AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051610

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051610.t1 MTR_1g016200 53.571 112 35 5 9 112 2 104 2.72e-23 87.4
MS.gene051610.t1 MTR_1g016170 43.158 95 45 2 27 112 140 234 1.24e-14 68.9
MS.gene051610.t1 MTR_7g112330 44.068 59 33 0 68 126 22 80 2.56e-11 57.4
MS.gene051610.t1 MTR_2g038720 75.000 32 8 0 66 97 162 193 9.69e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051610.t1 AT4G36620 52.000 50 24 0 68 117 75 124 6.20e-12 60.5
MS.gene051610.t1 AT5G26930 58.974 39 16 0 64 102 22 60 9.75e-12 58.2
MS.gene051610.t1 AT2G18380 54.000 50 23 0 68 117 92 141 3.05e-11 58.5

Find 23 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAGTGTCAAGAGACTTAT+TGG 0.157774 1.3:-5971718 None:intergenic
TTCTTCTTTGTGGCTGGAAC+TGG 0.239072 1.3:-5971241 None:intergenic
AGTATTCGCCATTGCCCTTT+TGG 0.253039 1.3:-5971352 None:intergenic
AAGTCTCTTGACACTGAAAA+AGG 0.334844 1.3:+5971723 MS.gene051610:CDS
GAATACTATATCCAAGGAAT+TGG 0.396437 1.3:+5971368 MS.gene051610:CDS
ATACGAACACTACTCCTCTT+TGG 0.428715 1.3:+5971440 MS.gene051610:CDS
TTGCCTCTTCCCTTCTTCGT+CGG 0.477939 1.3:-5971692 None:intergenic
ACCGAATACGAATACCCAAA+AGG 0.493067 1.3:+5971337 MS.gene051610:CDS
TCTTTGGCGGAGTGATCCTA+CGG 0.514022 1.3:+5971456 MS.gene051610:CDS
GGAGGGCTGAACCAATTCCT+TGG 0.517307 1.3:-5971379 None:intergenic
CCGAATACGAATACCCAAAA+GGG 0.528839 1.3:+5971338 MS.gene051610:CDS
ATGTGGACTCCGACGAAGAA+GGG 0.540307 1.3:+5971683 MS.gene051610:CDS
CATGTGGACTCCGACGAAGA+AGG 0.573346 1.3:+5971682 MS.gene051610:CDS
GAGTGATCCTACGGGTTCCA+AGG 0.577987 1.3:+5971465 MS.gene051610:CDS
CGAACACTACTCCTCTTTGG+CGG 0.584168 1.3:+5971443 MS.gene051610:CDS
CTTTGGCGGAGTGATCCTAC+GGG 0.586116 1.3:+5971457 MS.gene051610:CDS
ACTCCGACGAAGAAGGGAAG+AGG 0.589069 1.3:+5971689 MS.gene051610:CDS
CAGTCGTTGTGCAATGCATG+TGG 0.610062 1.3:+5971666 MS.gene051610:intron
ACGAATACCCAAAAGGGCAA+TGG 0.610371 1.3:+5971344 MS.gene051610:CDS
AATGGCGAATACTATATCCA+AGG 0.653439 1.3:+5971362 MS.gene051610:CDS
ATCGCAATCGAAACAAACCC+TGG 0.664892 1.3:-5971419 None:intergenic
GTAATTACCTTGGAACCCGT+AGG 0.686052 1.3:-5971472 None:intergenic
GTAGGATCACTCCGCCAAAG+AGG 0.691241 1.3:-5971454 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATTTGATAGTAAATAAGT+TGG - chr1.3:5971514-5971533 None:intergenic 15.0%
!!! AATTTGATAGTAAATAAGTT+GGG - chr1.3:5971513-5971532 None:intergenic 15.0%
!!! ATTCTATACTTTTTTTTTGT+TGG + chr1.3:5971559-5971578 MS.gene051610:intron 15.0%
!! ATAGTTAACAAGAAATATGT+TGG + chr1.3:5971641-5971660 MS.gene051610:intron 20.0%
!!! AGCAGTTTTTATTTTCTTTT+TGG - chr1.3:5971317-5971336 None:intergenic 20.0%
!!! ATTTGATAGTAAATAAGTTG+GGG - chr1.3:5971512-5971531 None:intergenic 20.0%
GAATACTATATCCAAGGAAT+TGG + chr1.3:5971368-5971387 MS.gene051610:CDS 30.0%
GAGAGATTAAGTAATTACCT+TGG - chr1.3:5971485-5971504 None:intergenic 30.0%
!! AGCAACTGATTTCTTCTTTT+TGG - chr1.3:5971287-5971306 None:intergenic 30.0%
!!! AGCAGTTTTTTTCTTCTTTG+TGG - chr1.3:5971254-5971273 None:intergenic 30.0%
AAGTCTCTTGACACTGAAAA+AGG + chr1.3:5971723-5971742 MS.gene051610:CDS 35.0%
AATGGCGAATACTATATCCA+AGG + chr1.3:5971362-5971381 MS.gene051610:CDS 35.0%
ACTGAAAAAGGAAAGGGAAA+CGG + chr1.3:5971735-5971754 MS.gene051610:CDS 35.0%
CTTGACACTGAAAAAGGAAA+GGG + chr1.3:5971729-5971748 MS.gene051610:CDS 35.0%
TCCTAGTAAAAACACAACCA+GGG + chr1.3:5971402-5971421 MS.gene051610:CDS 35.0%
TCTTGACACTGAAAAAGGAA+AGG + chr1.3:5971728-5971747 MS.gene051610:CDS 35.0%
TTCAGTGTCAAGAGACTTAT+TGG - chr1.3:5971721-5971740 None:intergenic 35.0%
!! TTGTGTTTTTACTAGGAGGA+GGG - chr1.3:5971399-5971418 None:intergenic 35.0%
!!! GTTTTTTTCTTCTTTGTGGC+TGG - chr1.3:5971250-5971269 None:intergenic 35.0%
ACCGAATACGAATACCCAAA+AGG + chr1.3:5971337-5971356 MS.gene051610:CDS 40.0%
ATACGAACACTACTCCTCTT+TGG + chr1.3:5971440-5971459 MS.gene051610:CDS 40.0%
CCGAATACGAATACCCAAAA+GGG + chr1.3:5971338-5971357 MS.gene051610:CDS 40.0%
CTCCTAGTAAAAACACAACC+AGG + chr1.3:5971401-5971420 MS.gene051610:CDS 40.0%
!! ACCCTGGTTGTGTTTTTACT+AGG - chr1.3:5971406-5971425 None:intergenic 40.0%
!! CCCTTTTGGGTATTCGTATT+CGG - chr1.3:5971341-5971360 None:intergenic 40.0%
!! CTGGTTGTGTTTTTACTAGG+AGG - chr1.3:5971403-5971422 None:intergenic 40.0%
!! GTTGTGTTTTTACTAGGAGG+AGG - chr1.3:5971400-5971419 None:intergenic 40.0%
ACGAATACCCAAAAGGGCAA+TGG + chr1.3:5971344-5971363 MS.gene051610:CDS 45.0%
ATCGCAATCGAAACAAACCC+TGG - chr1.3:5971422-5971441 None:intergenic 45.0%
GTAATTACCTTGGAACCCGT+AGG - chr1.3:5971475-5971494 None:intergenic 45.0%
TTCTTCTTTGTGGCTGGAAC+TGG - chr1.3:5971244-5971263 None:intergenic 45.0%
! AGTATTCGCCATTGCCCTTT+TGG - chr1.3:5971355-5971374 None:intergenic 45.0%
! GTATTCGCCATTGCCCTTTT+GGG - chr1.3:5971354-5971373 None:intergenic 45.0%
ATGTGGACTCCGACGAAGAA+GGG + chr1.3:5971683-5971702 MS.gene051610:CDS 50.0%
CAGTCGTTGTGCAATGCATG+TGG + chr1.3:5971666-5971685 MS.gene051610:intron 50.0%
CGAACACTACTCCTCTTTGG+CGG + chr1.3:5971443-5971462 MS.gene051610:CDS 50.0%
TCTTTGGCGGAGTGATCCTA+CGG + chr1.3:5971456-5971475 MS.gene051610:CDS 50.0%
TTGCCTCTTCCCTTCTTCGT+CGG - chr1.3:5971695-5971714 None:intergenic 50.0%
ACTCCGACGAAGAAGGGAAG+AGG + chr1.3:5971689-5971708 MS.gene051610:CDS 55.0%
CATGTGGACTCCGACGAAGA+AGG + chr1.3:5971682-5971701 MS.gene051610:CDS 55.0%
CTTTGGCGGAGTGATCCTAC+GGG + chr1.3:5971457-5971476 MS.gene051610:CDS 55.0%
GAGTGATCCTACGGGTTCCA+AGG + chr1.3:5971465-5971484 MS.gene051610:CDS 55.0%
GGAGGGCTGAACCAATTCCT+TGG - chr1.3:5971382-5971401 None:intergenic 55.0%
GTAGGATCACTCCGCCAAAG+AGG - chr1.3:5971457-5971476 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 5971220 5971794 5971220 ID=MS.gene051610
chr1.3 mRNA 5971220 5971794 5971220 ID=MS.gene051610.t1;Parent=MS.gene051610
chr1.3 exon 5971220 5971486 5971220 ID=MS.gene051610.t1.exon1;Parent=MS.gene051610.t1
chr1.3 CDS 5971220 5971486 5971220 ID=cds.MS.gene051610.t1;Parent=MS.gene051610.t1
chr1.3 exon 5971669 5971794 5971669 ID=MS.gene051610.t1.exon2;Parent=MS.gene051610.t1
chr1.3 CDS 5971669 5971794 5971669 ID=cds.MS.gene051610.t1;Parent=MS.gene051610.t1
Gene Sequence

>MS.gene051610

ATGAGAGTAAGTAACGATGATCCAGTTCCAGCCACAAAGAAGAAAAAAACTGCTGCTAGTGCTGCCAAAAAGAAGAAATCAGTTGCTAGTGCTTCCAAAAAGAAAATAAAAACTGCTACCGAATACGAATACCCAAAAGGGCAATGGCGAATACTATATCCAAGGAATTGGTTCAGCCCTCCTCCTAGTAAAAACACAACCAGGGTTTGTTTCGATTGCGATACGAACACTACTCCTCTTTGGCGGAGTGATCCTACGGGTTCCAAGGTAATTACTTAATCTCTCTGCTCCCCAACTTATTTACTATCAAATTTCACTTTTAGTTCATGCAAAAGTGTTATTCTATACTTTTTTTTTGTTGGTATAGAGTGTTATTCTATACTTATATATTGATTAATTATTTGAATATCTAGTTATATATATAGTTAACAAGAAATATGTTGGTGCAGTCGTTGTGCAATGCATGTGGACTCCGACGAAGAAGGGAAGAGGCAAAAGCCAATAAGTCTCTTGACACTGAAAAAGGAAAGGGAAACGGCGAAAGCTCATCATCTGAGAATGTGAAGAAGTTTTAA
Protein sequence

>MS.gene051610.t1

MRVSNDDPVPATKKKKTAASAAKKKKSVASASKKKIKTATEYEYPKGQWRILYPRNWFSPPPSKNTTRVCFDCDTNTTPLWRSDPTGSKSLCNACGLRRRREEAKANKSLDTEKGKGNGESSSSENVKKF