AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene64772


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64772.t1 MTR_4g125810 93.333 165 11 0 1 165 1 165 2.15e-103 306
MS.gene64772.t1 MTR_2g040500 52.344 128 40 4 1 116 1 119 3.07e-29 112
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 42 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAAATTTCCAAGTGTAAA+TGG 0.209870 5.2:+13265731 None:intergenic
TGATTGAATGTGGGAGTAAT+TGG 0.283028 5.2:-13265514 MS.gene64772:CDS
TTTCAGTGCCTGCATAATTC+AGG 0.301475 5.2:-13265431 MS.gene64772:CDS
CGTCCTTTATAGCCTGGTTA+TGG 0.318628 5.2:+13265477 None:intergenic
TAGCATAAACGAGGTACTTC+TGG 0.349729 5.2:-13265345 MS.gene64772:CDS
GAGACAACGGCCGCACCAAC+TGG 0.363393 5.2:+13265545 None:intergenic
CACGGTATCCGCGGAGGTAA+AGG 0.384992 5.2:-13265573 MS.gene64772:CDS
GATAACCGTGTTGAAGCTTA+TGG 0.387775 5.2:-13265675 MS.gene64772:CDS
ACTTGGAAATTTGATTCAAA+AGG 0.416275 5.2:-13265723 MS.gene64772:CDS
AAGCCATAACCAGGCTATAA+AGG 0.423467 5.2:-13265480 MS.gene64772:CDS
TTGATATTAAATCCTGCAGT+TGG 0.427928 5.2:-13265635 MS.gene64772:CDS
CTTGAAGATATTTCTTCCAT+TGG 0.442941 5.2:+13265764 None:intergenic
AGATTCACCAATCATCGTTA+AGG 0.450055 5.2:-13265393 MS.gene64772:CDS
TGCTGCTGTTACAACTCATA+TGG 0.453647 5.2:-13265699 MS.gene64772:CDS
TCACCAACCTTAACGATGAT+TGG 0.459136 5.2:+13265386 None:intergenic
AGTTGGTGCGGCCGTTGTCT+CGG 0.466997 5.2:-13265543 MS.gene64772:CDS
AAGGTTGGTGATGAGATTCA+TGG 0.470185 5.2:-13265374 MS.gene64772:CDS
TCTCATCGTCCTTTATAGCC+TGG 0.499525 5.2:+13265471 None:intergenic
CGAGGTACTTCTGGTACTAA+AGG 0.500088 5.2:-13265336 MS.gene64772:CDS
ACTAAAGGCCGAGCAGAATA+CGG 0.501113 5.2:-13265321 MS.gene64772:CDS
ATTGAGAGCCTGAATTATGC+AGG 0.559602 5.2:+13265423 None:intergenic
AACAGAATCCGTATTCTGCT+CGG 0.560508 5.2:+13265313 None:intergenic
TCACCAATCATCGTTAAGGT+TGG 0.561708 5.2:-13265389 MS.gene64772:CDS
GTTGCAGTGCCATTTACACT+TGG 0.572388 5.2:-13265740 MS.gene64772:CDS
GAGGTAAAGGAGAATCCAGT+TGG 0.575816 5.2:-13265560 MS.gene64772:CDS
CTGTTGCAATGGATATTGAG+AGG 0.582351 5.2:-13265295 MS.gene64772:CDS
CTTGAGTGAAAGCCATAACC+AGG 0.583606 5.2:-13265489 MS.gene64772:CDS
GAATACGGATTCTGTTGCAA+TGG 0.586777 5.2:-13265306 MS.gene64772:CDS
TGTTGCAATGGATATTGAGA+GGG 0.588381 5.2:-13265294 MS.gene64772:CDS
TCGGAAATGTTGATTGAATG+TGG 0.599725 5.2:-13265524 MS.gene64772:CDS
CGATGAGATCATGTTAGCTG+TGG 0.601298 5.2:-13265456 MS.gene64772:CDS
TAATTCAGGCTCTCAATCTG+TGG 0.624297 5.2:-13265417 MS.gene64772:CDS
AATCAACATTTCCGAGACAA+CGG 0.634725 5.2:+13265532 None:intergenic
CGGAAATGTTGATTGAATGT+GGG 0.636981 5.2:-13265523 MS.gene64772:CDS
GTTGAAGACTAACATCAGCA+TGG 0.646810 5.2:+13265603 None:intergenic
AAAGGAGAATCCAGTTGGTG+CGG 0.646998 5.2:-13265555 MS.gene64772:CDS
TCAGATCACGGTATCCGCGG+AGG 0.649352 5.2:-13265579 MS.gene64772:CDS
ACATCAGATCACGGTATCCG+CGG 0.656186 5.2:-13265582 MS.gene64772:CDS
TGGATTCTCCTTTACCTCCG+CGG 0.668967 5.2:+13265565 None:intergenic
TAGTCTTCAACATCAGATCA+CGG 0.669945 5.2:-13265591 MS.gene64772:CDS
ATTTGCCATAAGCTTCAACA+CGG 0.678796 5.2:+13265670 None:intergenic
TGGTAAGTTTAGCATAAACG+AGG 0.709809 5.2:-13265354 MS.gene64772:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACTTGGAAATTTGATTCAAA+AGG - chr5.2:13265324-13265343 MS.gene64772:CDS 25.0%
! ATCAAATTTCCAAGTGTAAA+TGG + chr5.2:13265319-13265338 None:intergenic 25.0%
TTGATATTAAATCCTGCAGT+TGG - chr5.2:13265412-13265431 MS.gene64772:CDS 30.0%
AATCAACATTTCCGAGACAA+CGG + chr5.2:13265518-13265537 None:intergenic 35.0%
AGATTCACCAATCATCGTTA+AGG - chr5.2:13265654-13265673 MS.gene64772:CDS 35.0%
ATTTGCCATAAGCTTCAACA+CGG + chr5.2:13265380-13265399 None:intergenic 35.0%
TAGTCTTCAACATCAGATCA+CGG - chr5.2:13265456-13265475 MS.gene64772:CDS 35.0%
TGATTGAATGTGGGAGTAAT+TGG - chr5.2:13265533-13265552 MS.gene64772:CDS 35.0%
TGGTAAGTTTAGCATAAACG+AGG - chr5.2:13265693-13265712 MS.gene64772:CDS 35.0%
TGTTGCAATGGATATTGAGA+GGG - chr5.2:13265753-13265772 MS.gene64772:CDS 35.0%
! CGGAAATGTTGATTGAATGT+GGG - chr5.2:13265524-13265543 MS.gene64772:CDS 35.0%
! TCGGAAATGTTGATTGAATG+TGG - chr5.2:13265523-13265542 MS.gene64772:CDS 35.0%
AACAGAATCCGTATTCTGCT+CGG + chr5.2:13265737-13265756 None:intergenic 40.0%
AAGCCATAACCAGGCTATAA+AGG - chr5.2:13265567-13265586 MS.gene64772:CDS 40.0%
ATTGAGAGCCTGAATTATGC+AGG + chr5.2:13265627-13265646 None:intergenic 40.0%
CTGTTGCAATGGATATTGAG+AGG - chr5.2:13265752-13265771 MS.gene64772:CDS 40.0%
GAATACGGATTCTGTTGCAA+TGG - chr5.2:13265741-13265760 MS.gene64772:CDS 40.0%
GATAACCGTGTTGAAGCTTA+TGG - chr5.2:13265372-13265391 MS.gene64772:CDS 40.0%
GTTGAAGACTAACATCAGCA+TGG + chr5.2:13265447-13265466 None:intergenic 40.0%
TAATTCAGGCTCTCAATCTG+TGG - chr5.2:13265630-13265649 MS.gene64772:CDS 40.0%
TCACCAACCTTAACGATGAT+TGG + chr5.2:13265664-13265683 None:intergenic 40.0%
TCACCAATCATCGTTAAGGT+TGG - chr5.2:13265658-13265677 MS.gene64772:CDS 40.0%
TGCTGCTGTTACAACTCATA+TGG - chr5.2:13265348-13265367 MS.gene64772:CDS 40.0%
TTTCAGTGCCTGCATAATTC+AGG - chr5.2:13265616-13265635 MS.gene64772:CDS 40.0%
! TAGCATAAACGAGGTACTTC+TGG - chr5.2:13265702-13265721 MS.gene64772:CDS 40.0%
! TGGTTTTCATTTCCAACTGC+AGG + chr5.2:13265427-13265446 None:intergenic 40.0%
!! AAGGTTGGTGATGAGATTCA+TGG - chr5.2:13265673-13265692 MS.gene64772:CDS 40.0%
ACTAAAGGCCGAGCAGAATA+CGG - chr5.2:13265726-13265745 MS.gene64772:CDS 45.0%
CGATGAGATCATGTTAGCTG+TGG - chr5.2:13265591-13265610 MS.gene64772:CDS 45.0%
CGTCCTTTATAGCCTGGTTA+TGG + chr5.2:13265573-13265592 None:intergenic 45.0%
CTTGAGTGAAAGCCATAACC+AGG - chr5.2:13265558-13265577 MS.gene64772:CDS 45.0%
GAGGTAAAGGAGAATCCAGT+TGG - chr5.2:13265487-13265506 MS.gene64772:CDS 45.0%
TCTCATCGTCCTTTATAGCC+TGG + chr5.2:13265579-13265598 None:intergenic 45.0%
! AAAGGAGAATCCAGTTGGTG+CGG - chr5.2:13265492-13265511 MS.gene64772:CDS 45.0%
! CGAGGTACTTCTGGTACTAA+AGG - chr5.2:13265711-13265730 MS.gene64772:CDS 45.0%
!! GTTGCAGTGCCATTTACACT+TGG - chr5.2:13265307-13265326 MS.gene64772:CDS 45.0%
ACATCAGATCACGGTATCCG+CGG - chr5.2:13265465-13265484 MS.gene64772:CDS 50.0%
TGGATTCTCCTTTACCTCCG+CGG + chr5.2:13265485-13265504 None:intergenic 50.0%
CACGGTATCCGCGGAGGTAA+AGG - chr5.2:13265474-13265493 MS.gene64772:CDS 60.0%
TCAGATCACGGTATCCGCGG+AGG - chr5.2:13265468-13265487 MS.gene64772:CDS 60.0%
! AGTTGGTGCGGCCGTTGTCT+CGG - chr5.2:13265504-13265523 MS.gene64772:CDS 60.0%
GAGACAACGGCCGCACCAAC+TGG + chr5.2:13265505-13265524 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 13265286 13265783 13265286 ID=MS.gene64772
chr5.2 mRNA 13265286 13265783 13265286 ID=MS.gene64772.t1;Parent=MS.gene64772
chr5.2 exon 13265286 13265783 13265286 ID=MS.gene64772.t1.exon1;Parent=MS.gene64772.t1
chr5.2 CDS 13265286 13265783 13265286 ID=cds.MS.gene64772.t1;Parent=MS.gene64772.t1
Gene Sequence

>MS.gene64772

ATGGAAGAAATATCTTCAAGTGTTGCAGTGCCATTTACACTTGGAAATTTGATTCAAAAGGATGCTGCTGTTACAACTCATATGGAGATAACCGTGTTGAAGCTTATGGCAAATACTGCTGCTGCTTTGATATTAAATCCTGCAGTTGGAAATGAAAACCATGCTGATGTTAGTCTTCAACATCAGATCACGGTATCCGCGGAGGTAAAGGAGAATCCAGTTGGTGCGGCCGTTGTCTCGGAAATGTTGATTGAATGTGGGAGTAATTGGATCTTGAGTGAAAGCCATAACCAGGCTATAAAGGACGATGAGATCATGTTAGCTGTGGATTTTCAGTGCCTGCATAATTCAGGCTCTCAATCTGTGGCAGATTCACCAATCATCGTTAAGGTTGGTGATGAGATTCATGGTAAGTTTAGCATAAACGAGGTACTTCTGGTACTAAAGGCCGAGCAGAATACGGATTCTGTTGCAATGGATATTGAGAGGGAAAATTGA

Protein sequence

>MS.gene64772.t1

MEEISSSVAVPFTLGNLIQKDAAVTTHMEITVLKLMANTAAALILNPAVGNENHADVSLQHQITVSAEVKENPVGAAVVSEMLIECGSNWILSESHNQAIKDDEIMLAVDFQCLHNSGSQSVADSPIIVKVGDEIHGKFSINEVLLVLKAEQNTDSVAMDIEREN