AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene05952


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05952.t1 MTR_8g102755 89.855 207 21 0 1 207 1 207 2.38e-140 390
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 31 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAATGATATTGAAATGAATT+TGG 0.220117 4.3:-2601215 MS.gene05952:CDS
AAGACAGAAACAAAGAAATT+TGG 0.303541 4.3:-2601601 MS.gene05952:CDS
ATTGAAGATGATGCTACTTT+TGG 0.318948 4.3:-2601656 MS.gene05952:CDS
CAAAGCTTTCATGATGAAAA+TGG 0.325691 4.3:-2601334 MS.gene05952:CDS
CAGGTTTGCAATCAAGAAAT+AGG 0.331402 4.3:-2601123 MS.gene05952:CDS
ACTGTTCATGTTGATACTTC+AGG 0.350166 4.3:-2601142 MS.gene05952:CDS
ATTCAAATCAAGCTTGTTGC+TGG 0.398775 4.3:-2601577 MS.gene05952:CDS
ATCTATTACACCATTATTTG+CGG 0.399079 4.3:+2601363 None:intergenic
GGATGTGGACATAAATTGTT+TGG 0.414508 4.3:-2601556 MS.gene05952:CDS
GAATCTACCTTTCCTGAGTC+AGG 0.424703 4.3:+2601493 None:intergenic
AAAAGGGTCTAACGTAAAAC+AGG 0.453639 4.3:-2601680 MS.gene05952:CDS
ATCAAGCTTGTTGCTGGATG+TGG 0.461106 4.3:-2601571 MS.gene05952:CDS
GTGGAGAGTGCCGCAAATAA+TGG 0.466076 4.3:-2601373 MS.gene05952:CDS
AGAATGGAGTATCAATCTCT+TGG 0.471194 4.3:-2601718 MS.gene05952:CDS
CATAAATTGTTTGGACGGAA+AGG 0.490271 4.3:-2601547 MS.gene05952:CDS
GATATTGAAATGAATTTGGA+AGG 0.502773 4.3:-2601211 MS.gene05952:CDS
TCAGGAAAAGCTCTTTCATC+GGG 0.511579 4.3:+2601511 None:intergenic
ATAAATTGTTTGGACGGAAA+GGG 0.528425 4.3:-2601546 MS.gene05952:CDS
GTCAGGAAAAGCTCTTTCAT+CGG 0.531583 4.3:+2601510 None:intergenic
AGTATTTATGAAGTCACGTA+TGG 0.536293 4.3:-2601244 MS.gene05952:CDS
TCAGGAAAGGTAGATTCTGT+TGG 0.537763 4.3:-2601487 MS.gene05952:CDS
GTAGACGAAGAAATTAATAC+AGG 0.538396 4.3:-2601169 MS.gene05952:CDS
GTGGACATAAATTGTTTGGA+CGG 0.566125 4.3:-2601552 MS.gene05952:CDS
TGGAGTATCAATCTCTTGGA+AGG 0.588423 4.3:-2601714 MS.gene05952:CDS
ACAACTTGGAGTTGAAGAGA+AGG 0.600247 4.3:-2601419 MS.gene05952:CDS
CAACTTGGAGTTGAAGAGAA+GGG 0.601023 4.3:-2601418 MS.gene05952:CDS
CTTGATTTGATATAACAACC+AGG 0.620765 4.3:+2601624 None:intergenic
GTTTGCAATCAAGAAATAGG+TGG 0.639196 4.3:-2601120 MS.gene05952:CDS
AAATAATGGTGTAATAGATG+AGG 0.639630 4.3:-2601359 MS.gene05952:CDS
GAAAATGGTGTTCCGCCTGA+CGG 0.653575 4.3:-2601319 MS.gene05952:CDS
AATGGTGTTCCGCCTGACGG+TGG 0.691121 4.3:-2601316 MS.gene05952:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATGATATTGAAATGAATT+TGG - chr4.3:2601614-2601633 MS.gene05952:CDS 15.0%
!!! CAACTTTTAGAATAGTAAAT+TGG - chr4.3:2601550-2601569 MS.gene05952:CDS 20.0%
! AAATAATGGTGTAATAGATG+AGG - chr4.3:2601470-2601489 MS.gene05952:CDS 25.0%
! AAGACAGAAACAAAGAAATT+TGG - chr4.3:2601228-2601247 MS.gene05952:CDS 25.0%
! ATCTATTACACCATTATTTG+CGG + chr4.3:2601469-2601488 None:intergenic 25.0%
! GATATTGAAATGAATTTGGA+AGG - chr4.3:2601618-2601637 MS.gene05952:CDS 25.0%
!! AAAGAAAAAGAAGTACAACT+TGG - chr4.3:2601396-2601415 MS.gene05952:CDS 25.0%
AAACAAGATGCAGAAAAATG+AGG - chr4.3:2601434-2601453 MS.gene05952:CDS 30.0%
AGTATTTATGAAGTCACGTA+TGG - chr4.3:2601585-2601604 MS.gene05952:CDS 30.0%
ATAAATTGTTTGGACGGAAA+GGG - chr4.3:2601283-2601302 MS.gene05952:CDS 30.0%
CAAAGCTTTCATGATGAAAA+TGG - chr4.3:2601495-2601514 MS.gene05952:CDS 30.0%
GTAGACGAAGAAATTAATAC+AGG - chr4.3:2601660-2601679 MS.gene05952:CDS 30.0%
! CATTTTCATCATGAAAGCTT+TGG + chr4.3:2601497-2601516 None:intergenic 30.0%
! CTTGATTTGATATAACAACC+AGG + chr4.3:2601208-2601227 None:intergenic 30.0%
!!! ATTGAAGATGATGCTACTTT+TGG - chr4.3:2601173-2601192 MS.gene05952:CDS 30.0%
AAAAGGGTCTAACGTAAAAC+AGG - chr4.3:2601149-2601168 MS.gene05952:CDS 35.0%
ACTGTTCATGTTGATACTTC+AGG - chr4.3:2601687-2601706 MS.gene05952:CDS 35.0%
CAGGTTTGCAATCAAGAAAT+AGG - chr4.3:2601706-2601725 MS.gene05952:CDS 35.0%
CATAAATTGTTTGGACGGAA+AGG - chr4.3:2601282-2601301 MS.gene05952:CDS 35.0%
GGATGTGGACATAAATTGTT+TGG - chr4.3:2601273-2601292 MS.gene05952:CDS 35.0%
GTGGACATAAATTGTTTGGA+CGG - chr4.3:2601277-2601296 MS.gene05952:CDS 35.0%
GTTTGCAATCAAGAAATAGG+TGG - chr4.3:2601709-2601728 MS.gene05952:CDS 35.0%
! TGTTTTACGTTAGACCCTTT+TGG + chr4.3:2601150-2601169 None:intergenic 35.0%
!! ATTCAAATCAAGCTTGTTGC+TGG - chr4.3:2601252-2601271 MS.gene05952:CDS 35.0%
!! GAAGGTACCAAAAACCAAAA+GGG - chr4.3:2601133-2601152 MS.gene05952:CDS 35.0%
ACAACTTGGAGTTGAAGAGA+AGG - chr4.3:2601410-2601429 MS.gene05952:CDS 40.0%
CAACTTGGAGTTGAAGAGAA+GGG - chr4.3:2601411-2601430 MS.gene05952:CDS 40.0%
CAAGATGCAGAAAAATGAGG+TGG - chr4.3:2601437-2601456 MS.gene05952:CDS 40.0%
GTCAGGAAAAGCTCTTTCAT+CGG + chr4.3:2601322-2601341 None:intergenic 40.0%
TCAGGAAAAGCTCTTTCATC+GGG + chr4.3:2601321-2601340 None:intergenic 40.0%
TCAGGAAAGGTAGATTCTGT+TGG - chr4.3:2601342-2601361 MS.gene05952:CDS 40.0%
! TGGAGTATCAATCTCTTGGA+AGG - chr4.3:2601115-2601134 MS.gene05952:CDS 40.0%
!! GGAAGGTACCAAAAACCAAA+AGG - chr4.3:2601132-2601151 MS.gene05952:CDS 40.0%
!!! CGTTAGACCCTTTTGGTTTT+TGG + chr4.3:2601143-2601162 None:intergenic 40.0%
GAATCTACCTTTCCTGAGTC+AGG + chr4.3:2601339-2601358 None:intergenic 45.0%
! AGCTTTTCCTGACTCAGGAA+AGG - chr4.3:2601329-2601348 MS.gene05952:CDS 45.0%
! ATGTTTTCTTCACCACCGTC+AGG + chr4.3:2601528-2601547 None:intergenic 45.0%
! GAAAGAGCTTTTCCTGACTC+AGG - chr4.3:2601324-2601343 MS.gene05952:CDS 45.0%
!! ATCAAGCTTGTTGCTGGATG+TGG - chr4.3:2601258-2601277 MS.gene05952:CDS 45.0%
!! TACTTTTGGCTGTTTGTGCC+TGG - chr4.3:2601187-2601206 MS.gene05952:CDS 45.0%
GAAAATGGTGTTCCGCCTGA+CGG - chr4.3:2601510-2601529 MS.gene05952:CDS 50.0%
! TTTTCTTCACCACCGTCAGG+CGG + chr4.3:2601525-2601544 None:intergenic 50.0%
!! GTGGAGAGTGCCGCAAATAA+TGG - chr4.3:2601456-2601475 MS.gene05952:CDS 50.0%
AATGGTGTTCCGCCTGACGG+TGG - chr4.3:2601513-2601532 MS.gene05952:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 2601114 2601737 2601114 ID=MS.gene05952
chr4.3 mRNA 2601114 2601737 2601114 ID=MS.gene05952.t1;Parent=MS.gene05952
chr4.3 exon 2601114 2601737 2601114 ID=MS.gene05952.t1.exon1;Parent=MS.gene05952.t1
chr4.3 CDS 2601114 2601737 2601114 ID=cds.MS.gene05952.t1;Parent=MS.gene05952.t1
Gene Sequence

>MS.gene05952

ATGGAGTATCAATCTCTTGGAAGGTACCAAAAACCAAAAGGGTCTAACGTAAAACAGGTATTGAAGATGATGCTACTTTTGGCTGTTTGTGCCTGGTTGTTATATCAAATCAAGAAGACAGAAACAAAGAAATTTGGTATTCAAATCAAGCTTGTTGCTGGATGTGGACATAAATTGTTTGGACGGAAAGGGATGCTATCACGTCCCGATGAAAGAGCTTTTCCTGACTCAGGAAAGGTAGATTCTGTTGGAGAAGTAACAAATGAGTTTAAAAGTAATGACAAAGAAAAAGAAGTACAACTTGGAGTTGAAGAGAAGGGAAACAAGATGCAGAAAAATGAGGTGGAGAGTGCCGCAAATAATGGTGTAATAGATGAGGTCCAAAGCTTTCATGATGAAAATGGTGTTCCGCCTGACGGTGGTGAAGAAAACATGTCAACTTTTAGAATAGTAAATTGGCTTAAAAAGATCAGTATTTATGAAGTCACGTATGGAGAAGATAATGATATTGAAATGAATTTGGAAGGAACGACGAATGCTACAACAGTAGACGAAGAAATTAATACAGGAACTACTGTTCATGTTGATACTTCAGGTTTGCAATCAAGAAATAGGTGGAGATAA

Protein sequence

>MS.gene05952.t1

MEYQSLGRYQKPKGSNVKQVLKMMLLLAVCAWLLYQIKKTETKKFGIQIKLVAGCGHKLFGRKGMLSRPDERAFPDSGKVDSVGEVTNEFKSNDKEKEVQLGVEEKGNKMQKNEVESAANNGVIDEVQSFHDENGVPPDGGEENMSTFRIVNWLKKISIYEVTYGEDNDIEMNLEGTTNATTVDEEINTGTTVHVDTSGLQSRNRWR