.4:19944872-19944891 MS.gene055712:CDS 35.0%
!! GTCATTGATGGTGTAATGAA+GGG + chr7.4:19943792-19943811 MS.gene055712:intron 35.0%
!! TGTCATTGATGGTGTAATGA+AGG + chr7.4:19943791-19943810 MS.gene055712:intron 35.0%
AAGTCCCTTCAATGAGTTTG+TGG - chr7.4:19944638-19944657 None:intergenic 40.0%
AATGGAGGAAGAAGAAAGAG+GGG - chr7.4:19944450-19944469 None:intergenic 40.0%
ACTGAATCCAATGTTGCAGA+TGG + chr7.4:19944721-19944740 MS.gene055712:CDS 40.0%
AGTCCCTTCAATGAGTTTGT+GGG - chr7.4:19944637-19944656 None:intergenic 40.0%
ATTGAAGGGACTTCGAATCT+CGG + chr7.4:19944645-19944664 MS.gene055712:CDS 40.0%
CACAACACAACACAACACAA+TGG + chr7.4:19944389-19944408 MS.gene055712:intron 40.0%
CTGAATCCAATGTTGCAGAT+GGG + chr7.4:19944722-19944741 MS.gene055712:CDS 40.0%
GAAGTGATGGTACTTACTTG+GGG - chr7.4:19944492-19944511 None:intergenic 40.0%
GTGCGTATGAAATTGAGGAA+GGG + chr7.4:19943836-19943855 MS.gene055712:intron 40.0%
TGTTGTGTTGTGTTGTGTTG+TGG - chr7.4:19944391-19944410 None:intergenic 40.0%
TTGCCCACAAACTCATTGAA+GGG + chr7.4:19944631-19944650 MS.gene055712:CDS 40.0%
TTTGCCCACAAACTCATTGA+AGG + chr7.4:19944630-19944649 MS.gene055712:CDS 40.0%
!! ATTGATGGTGTAATGAAGGG+AGG + chr7.4:19943795-19943814 MS.gene055712:intron 40.0%
AGGCACAACATATGTGTGTC+CGG - chr7.4:19944313-19944332 None:intergenic 45.0%
ATGGTACTTACTTGGGGTTG+TGG - chr7.4:19944486-19944505 None:intergenic 45.0%
GGTGCGTATGAAATTGAGGA+AGG + chr7.4:19943835-19943854 MS.gene055712:intron 45.0%
TACTTACTTGGGGTTGTGGA+GGG - chr7.4:19944482-19944501 None:intergenic 45.0%
TACTTCTTCTGTGACACCAC+TGG - chr7.4:19944289-19944308 None:intergenic 45.0%
TCCCTCGGTTTCACAACAAA+GGG - chr7.4:19944673-19944692 None:intergenic 45.0%
TGTGGAGGGAATTGGGAAAA+TGG - chr7.4:19944468-19944487 None:intergenic 45.0%
TTCAGACCCATCTGCAACAT+TGG - chr7.4:19944731-19944750 None:intergenic 45.0%
TTCCCTCGGTTTCACAACAA+AGG - chr7.4:19944674-19944693 None:intergenic 45.0%
! ACCCTTTGTTGTGAAACCGA+GGG + chr7.4:19944669-19944688 MS.gene055712:CDS 45.0%
! GGTGTCACAGAAGAAGTAAC+CGG + chr7.4:19944291-19944310 MS.gene055712:intron 45.0%
! TCAGTTTCAAGAGTGCACGT+TGG + chr7.4:19944607-19944626 MS.gene055712:intron 45.0%
AGAAAGAGGGGTGAGTGTGA+TGG - chr7.4:19944438-19944457 None:intergenic 50.0%
GAGGTGAAGAGCGATTAGAG+GGG + chr7.4:19943814-19943833 MS.gene055712:intron 50.0%
GCGAGCGAGATTTCAAACTC+CGG + chr7.4:19943877-19943896 MS.gene055712:intron 50.0%
GGAGGGAATTGGGAAAATGG+AGG - chr7.4:19944465-19944484 None:intergenic 50.0%
GGAGGTGAAGAGCGATTAGA+GGG + chr7.4:19943813-19943832 MS.gene055712:intron 50.0%
GTACTTACTTGGGGTTGTGG+AGG - chr7.4:19944483-19944502 None:intergenic 50.0%
TGGTTGTGGTTGTGGTTGGT+TGG + chr7.4:19943734-19943753 MS.gene055712:CDS 50.0%
TTGGGGTTGTGGAGGGAATT+GGG - chr7.4:19944475-19944494 None:intergenic 50.0%
! CACCCTTTGTTGTGAAACCG+AGG + chr7.4:19944668-19944687 MS.gene055712:CDS 50.0%
! GAGGGGTGCGTATGAAATTG+AGG + chr7.4:19943831-19943850 MS.gene055712:intron 50.0%
CACAGGTGAATGCATTGCGC+CGG - chr7.4:19943899-19943918 None:intergenic 55.0%
CTTGGGGTTGTGGAGGGAAT+TGG - chr7.4:19944476-19944495 None:intergenic 55.0%
GCGCAATGCATTCACCTGTG+TGG + chr7.4:19943899-19943918 MS.gene055712:intron 55.0%
GGGAGGTGAAGAGCGATTAG+AGG + chr7.4:19943812-19943831 MS.gene055712:intron 55.0%
TGAAGGAGAGGGAAGAGCAG+AGG + chr7.4:19944812-19944831 MS.gene055712:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 19943731 19944954 19943731 ID=MS.gene055712
chr7.4 mRNA 19943731 19944954 19943731 ID=MS.gene055712.t1;Parent=MS.gene055712
chr7.4 exon 19943731 19943764 19943731 ID=MS.gene055712.t1.exon1;Parent=MS.gene055712.t1
chr7.4 CDS 19943731 19943764 19943731 ID=cds.MS.gene055712.t1;Parent=MS.gene055712.t1
chr7.4 exon 19944611 19944954 19944611 ID=MS.gene055712.t1.exon2;Parent=MS.gene055712.t1
chr7.4 CDS 19944611 19944954 19944611 ID=cds.MS.gene055712.t1;Parent=MS.gene055712.t1
Gene Sequence

>MS.gene055712

ATGTGGTTGTGGTTGTGGTTGGTTGGAAGACTCTGTATCTGAAAGTTGATAATGGATTCATGTCATTGATGGTGTAATGAAGGGAGGTGAAGAGCGATTAGAGGGGTGCGTATGAAATTGAGGAAGGGAAAGGTTTACGCACGTACGCGAGCGAGATTTCAAACTCCGGCGCAATGCATTCACCTGTGTGGAATTTTCGATTGTTGTTTTTTCATTTCTTCTGTCTACTAAAAGAATGTAAAAATATTTGATTGATTTCACATGTAAGGAAAAATAAAATAGGCAAGGAAATGGTTCTTATAAATATTTTTTAATTCTTTCAAAATAAAATTGCACTTTTTAAATCCTTTAAATTTTCGTCAACAATTTTAGTTCTTGTAGAATTTTGCATCAGCATTTTTAATCCTTATAAAAAATTTCCGTAACATTTTTGATAATCCAAACTCTTCCAACATGTTGATAATCTATATCAATGTTCTGACCCATATTTATTATTCAAAAGCAAAACCCCTAATATTTAACCGTGAAGATAAAACTCTAAAAGTGATTATATTTCCAGTGGTGTCACAGAAGAAGTAACCGGACACACATATGTTGTGCCTTCTTATCCATAAAACAATTCCTATTTGTCTCAACAAAATCTTCAATTGAAACAAACCACAACACAACACAACACAACACAATGGCACTTCTCTGCTTCAATTCCATCACACTCACCCCTCTTTCTTCTTCCTCCATTTTCCCAATTCCCTCCACAACCCCAAGTAAGTACCATCACTTCTTCTTCCTTAATTTCTCCACAATACATTCCCATGTTTTTATTATTCTTGTTATTGTTTCTTTTATCTTGATTTTCTCGAACTATGTTTTTGTTTATCAGTTTCAAGAGTGCACGTTGGTTTGCCCACAAACTCATTGAAGGGACTTCGAATCTCGGCACCCTTTGTTGTGAAACCGAGGGAAAATGCAATTTTTATTGCATCTGCTACTACTGAATCCAATGTTGCAGATGGGTCTGAAAGTGAAAGCAAGAAAGAGAGTGATGCTGTTTCTGTAGATAAGCTTCCTTTGGAATCAAAATTGAAGGAGAGGGAAGAGCAGAGGTTGAAGATGAAGCTTGATAAGAAGATAAGGTTGAGGAGAAAGAGACTTGTTCAAAAGAGGAAGTTGAGAAAGAAGGGTAATTGGCCACCTTCCAAGATGAAGAAATTGAAGAGTGTTTGA

Protein sequence

>MS.gene055712.t1

MWLWLWLVGRLFSRVHVGLPTNSLKGLRISAPFVVKPRENAIFIASATTESNVADGSESESKKESDAVSVDKLPLESKLKEREEQRLKMKLDKKIRLRRKRLVQKRKLRKKGNWPPSKMKKLKSV