AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080047956.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080047956.01.T02 MTR_1g026820 100.000 39 0 0 1 39 60 98 7.49e-21 77.0
MsG0080047956.01.T02 MTR_1g026820 100.000 39 0 0 1 39 92 130 9.99e-21 77.8
MsG0080047956.01.T01 MTR_1g026820 100.000 51 0 0 1 51 48 98 1.12e-29 100
MsG0080047956.01.T01 MTR_1g026820 100.000 51 0 0 1 51 80 130 1.14e-29 100
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080047956.01.T02 AT1G30380 97.436 39 1 0 1 39 92 130 2.06e-20 77.0
MsG0080047956.01.T01 AT1G30380 94.118 51 3 0 1 51 80 130 3.54e-28 97.4

Find 21 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGGTGTTGGTGTTGTTCT+TGG 0.264103 contig152end:-354467 MsG0080047955.01.T01:CDS
GTTCACCCTTGCTGATACTT+TGG 0.359682 contig152end:-354513 MsG0080047955.01.T01:CDS
TTGCAGACTGGTGACCCAGC+TGG 0.370604 contig152end:-354536 MsG0080047955.01.T01:CDS
TGCAGACTGGTGACCCAGCT+GGG 0.430536 contig152end:-354535 MsG0080047955.01.T01:CDS
TCAGCAAGGGTGAACCCAGC+TGG 0.438597 contig152end:+354521 None:intergenic
ACTTTGGCCTGTGGGACTGT+TGG 0.461540 contig152end:-354497 MsG0080047955.01.T01:CDS
AGCAACAGCAGGACTAAAGC+TGG 0.487183 contig152end:-354576 MsG0080047955.01.T01:CDS
TTGCTGATACTTTGGCCTGT+GGG 0.511025 contig152end:-354505 MsG0080047955.01.T01:CDS
CTTGCTGATACTTTGGCCTG+TGG 0.513317 contig152end:-354506 MsG0080047955.01.T01:CDS
GGGACTGTTGGACACATCAT+TGG 0.518734 contig152end:-354485 MsG0080047955.01.T01:CDS
GTTCTTGGTCTTAAGAACAT+TGG 0.536798 contig152end:-354452 MsG0080047955.01.T01:CDS
AGGGACTCAGGCTTGCAGAC+TGG 0.536809 contig152end:-354548 MsG0080047955.01.T01:CDS
CAGGACTAAAGCTGGAGACA+AGG 0.539368 contig152end:-354568 MsG0080047955.01.T01:CDS
GTTGGACACATCATTGGTGT+TGG 0.557734 contig152end:-354479 MsG0080047955.01.T01:CDS
AAGCTGGAGACAAGGGACTC+AGG 0.559360 contig152end:-354560 MsG0080047955.01.T01:CDS
GATGTGTCCAACAGTCCCAC+AGG 0.566507 contig152end:+354490 None:intergenic
CAGCAAGGGTGAACCCAGCT+GGG 0.567280 contig152end:+354522 None:intergenic
AGGACTAAAGCTGGAGACAA+GGG 0.595838 contig152end:-354567 MsG0080047955.01.T01:CDS
CACAGGCCAAAGTATCAGCA+AGG 0.601389 contig152end:+354507 None:intergenic
GCAAACAGGAAAGCAACAGC+AGG 0.611764 contig152end:-354587 MsG0080047955.01.T01:CDS
ACAGGCCAAAGTATCAGCAA+GGG 0.672894 contig152end:+354508 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTTCTTGGTCTTAAGAACAT+TGG - contig152end:354565-354584 MsG0080047955.01.T01:CDS 35.0%
!! ATTGGTGTTGGTGTTGTTCT+TGG - contig152end:354550-354569 MsG0080047955.01.T01:CDS 40.0%
AGGACTAAAGCTGGAGACAA+GGG - contig152end:354450-354469 MsG0080047955.01.T01:CDS 45.0%
GTTCACCCTTGCTGATACTT+TGG - contig152end:354504-354523 MsG0080047955.01.T01:CDS 45.0%
GTTGGACACATCATTGGTGT+TGG - contig152end:354538-354557 MsG0080047955.01.T01:CDS 45.0%
TTGCTGATACTTTGGCCTGT+GGG - contig152end:354512-354531 MsG0080047955.01.T01:CDS 45.0%
! ACAGGCCAAAGTATCAGCAA+GGG + contig152end:354512-354531 None:intergenic 45.0%
CAGGACTAAAGCTGGAGACA+AGG - contig152end:354449-354468 MsG0080047955.01.T01:CDS 50.0%
CTTGCTGATACTTTGGCCTG+TGG - contig152end:354511-354530 MsG0080047955.01.T01:CDS 50.0%
GGGACTGTTGGACACATCAT+TGG - contig152end:354532-354551 MsG0080047955.01.T01:CDS 50.0%
! CACAGGCCAAAGTATCAGCA+AGG + contig152end:354513-354532 None:intergenic 50.0%
AAGCTGGAGACAAGGGACTC+AGG - contig152end:354457-354476 MsG0080047955.01.T01:CDS 55.0%
ACTTTGGCCTGTGGGACTGT+TGG - contig152end:354520-354539 MsG0080047955.01.T01:CDS 55.0%
GATGTGTCCAACAGTCCCAC+AGG + contig152end:354530-354549 None:intergenic 55.0%
AGGGACTCAGGCTTGCAGAC+TGG - contig152end:354469-354488 MsG0080047955.01.T01:CDS 60.0%
CAGCAAGGGTGAACCCAGCT+GGG + contig152end:354498-354517 None:intergenic 60.0%
TCAGCAAGGGTGAACCCAGC+TGG + contig152end:354499-354518 None:intergenic 60.0%
TGCAGACTGGTGACCCAGCT+GGG - contig152end:354482-354501 MsG0080047955.01.T01:CDS 60.0%
TTGCAGACTGGTGACCCAGC+TGG - contig152end:354481-354500 MsG0080047955.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
contig152end gene 354442 354597 354442 ID=MsG0080047956.01;Name=MsG0080047956.01
contig152end mRNA 354442 354597 354442 ID=MsG0080047956.01.T01;Parent=MsG0080047956.01;Name=MsG0080047956.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|51
contig152end exon 354442 354597 354442 ID=MsG0080047956.01.T01:exon:4493;Parent=MsG0080047956.01.T01
contig152end CDS 354442 354597 354442 ID=MsG0080047956.01.T01:cds;Parent=MsG0080047956.01.T01
contig152end mRNA 354442 354561 354442 ID=MsG0080047956.01.T02;Parent=MsG0080047956.01;Name=MsG0080047956.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|39
contig152end exon 354442 354561 354442 ID=MsG0080047956.01.T02:exon:4494;Parent=MsG0080047956.01.T02
contig152end CDS 354442 354561 354442 ID=MsG0080047956.01.T02:cds;Parent=MsG0080047956.01.T02
Gene Sequence

>MsG0080047956.01.T02

GGCTTGCAGACTGGTGACCCAGCTGGGTTCACCCTTGCTGATACTTTGGCCTGTGGGACTGTTGGACACATCATTGGTGTTGGTGTTGTTCTTGGTCTTAAGAACATTGGTGCATTGTAA

>MsG0080047956.01.T01

GCAACAGCAGGACTAAAGCTGGAGACAAGGGACTCAGGCTTGCAGACTGGTGACCCAGCTGGGTTCACCCTTGCTGATACTTTGGCCTGTGGGACTGTTGGACACATCATTGGTGTTGGTGTTGTTCTTGGTCTTAAGAACATTGGTGCATTGTAA

Protein sequence

>MsG0080047956.01.T02

GLQTGDPAGFTLADTLACGTVGHIIGVGVVLGLKNIGAL*

>MsG0080047956.01.T01

ATAGLKLETRDSGLQTGDPAGFTLADTLACGTVGHIIGVGVVLGLKNIGAL*