AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene073747

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073747.t1 MTR_2g012700 32.979 94 62 1 25 117 12 105 3.56e-12 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 35 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTACTTACCCGAAAATTTC+TGG 0.121099 1.1:+37457631 None:intergenic
TCTTTATCGTTGGGAAATTA+AGG 0.270333 1.1:-37457675 MS.gene073747:CDS
ATCTCCAGTATCTTCCTAAA+AGG 0.283887 1.1:-37457498 MS.gene073747:intron
TTGCGCAGAACAACGTTCAT+TGG 0.370169 1.1:-37457730 MS.gene073747:CDS
TATGTTTGCCCCATTAAAAC+TGG 0.383833 1.1:-37457406 MS.gene073747:CDS
TCAATCACACAGGGTGTTGC+CGG 0.416330 1.1:+37457251 None:intergenic
AGCAAGCTGTTCTTTATCGT+TGG 0.432504 1.1:-37457685 MS.gene073747:CDS
TGTTCGTGACAACGAGTTGA+AGG 0.462873 1.1:-37457335 MS.gene073747:CDS
GCAAGCTGTTCTTTATCGTT+GGG 0.471256 1.1:-37457684 MS.gene073747:CDS
ACGAGTTGAAGGTCAATGAT+AGG 0.471795 1.1:-37457324 MS.gene073747:CDS
AGGATAATCACACGTTGATC+CGG 0.481188 1.1:+37457454 None:intergenic
TCGTGGAGGTTAAAATTCTC+CGG 0.489434 1.1:-37457270 MS.gene073747:CDS
GAGGATAAGTATATCTATGA+AGG 0.529571 1.1:-37457370 MS.gene073747:CDS
ATACTTATCCTCAACACCTC+TGG 0.529619 1.1:+37457381 None:intergenic
TGTGAGGGAGGTGATGCATC+CGG 0.535867 1.1:-37457473 MS.gene073747:CDS
AACTGGTACCAGAGGTGTTG+AGG 0.541872 1.1:-37457389 MS.gene073747:CDS
GGTCACAGAGAGCGTTGCTA+TGG 0.546123 1.1:-37457654 MS.gene073747:CDS
ATCTTCCTAAAAGGTATGTG+AGG 0.553150 1.1:-37457489 MS.gene073747:CDS
ATAAGTATATCTATGAAGGC+TGG 0.555742 1.1:-37457366 MS.gene073747:CDS
CATATTGAAATGCATGTATG+AGG 0.560024 1.1:-37457299 MS.gene073747:CDS
AAAGGTTTCAACGACATGGA+AGG 0.563193 1.1:-37457754 MS.gene073747:intron
CCATGGCAATTTCTTCGAGA+AGG 0.564688 1.1:-37457909 MS.gene073747:intron
CATGTATGAGGTTGAATTCG+TGG 0.565338 1.1:-37457287 MS.gene073747:CDS
AAGGTTTCAACGACATGGAA+GGG 0.580139 1.1:-37457753 MS.gene073747:CDS
TAAACATACTTCAATCACAC+AGG 0.592278 1.1:+37457241 None:intergenic
GTGATTATCCTCTATGATGT+TGG 0.597229 1.1:-37457442 MS.gene073747:CDS
TCCTAAAAGGTATGTGAGGG+AGG 0.598055 1.1:-37457485 MS.gene073747:CDS
CCCATTAAAACTGGTACCAG+AGG 0.609643 1.1:-37457397 MS.gene073747:CDS
TCGTAAAGGTTTCAACGACA+TGG 0.617077 1.1:-37457758 MS.gene073747:intron
TCTTCCTAAAAGGTATGTGA+GGG 0.625158 1.1:-37457488 MS.gene073747:CDS
CCTTCTCGAAGAAATTGCCA+TGG 0.641633 1.1:+37457909 None:intergenic
TGTCTTGACCAACATCATAG+AGG 0.651392 1.1:+37457434 None:intergenic
TTGGATTGACGAAGATACTG+AGG 0.654652 1.1:-37457711 MS.gene073747:CDS
AAACATACTTCAATCACACA+GGG 0.675982 1.1:+37457242 None:intergenic
GTATGAGGTTGAATTCGTGG+AGG 0.713812 1.1:-37457284 MS.gene073747:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATAAGTATATCTATGAAGGC+TGG - chr1.1:37457796-37457815 MS.gene073747:intron 30.0%
ATTACTTACCCGAAAATTTC+TGG + chr1.1:37457534-37457553 None:intergenic 30.0%
CATATTGAAATGCATGTATG+AGG - chr1.1:37457863-37457882 MS.gene073747:intron 30.0%
GAGGATAAGTATATCTATGA+AGG - chr1.1:37457792-37457811 MS.gene073747:intron 30.0%
TCTTTATCGTTGGGAAATTA+AGG - chr1.1:37457487-37457506 MS.gene073747:CDS 30.0%
TTTACGACACATTTAGACAA+AGG + chr1.1:37457391-37457410 None:intergenic 30.0%
TTTGTCTAAATGTGTCGTAA+AGG - chr1.1:37457390-37457409 MS.gene073747:CDS 30.0%
!! TTATCTGGCTTATTCTGTTT+TGG - chr1.1:37457286-37457305 MS.gene073747:CDS 30.0%
!!! GAAGGTATTCTGTTTTTATC+TGG - chr1.1:37457271-37457290 MS.gene073747:CDS 30.0%
ATCTCCAGTATCTTCCTAAA+AGG - chr1.1:37457664-37457683 MS.gene073747:CDS 35.0%
GAATGATATCACTTTGACTG+AGG - chr1.1:37457581-37457600 MS.gene073747:intron 35.0%
GTGATTATCCTCTATGATGT+TGG - chr1.1:37457720-37457739 MS.gene073747:CDS 35.0%
TATGTTTGCCCCATTAAAAC+TGG - chr1.1:37457756-37457775 MS.gene073747:intron 35.0%
! ATCTTCCTAAAAGGTATGTG+AGG - chr1.1:37457673-37457692 MS.gene073747:CDS 35.0%
! TCTTCCTAAAAGGTATGTGA+GGG - chr1.1:37457674-37457693 MS.gene073747:CDS 35.0%
! TTGCTATGGCCAGAAATTTT+CGG - chr1.1:37457522-37457541 MS.gene073747:intron 35.0%
!! CATACCTTTTAGGAAGATAC+TGG + chr1.1:37457671-37457690 None:intergenic 35.0%
!!! TGGCTTATTCTGTTTTGGTA+TGG - chr1.1:37457291-37457310 MS.gene073747:CDS 35.0%
AAAGGTTTCAACGACATGGA+AGG - chr1.1:37457408-37457427 MS.gene073747:CDS 40.0%
AAGGTTTCAACGACATGGAA+GGG - chr1.1:37457409-37457428 MS.gene073747:CDS 40.0%
AGCAAGCTGTTCTTTATCGT+TGG - chr1.1:37457477-37457496 MS.gene073747:CDS 40.0%
AGGATAATCACACGTTGATC+CGG + chr1.1:37457711-37457730 None:intergenic 40.0%
ATACTTATCCTCAACACCTC+TGG + chr1.1:37457784-37457803 None:intergenic 40.0%
CATGTATGAGGTTGAATTCG+TGG - chr1.1:37457875-37457894 MS.gene073747:intron 40.0%
GCAAGCTGTTCTTTATCGTT+GGG - chr1.1:37457478-37457497 MS.gene073747:CDS 40.0%
TCGTAAAGGTTTCAACGACA+TGG - chr1.1:37457404-37457423 MS.gene073747:CDS 40.0%
TCGTGGAGGTTAAAATTCTC+CGG - chr1.1:37457892-37457911 MS.gene073747:intron 40.0%
TGTCTTGACCAACATCATAG+AGG + chr1.1:37457731-37457750 None:intergenic 40.0%
TTGGATTGACGAAGATACTG+AGG - chr1.1:37457451-37457470 MS.gene073747:CDS 40.0%
! ACGAGTTGAAGGTCAATGAT+AGG - chr1.1:37457838-37457857 MS.gene073747:intron 40.0%
! CACTTTGACTGAGGTTCTTT+TGG - chr1.1:37457590-37457609 MS.gene073747:intron 40.0%
! TGCTATGGCCAGAAATTTTC+GGG - chr1.1:37457523-37457542 MS.gene073747:intron 40.0%
!! ACCTCTGGTACCAGTTTTAA+TGG + chr1.1:37457769-37457788 None:intergenic 40.0%
!! CCTCTGGTACCAGTTTTAAT+GGG + chr1.1:37457768-37457787 None:intergenic 40.0%
!! CTCTGGTACCAGTTTTAATG+GGG + chr1.1:37457767-37457786 None:intergenic 40.0%
CCCATTAAAACTGGTACCAG+AGG - chr1.1:37457765-37457784 MS.gene073747:intron 45.0%
GTATGAGGTTGAATTCGTGG+AGG - chr1.1:37457878-37457897 MS.gene073747:intron 45.0%
TTGCGCAGAACAACGTTCAT+TGG - chr1.1:37457432-37457451 MS.gene073747:CDS 45.0%
! ACCTCCCTCACATACCTTTT+AGG + chr1.1:37457681-37457700 None:intergenic 45.0%
! TCCTAAAAGGTATGTGAGGG+AGG - chr1.1:37457677-37457696 MS.gene073747:CDS 45.0%
! TGTTCGTGACAACGAGTTGA+AGG - chr1.1:37457827-37457846 MS.gene073747:intron 45.0%
!! ATAAAAAAAACTTAAATTTA+AGG + chr1.1:37457646-37457665 None:intergenic 5.0%
!! TAAAAAAAACTTAAATTTAA+GGG + chr1.1:37457645-37457664 None:intergenic 5.0%
!! AACTGGTACCAGAGGTGTTG+AGG - chr1.1:37457773-37457792 MS.gene073747:intron 50.0%
TGTGAGGGAGGTGATGCATC+CGG - chr1.1:37457689-37457708 MS.gene073747:CDS 55.0%
!! GGTCACAGAGAGCGTTGCTA+TGG - chr1.1:37457508-37457527 MS.gene073747:intron 55.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 37457255 37457929 37457255 ID=MS.gene073747
chr1.1 mRNA 37457255 37457929 37457255 ID=MS.gene073747.t1;Parent=MS.gene073747
chr1.1 exon 37457910 37457929 37457910 ID=MS.gene073747.t1.exon1;Parent=MS.gene073747.t1
chr1.1 CDS 37457910 37457929 37457910 ID=cds.MS.gene073747.t1;Parent=MS.gene073747.t1
chr1.1 exon 37457640 37457772 37457640 ID=MS.gene073747.t1.exon2;Parent=MS.gene073747.t1
chr1.1 CDS 37457640 37457772 37457640 ID=cds.MS.gene073747.t1;Parent=MS.gene073747.t1
chr1.1 exon 37457255 37457512 37457255 ID=MS.gene073747.t1.exon3;Parent=MS.gene073747.t1
chr1.1 CDS 37457255 37457512 37457255 ID=cds.MS.gene073747.t1;Parent=MS.gene073747.t1
Gene Sequence

>MS.gene073747

ATGGCAATTTCTTCGAGAAGGTATTCTGTTTTTATCTGGCTTATTCTGTTTTGGTATGGTAATGTTTAGTTTTCTATCGTCTACTTTCATTAAGAATATTCAATAATCAGATATAAAATGTTTGTATTTTTCTCCTTTGTCTAAATGTGTCGTAAAGGTTTCAACGACATGGAAGGGTTGCGCAGAACAACGTTCATTGGATTGACGAAGATACTGAGGATGAGCAAGCTGTTCTTTATCGTTGGGAAATTAAGGTCACAGAGAGCGTTGCTATGGCCAGAAATTTTCGGGTAAGTAATAGTTGAAAGTATCATGTTTTGATACATGAATGATATCACTTTGACTGAGGTTCTTTTGGTTTTGTTTTGATGTACTCTTTGATTGTTGCCCTTAAATTTAAGTTTTTTTTATCTCCAGTATCTTCCTAAAAGGTATGTGAGGGAGGTGATGCATCCGGATCAACGTGTGATTATCCTCTATGATGTTGGTCAAGACAATACATATGTTTGCCCCATTAAAACTGGTACCAGAGGTGTTGAGGATAAGTATATCTATGAAGGCTGGCGTAAATTTGTTCGTGACAACGAGTTGAAGGTCAATGATAGGCTCATATTGAAATGCATGTATGAGGTTGAATTCGTGGAGGTTAAAATTCTCCGGCAACACCCTGTGTGA
Protein sequence

>MS.gene073747.t1

MAISSRRFQRHGRVAQNNVHWIDEDTEDEQAVLYRWEIKVTESVAMARNFRYLPKRYVREVMHPDQRVIILYDVGQDNTYVCPIKTGTRGVEDKYIYEGWRKFVRDNELKVNDRLILKCMYEVEFVEVKILRQHPV