AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene95083


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95083.t1 MTR_4g134140 88.182 110 7 3 2 108 39 145 1.35e-54 173
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 27 sgRNAs with CRISPR-Local

Find 69 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACAGCACTGAACAGCTTAA+AGG 0.242225 8.2:+606534 None:intergenic
CAAGTGTTTGATTACAATTT+CGG 0.312597 8.2:-607552 MS.gene95083:CDS
TTTGAAGAAGGAAAGTAGAT+TGG 0.355768 8.2:-607487 MS.gene95083:CDS
CAAGCATGGAAGCACTTTCA+TGG 0.384069 8.2:-607344 MS.gene95083:CDS
TTGGAATTAGTTTGACTTGA+GGG 0.414606 8.2:+607265 None:intergenic
CTGGTCCATGTAGCGGCTGC+TGG 0.430691 8.2:-606501 MS.gene95083:CDS
AGAGAAACAGTAGTTGTAGA+AGG 0.431084 8.2:+607300 None:intergenic
GTTTGAGATAAATTTGAAGA+AGG 0.464932 8.2:-607499 MS.gene95083:CDS
AGTGCTGTGCTGCTATCTGC+TGG 0.472010 8.2:-606520 MS.gene95083:CDS
AGGTGTCACGGCATGTTTCA+AGG 0.477649 8.2:+607320 None:intergenic
TATAGATGATGTTGTTTATG+TGG 0.505857 8.2:-607391 MS.gene95083:CDS
GAGAGCAACTTACATGGAGT+TGG 0.508185 8.2:+607246 None:intergenic
ATGGACCAGCAGCCGCTACA+TGG 0.511356 8.2:+606496 None:intergenic
AATTTCGGAGACGACGATGA+TGG 0.516786 8.2:-607537 MS.gene95083:CDS
CGAAATTGTAATCAAACACT+TGG 0.523720 8.2:+607553 None:intergenic
ATTGGATTCAATAAGAGAAG+AGG 0.530259 8.2:-607469 MS.gene95083:CDS
TATGTGGCAGTGGGAACAAA+TGG 0.556548 8.2:-607375 MS.gene95083:CDS
TGATGTTGTTTATGTGGCAG+TGG 0.557388 8.2:-607385 MS.gene95083:CDS
AAAAGCAACACAGAACTACA+TGG 0.570086 8.2:+606477 None:intergenic
GTTGGAATTAGTTTGACTTG+AGG 0.589120 8.2:+607264 None:intergenic
TGACTTGAGGGAAAACGTGT+AGG 0.604542 8.2:+607277 None:intergenic
AAATGGTGGAAGTTCAAGCA+TGG 0.604604 8.2:-607358 MS.gene95083:CDS
CTATCTGCTGGTCCATGTAG+CGG 0.639553 8.2:-606508 MS.gene95083:CDS
GATGTTGTTTATGTGGCAGT+GGG 0.642705 8.2:-607384 MS.gene95083:CDS
AGTAGTTGTAGAAGGTGTCA+CGG 0.650946 8.2:+607308 None:intergenic
ATTCAATAAGAGAAGAGGAG+TGG 0.652515 8.2:-607464 MS.gene95083:CDS
GTGGCAGTGGGAACAAATGG+TGG 0.662195 8.2:-607372 MS.gene95083:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAATTAGATAAAGTTAAATT+TGG + chr8.2:606897-606916 None:intergenic 15.0%
!!! CAAAAATCATTTTGATACAT+TGG - chr8.2:607259-607278 MS.gene95083:CDS 20.0%
! CAAGTGTTTGATTACAATTT+CGG - chr8.2:606501-606520 MS.gene95083:CDS 25.0%
! TATGATGTGCAATTAATAAG+AGG + chr8.2:606937-606956 None:intergenic 25.0%
! TGTTTGTAAATAAGACAAGA+AGG + chr8.2:606832-606851 None:intergenic 25.0%
!! GTTTGAGATAAATTTGAAGA+AGG - chr8.2:606554-606573 MS.gene95083:intron 25.0%
!! TATAGATGATGTTGTTTATG+TGG - chr8.2:606662-606681 MS.gene95083:intron 25.0%
AGCGTGTAATGTATTAAACA+AGG - chr8.2:607207-607226 MS.gene95083:intron 30.0%
ATGGTTTCTCGCTAAAATTA+AGG - chr8.2:607038-607057 MS.gene95083:intron 30.0%
ATTGGATTCAATAAGAGAAG+AGG - chr8.2:606584-606603 MS.gene95083:intron 30.0%
CGAAATTGTAATCAAACACT+TGG + chr8.2:606503-606522 None:intergenic 30.0%
GCAGAACTATATGTATTCAA+TGG + chr8.2:607454-607473 None:intergenic 30.0%
TTTGAAGAAGGAAAGTAGAT+TGG - chr8.2:606566-606585 MS.gene95083:intron 30.0%
! ATTTTCCTCGGTATTTAACT+TGG + chr8.2:607146-607165 None:intergenic 30.0%
! TTGGTGATTTATGCTTATGT+TGG + chr8.2:606878-606897 None:intergenic 30.0%
!! TTGGAATTAGTTTGACTTGA+GGG + chr8.2:606791-606810 None:intergenic 30.0%
AGAGAAACAGTAGTTGTAGA+AGG + chr8.2:606756-606775 None:intergenic 35.0%
ATTCAATAAGAGAAGAGGAG+TGG - chr8.2:606589-606608 MS.gene95083:intron 35.0%
CAAAAATTTCCGAGGAACAA+TGG - chr8.2:607019-607038 MS.gene95083:intron 35.0%
GAAGGAAAATTGACAGAGTT+TGG + chr8.2:607371-607390 None:intergenic 35.0%
GCTAAAATTAAGGATTTCCG+AGG - chr8.2:607048-607067 MS.gene95083:intron 35.0%
GTGATTTATGCTTATGTTGG+AGG + chr8.2:606875-606894 None:intergenic 35.0%
! CATTGTTCCTCGGAAATTTT+TGG + chr8.2:607021-607040 None:intergenic 35.0%
! CTTTTCCAAGTTAAATACCG+AGG - chr8.2:607138-607157 MS.gene95083:intron 35.0%
! TAATGACAACATGTTTTCCG+AGG + chr8.2:607172-607191 None:intergenic 35.0%
!! GTTGGAATTAGTTTGACTTG+AGG + chr8.2:606792-606811 None:intergenic 35.0%
AAGAAGGAGAGCAACTTACA+TGG + chr8.2:606816-606835 None:intergenic 40.0%
ATACCGAGGAAAATGTTCCT+CGG - chr8.2:607152-607171 MS.gene95083:intron 40.0%
ATTCCGACCAAAAATTTCCG+AGG - chr8.2:607011-607030 MS.gene95083:intron 40.0%
ATTCTGACATGTACATACCG+AGG + chr8.2:607082-607101 None:intergenic 40.0%
! AAATGGTGGAAGTTCAAGCA+TGG - chr8.2:606695-606714 MS.gene95083:intron 40.0%
! ATTCGGTGAGAGTTCTTCAA+CGG + chr8.2:607397-607416 None:intergenic 40.0%
! CTGTTTGCACCTTCTGTTTT+TGG - chr8.2:607485-607504 MS.gene95083:CDS 40.0%
! GATGTTGTTTATGTGGCAGT+GGG - chr8.2:606669-606688 MS.gene95083:intron 40.0%
! TGATGTTGTTTATGTGGCAG+TGG - chr8.2:606668-606687 MS.gene95083:intron 40.0%
! TTTCCGAGGAACATTTTCCT+CGG + chr8.2:607158-607177 None:intergenic 40.0%
!! AGTAGTTGTAGAAGGTGTCA+CGG + chr8.2:606748-606767 None:intergenic 40.0%
!!! GTTCCTCGGAAATTTTTGGT+CGG + chr8.2:607017-607036 None:intergenic 40.0%
AATTTCGGAGACGACGATGA+TGG - chr8.2:606516-606535 MS.gene95083:CDS 45.0%
AGAGTTCTTCAACGGTGAGA+AGG + chr8.2:607389-607408 None:intergenic 45.0%
AGCGAGAAACCATTGTTCCT+CGG + chr8.2:607031-607050 None:intergenic 45.0%
ATACCGAGGAAAGAGTTCCT+CGG + chr8.2:607068-607087 None:intergenic 45.0%
GAGAGCAACTTACATGGAGT+TGG + chr8.2:606810-606829 None:intergenic 45.0%
TATGTGGCAGTGGGAACAAA+TGG - chr8.2:606678-606697 MS.gene95083:intron 45.0%
TGACTTGAGGGAAAACGTGT+AGG + chr8.2:606779-606798 None:intergenic 45.0%
TTTCCGAGGAACTCTTTCCT+CGG - chr8.2:607062-607081 MS.gene95083:intron 45.0%
! CACAGCACTGAACAGCTTAA+AGG + chr8.2:607522-607541 None:intergenic 45.0%
!! CAAGCATGGAAGCACTTTCA+TGG - chr8.2:606709-606728 MS.gene95083:intron 45.0%
!!! TGCACCTTCTGTTTTTGGTC+TGG - chr8.2:607490-607509 MS.gene95083:CDS 45.0%
AGAGAGAGAGAGAGAGAGAG+AGG + chr8.2:607293-607312 None:intergenic 50.0%
ATGGTTGTGTGACCCAGCTT+CGG + chr8.2:607435-607454 None:intergenic 50.0%
CCTGCCAGACCAAAAACAGA+AGG + chr8.2:607497-607516 None:intergenic 50.0%
CTATCTGCTGGTCCATGTAG+CGG - chr8.2:607545-607564 MS.gene95083:CDS 50.0%
CTCTCTCTCTCTCTCTCAGA+AGG - chr8.2:607313-607332 MS.gene95083:CDS 50.0%
GGTTACGGTAAGGGAGGATT+CGG + chr8.2:607414-607433 None:intergenic 50.0%
! AGGTGTCACGGCATGTTTCA+AGG + chr8.2:606736-606755 None:intergenic 50.0%
!!! CCTTCTGTTTTTGGTCTGGC+AGG - chr8.2:607494-607513 MS.gene95083:CDS 50.0%
ACCCAGCTTCGGTTACGGTA+AGG + chr8.2:607424-607443 None:intergenic 55.0%
AGCTTCGGTTACGGTAAGGG+AGG + chr8.2:607420-607439 None:intergenic 55.0%
CACGCAGTGCAAACTCAGTG+CGG - chr8.2:607111-607130 MS.gene95083:intron 55.0%
CCCAGCTTCGGTTACGGTAA+GGG + chr8.2:607423-607442 None:intergenic 55.0%
CCCTTACCGTAACCGAAGCT+GGG - chr8.2:607420-607439 MS.gene95083:CDS 55.0%
GTGGCAGTGGGAACAAATGG+TGG - chr8.2:606681-606700 MS.gene95083:intron 55.0%
GTGTGACCCAGCTTCGGTTA+CGG + chr8.2:607429-607448 None:intergenic 55.0%
TCCCTTACCGTAACCGAAGC+TGG - chr8.2:607419-607438 MS.gene95083:CDS 55.0%
! AGTGCTGTGCTGCTATCTGC+TGG - chr8.2:607533-607552 MS.gene95083:CDS 55.0%
ATGGACCAGCAGCCGCTACA+TGG + chr8.2:607560-607579 None:intergenic 60.0%
CGCACTGAGTTTGCACTGCG+TGG + chr8.2:607113-607132 None:intergenic 60.0%
CTGGTCCATGTAGCGGCTGC+TGG - chr8.2:607552-607571 MS.gene95083:CDS 65.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 606492 607583 606492 ID=MS.gene95083
chr8.2 mRNA 606492 607583 606492 ID=MS.gene95083.t1;Parent=MS.gene95083
chr8.2 exon 607259 607583 607259 ID=MS.gene95083.t1.exon1;Parent=MS.gene95083.t1
chr8.2 CDS 607259 607583 607259 ID=cds.MS.gene95083.t1;Parent=MS.gene95083.t1
chr8.2 exon 606492 606559 606492 ID=MS.gene95083.t1.exon2;Parent=MS.gene95083.t1
chr8.2 CDS 606492 606559 606492 ID=cds.MS.gene95083.t1;Parent=MS.gene95083.t1
Gene Sequence

>MS.gene95083

ATGAAAAGCCAAGTGTTTGATTACAATTTCGGAGACGACGATGATGGTGATTCAGAAGAGCTGTTTGAGATAAATTTGAAGAAGGAAAGTAGATTGGATTCAATAAGAGAAGAGGAGTGGTGTGAGAGCAGTACTGTGTTCTCTCTTGATATACACAACAATGATAATAATATAGATGATGTTGTTTATGTGGCAGTGGGAACAAATGGTGGAAGTTCAAGCATGGAAGCACTTTCATGGACCTTGAAACATGCCGTGACACCTTCTACAACTACTGTTTCTCTCCTACACGTTTTCCCTCAAGTCAAACTAATTCCAACTCCATGTAAGTTGCTCTCCTTCTTGTCTTATTTACAAACAAAACTCATTATAGTTTTTTACCTCCAACATAAGCATAAATCACCAAATTTAACTTTATCTAATTGTTACTGATTCAAAAACGCCTCTTATTAATTGCACATCATATAATAACTTAAAAAACACATACTATTATTTAATTCACTACAAGAAAGCTTGTGTATTCCGACCAAAAATTTCCGAGGAACAATGGTTTCTCGCTAAAATTAAGGATTTCCGAGGAACTCTTTCCTCGGTATGTACATGTCAGAATCTCTGCTTCCACGCAGTGCAAACTCAGTGCGGCGCGCTTTTCCAAGTTAAATACCGAGGAAAATGTTCCTCGGAAAACATGTTGTCATTATTAAATTCTTTTCAAAGCGTGTAATGTATTAAACAAGGATTTTCAAACATGTTGTCATTATCAATAACAAAAATCATTTTGATACATTGGAGAGCACATTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCAGAAGGCTAGATCTAGCGCTTCTCACTCTCTCACAGAACCAAACTCTGTCAATTTTCCTTCTCACCGTTGAAGAACTCTCACCGAATCCTCCCTTACCGTAACCGAAGCTGGGTCACACAACCATTGAATACATATAGTTCTGCTGTTTGTGCTGCTGTTTGCACCTTCTGTTTTTGGTCTGGCAGGCTCCTTTAAGCTGTTCAGTGCTGTGCTGCTATCTGCTGGTCCATGTAGCGGCTGCTGGTCCATGTAG

Protein sequence

>MS.gene95083.t1

MKSQVFDYNFGDDDDGDSEELFEINLKKESRLDSIREEEWCESSTVFSLDIHNNDNNIDDVVYVAVGTNGGSSSMEALSWTLKHAVTPSTTTVSLLHVFPQVKLIPTPCSFKLFSAVLLSAGPCSGCWSM