AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580027437.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580027437.01.T01 MTR_5g058090 97.561 41 1 0 1 41 590 630 5.01e-22 87.0
MsG0580027437.01.T01 MTR_8g014760 65.116 43 15 0 1 43 572 614 6.60e-12 58.5
MsG0580027437.01.T01 MTR_8g015200 61.905 42 16 0 1 42 547 588 9.44e-12 57.8
MsG0580027437.01.T01 MTR_8g015100 64.286 42 15 0 1 42 268 309 1.67e-11 57.4
MsG0580027437.01.T01 MTR_8g015100 64.286 42 15 0 1 42 485 526 1.68e-11 57.4
MsG0580027437.01.T01 MTR_8g013620 55.102 49 22 0 1 49 510 558 3.03e-11 56.6
MsG0580027437.01.T01 MTR_8g013620 55.102 49 22 0 1 49 510 558 3.04e-11 56.6
MsG0580027437.01.T01 MTR_8g013620 55.102 49 22 0 1 49 470 518 3.05e-11 56.6
MsG0580027437.01.T01 MTR_8g013620 55.102 49 22 0 1 49 510 558 3.05e-11 56.6
MsG0580027437.01.T01 MTR_8g015010 61.905 42 16 0 1 42 620 661 5.08e-11 55.8
MsG0580027437.01.T01 MTR_8g015150 61.905 42 16 0 1 42 320 361 5.15e-11 55.8
MsG0580027437.01.T01 MTR_2g073630 52.083 48 23 0 2 49 634 681 6.06e-11 55.5
MsG0580027437.01.T01 MTR_8g015150 61.905 42 16 0 1 42 565 606 6.11e-11 55.5
MsG0580027437.01.T01 MTR_8g015040 63.415 41 15 0 2 42 623 663 6.62e-11 55.5
MsG0580027437.01.T01 MTR_8g014790 61.905 42 16 0 1 42 573 614 7.01e-11 55.5
MsG0580027437.01.T01 MTR_8g014700 63.415 41 15 0 2 42 577 617 7.51e-11 55.5
MsG0580027437.01.T01 MTR_8g014700 63.415 41 15 0 2 42 577 617 8.37e-11 55.1
MsG0580027437.01.T01 MTR_8g015150 61.905 42 16 0 1 42 565 606 8.50e-11 55.1
MsG0580027437.01.T01 MTR_8g014970 59.524 42 17 0 1 42 336 377 9.54e-11 55.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 13 sgRNAs with CRISPR-Local

Find 11 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGATTGGAAAAGGTGGATT+TGG 0.219063 5:-60860548 MsG0580027437.01.T01:CDS
ATCAGAATTGCAAGGGCATA+AGG 0.396927 5:-60860465 MsG0580027437.01.T01:CDS
TGATTGGAAAAGGTGGATTT+GGG 0.397501 5:-60860547 MsG0580027437.01.T01:CDS
GGATTTGGGAAGGTTTATCT+AGG 0.409707 5:-60860533 MsG0580027437.01.T01:CDS
GATGATTTCAGACAAATGAT+TGG 0.411170 5:-60860563 None:intergenic
TTCAGACAAATGATTGGAAA+AGG 0.434149 5:-60860557 None:intergenic
TGATAAAGAGAGTGTCTTCA+CGG 0.499420 5:+60860484 None:intergenic
TGGAAAAGGTGGATTTGGGA+AGG 0.529817 5:-60860543 MsG0580027437.01.T01:CDS
AGACAAATGATTGGAAAAGG+TGG 0.532415 5:-60860554 None:intergenic
TATCTAGGTATTATACCTGA+TGG 0.552766 5:-60860518 MsG0580027437.01.T01:CDS
CTCTCTTTATCAGAATTGCA+AGG 0.568758 5:-60860473 MsG0580027437.01.T01:CDS
GCATAAGGAGTTTATATCAG+AGG 0.607150 5:-60860450 MsG0580027437.01.T01:CDS
TCTCTTTATCAGAATTGCAA+GGG 0.616762 5:-60860472 MsG0580027437.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TATCTAGGTATTATACCTGA+TGG - Chr5:60860427-60860446 MsG0580027437.01.T01:CDS 30.0%
TCTCTTTATCAGAATTGCAA+GGG - Chr5:60860473-60860492 MsG0580027437.01.T01:CDS 30.0%
CTCTCTTTATCAGAATTGCA+AGG - Chr5:60860472-60860491 MsG0580027437.01.T01:CDS 35.0%
GCATAAGGAGTTTATATCAG+AGG - Chr5:60860495-60860514 MsG0580027437.01.T01:CDS 35.0%
! ATGATTGGAAAAGGTGGATT+TGG - Chr5:60860397-60860416 MsG0580027437.01.T01:CDS 35.0%
! TGATTGGAAAAGGTGGATTT+GGG - Chr5:60860398-60860417 MsG0580027437.01.T01:CDS 35.0%
!! TGATAAAGAGAGTGTCTTCA+CGG + Chr5:60860464-60860483 None:intergenic 35.0%
GGATTTGGGAAGGTTTATCT+AGG - Chr5:60860412-60860431 MsG0580027437.01.T01:CDS 40.0%
! ATCAGAATTGCAAGGGCATA+AGG - Chr5:60860480-60860499 MsG0580027437.01.T01:CDS 40.0%
! ACGGCAACATTTTCACCATC+AGG + Chr5:60860445-60860464 None:intergenic 45.0%
! TGGAAAAGGTGGATTTGGGA+AGG - Chr5:60860402-60860421 MsG0580027437.01.T01:CDS 45.0%
Chromosome Type Strat End Strand Name
Chr5 gene 60860397 60860570 60860397 ID=MsG0580027437.01;Name=MsG0580027437.01
Chr5 mRNA 60860397 60860570 60860397 ID=MsG0580027437.01.T01;Parent=MsG0580027437.01;Name=MsG0580027437.01.T01;_AED=0.63;_eAED=0.63;_QI=0|-1|0|1|-1|0|1|0|57
Chr5 exon 60860397 60860570 60860397 ID=MsG0580027437.01.T01:exon:13486;Parent=MsG0580027437.01.T01
Chr5 CDS 60860397 60860570 60860397 ID=MsG0580027437.01.T01:cds;Parent=MsG0580027437.01.T01
Gene Sequence

>MsG0580027437.01.T01

ATGATTGGAAAAGGTGGATTTGGGAAGGTTTATCTAGGTATTATACCTGATGGTGAAAATGTTGCCGTGAAGACACTCTCTTTATCAGAATTGCAAGGGCATAAGGAGTTTATATCAGAGGTTAGATACGTCAATGCATTAGATAATATTTTCTTCATATTTGTGTTCCAATAA
Protein sequence

>MsG0580027437.01.T01

MIGKGGFGKVYLGIIPDGENVAVKTLSLSELQGHKEFISEVRYVNALDNIFFIFVFQ*