AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene20861

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20861.t1 MTR_1g086950 97.973 296 6 0 1 296 1 296 0.0 590
MS.gene20861.t1 MTR_7g109590 52.090 311 121 7 1 295 1 299 7.97e-90 270
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20861.t1 AT2G47360 42.128 235 101 6 63 278 63 281 3.31e-49 166
MS.gene20861.t1 AT1G02570 38.136 236 130 5 64 296 56 278 7.88e-43 148
MS.gene20861.t1 AT1G02575 37.245 196 103 8 75 267 67 245 1.92e-30 115

Find 76 sgRNAs with CRISPR-Local

Find 79 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAGAGGAAGTTGAGAATTT+AGG 0.190418 1.3:+61547605 MS.gene20861:CDS
TACATGAAACAACACAAATT+TGG 0.272884 1.3:+61547459 MS.gene20861:CDS
TTTCAAATATGTGTTGGTTT+AGG 0.275769 1.3:+61547317 MS.gene20861:CDS
ATAGTTGAAGAAGAAATCTT+TGG 0.285743 1.3:-61546967 None:intergenic
ATGGATTTGAAGGTAGAATT+TGG 0.286827 1.3:-61547093 None:intergenic
GACGATGGTTCTAGTAGTTT+TGG 0.302357 1.3:+61547392 MS.gene20861:CDS
AGTTGAGAATTTAGGTGTTA+TGG 0.309415 1.3:+61547613 MS.gene20861:CDS
TACTTTGATCAATGGTTTGA+TGG 0.354298 1.3:+61547205 MS.gene20861:CDS
GCTAAGAGAAGAAAAGATAG+AGG 0.357745 1.3:-61547056 None:intergenic
GTCTTTACATGTCATGGAAA+TGG 0.358547 1.3:+61547279 MS.gene20861:CDS
ACAGATTCATGAGGTGGAAT+TGG 0.362616 1.3:+61547787 MS.gene20861:CDS
GAGATTATGGATTGAGAAAG+TGG 0.371004 1.3:+61547541 MS.gene20861:CDS
CTTCTCTTAGCTAGTCTCTC+TGG 0.372938 1.3:+61547068 MS.gene20861:CDS
GTGGTTGTGGCAGGTAGTTT+AGG 0.376947 1.3:+61547560 MS.gene20861:CDS
ATGACATGTAAAGACGAGTT+TGG 0.390360 1.3:-61547271 None:intergenic
GGTATGGTGAGGATTGTTAA+AGG 0.394274 1.3:+61547719 MS.gene20861:CDS
AAAAGAGAAAAGATAAGGTA+AGG 0.399838 1.3:-61547126 None:intergenic
AGGAGGTGGAAGATCCTTGC+AGG 0.405724 1.3:-61547005 None:intergenic
AAGGTAAGGGTTGTTGTGAA+TGG 0.409710 1.3:-61547112 None:intergenic
AGTGTAGCTACTTTGATCAA+TGG 0.424175 1.3:+61547197 MS.gene20861:CDS
AGTTTGGAGAAGAATAGAAT+TGG 0.429200 1.3:-61547255 None:intergenic
GAAAAGATAGAGGGAGGAGA+AGG 0.430845 1.3:-61547046 None:intergenic
AAGCAGAATGATATTTCTGT+TGG 0.438907 1.3:+61547433 MS.gene20861:CDS
GTGGGAATAGAAGAATTTGT+TGG 0.445922 1.3:+61547665 MS.gene20861:CDS
TGATTTCTCTATGTAGAAGA+AGG 0.454333 1.3:+61547759 MS.gene20861:CDS
TATTATCTAACTGTCACAAT+TGG 0.461048 1.3:+61547698 MS.gene20861:CDS
GGATTGTTAAAGGTCTTATG+TGG 0.482472 1.3:+61547729 MS.gene20861:CDS
AATTGGATGAATCATTCATA+AGG 0.483645 1.3:-61547238 None:intergenic
AACAAAGAAAGATGAAATGA+TGG 0.484417 1.3:+61547640 MS.gene20861:CDS
AAAAGATAGAGGGAGGAGAA+GGG 0.494482 1.3:-61547045 None:intergenic
GTTGTTGTGAATGGATTTGA+AGG 0.496977 1.3:-61547103 None:intergenic
GTTTAGGAACATTGTGGTGG+TGG 0.497414 1.3:+61547576 MS.gene20861:CDS
ATGGATTGAGAAAGTGGTTG+TGG 0.498685 1.3:+61547547 MS.gene20861:CDS
TCATTCTACACAAAATGGAT+TGG 0.502402 1.3:+61546934 None:intergenic
GAAAGATGAAATGATGGAGG+TGG 0.504281 1.3:+61547646 MS.gene20861:CDS
GGATAGTGATGGTGAGGAGG+TGG 0.504511 1.3:-61547019 None:intergenic
ACTTTGATCAATGGTTTGAT+GGG 0.504932 1.3:+61547206 MS.gene20861:CDS
GGGTGAGGATAGTGATGGTG+AGG 0.507453 1.3:-61547025 None:intergenic
GTGGTGGATGACACTATATT+TGG 0.509880 1.3:+61547503 MS.gene20861:CDS
AAAGAGAAAAGATAAGGTAA+GGG 0.510747 1.3:-61547125 None:intergenic
AGCAGAATGATATTTCTGTT+GGG 0.516467 1.3:+61547434 MS.gene20861:CDS
ATAGAGGGAGGAGAAGGGTG+AGG 0.523270 1.3:-61547040 None:intergenic
TGAGGATAGTGATGGTGAGG+AGG 0.526694 1.3:-61547022 None:intergenic
ACAAGAACATAGAGAATACA+TGG 0.527333 1.3:-61547164 None:intergenic
TAGAAGAATTTGTTGGATGG+TGG 0.527444 1.3:+61547672 MS.gene20861:CDS
AAACTCGTCTTTACATGTCA+TGG 0.528069 1.3:+61547273 MS.gene20861:CDS
ATAGCAAAAGAGAAAAGATA+AGG 0.540841 1.3:-61547131 None:intergenic
GATGACACTATATTTGGTGT+TGG 0.542896 1.3:+61547509 MS.gene20861:CDS
ATTGAAGCAAGCATTGCAGC+TGG 0.549729 1.3:+61547341 MS.gene20861:CDS
TCTAACTGTCACAATTGGTA+TGG 0.554472 1.3:+61547703 MS.gene20861:CDS
AAAGATGAAATGATGGAGGT+GGG 0.557012 1.3:+61547647 MS.gene20861:CDS
CAAAGTAGCTACACTTACAA+TGG 0.557980 1.3:-61547189 None:intergenic
ATTGAGAAAGTGGTTGTGGC+AGG 0.560585 1.3:+61547551 MS.gene20861:CDS
GAGAAGGGTGAGGATAGTGA+TGG 0.583678 1.3:-61547030 None:intergenic
AGAGAAGAAAAGATAGAGGG+AGG 0.590383 1.3:-61547052 None:intergenic
AAAGAAAGATGAAATGATGG+AGG 0.600117 1.3:+61547643 MS.gene20861:CDS
CTAAGAGAAGAAAAGATAGA+GGG 0.601150 1.3:-61547055 None:intergenic
TTGCTATCTACACCCCTGCA+AGG 0.606162 1.3:+61546991 MS.gene20861:CDS
CTGTCACAATTGGTATGGTG+AGG 0.612817 1.3:+61547708 MS.gene20861:CDS
GATTTCTCTATGTAGAAGAA+GGG 0.614319 1.3:+61547760 MS.gene20861:CDS
GGTAACACAGATTCATGAGG+TGG 0.618775 1.3:+61547781 MS.gene20861:CDS
AATATAGTGTCATCCACCAC+TGG 0.619508 1.3:-61547500 None:intergenic
GAATAGAAGAATTTGTTGGA+TGG 0.624191 1.3:+61547669 MS.gene20861:CDS
GATTGTTAAAGGTCTTATGT+GGG 0.625679 1.3:+61547730 MS.gene20861:CDS
AACATAGAGAATACATGGGG+AGG 0.632641 1.3:-61547159 None:intergenic
GGAGGTGGAAGATCCTTGCA+GGG 0.633817 1.3:-61547004 None:intergenic
GTGGTGGTGGAAGTTGAGAG+AGG 0.639795 1.3:+61547589 MS.gene20861:CDS
CAAGAACATAGAGAATACAT+GGG 0.640474 1.3:-61547163 None:intergenic
AGTTGTTGTGAGACCAGTGG+TGG 0.655710 1.3:+61547487 MS.gene20861:CDS
GTAGTTTAGGAACATTGTGG+TGG 0.662467 1.3:+61547573 MS.gene20861:CDS
CAGGTAGTTTAGGAACATTG+TGG 0.681497 1.3:+61547570 MS.gene20861:CDS
AAGGGTAACACAGATTCATG+AGG 0.699883 1.3:+61547778 MS.gene20861:CDS
GAGGTGGAAGATCCTTGCAG+GGG 0.700426 1.3:-61547003 None:intergenic
AAGAGTTGTTGTGAGACCAG+TGG 0.721375 1.3:+61547484 MS.gene20861:CDS
AAGAACATAGAGAATACATG+GGG 0.725668 1.3:-61547162 None:intergenic
ACTGAGTCAGAATGATGACA+AGG 0.757755 1.3:+61547811 MS.gene20861:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAAAGAGAAAAGATAAGGTA+AGG - chr1.3:61547129-61547148 None:intergenic 25.0%
! AAAGAGAAAAGATAAGGTAA+GGG - chr1.3:61547128-61547147 None:intergenic 25.0%
! AACAAAGAAAGATGAAATGA+TGG + chr1.3:61547640-61547659 MS.gene20861:CDS 25.0%
! AATTGGATGAATCATTCATA+AGG - chr1.3:61547241-61547260 None:intergenic 25.0%
! ATAGCAAAAGAGAAAAGATA+AGG - chr1.3:61547134-61547153 None:intergenic 25.0%
! ATAGTTGAAGAAGAAATCTT+TGG - chr1.3:61546970-61546989 None:intergenic 25.0%
! TACATGAAACAACACAAATT+TGG + chr1.3:61547459-61547478 MS.gene20861:CDS 25.0%
! TATTATCTAACTGTCACAAT+TGG + chr1.3:61547698-61547717 MS.gene20861:CDS 25.0%
!!! TTTCAAATATGTGTTGGTTT+AGG + chr1.3:61547317-61547336 MS.gene20861:CDS 25.0%
AAAGAAAGATGAAATGATGG+AGG + chr1.3:61547643-61547662 MS.gene20861:CDS 30.0%
AAGAACATAGAGAATACATG+GGG - chr1.3:61547165-61547184 None:intergenic 30.0%
ACAAGAACATAGAGAATACA+TGG - chr1.3:61547167-61547186 None:intergenic 30.0%
ACTTTGATCAATGGTTTGAT+GGG + chr1.3:61547206-61547225 MS.gene20861:CDS 30.0%
AGTTGAGAATTTAGGTGTTA+TGG + chr1.3:61547613-61547632 MS.gene20861:CDS 30.0%
AGTTTGGAGAAGAATAGAAT+TGG - chr1.3:61547258-61547277 None:intergenic 30.0%
ATGGATTTGAAGGTAGAATT+TGG - chr1.3:61547096-61547115 None:intergenic 30.0%
CAAGAACATAGAGAATACAT+GGG - chr1.3:61547166-61547185 None:intergenic 30.0%
CTAAGAGAAGAAAAGATAGA+GGG - chr1.3:61547058-61547077 None:intergenic 30.0%
GATTTCTCTATGTAGAAGAA+GGG + chr1.3:61547760-61547779 MS.gene20861:CDS 30.0%
TACTTTGATCAATGGTTTGA+TGG + chr1.3:61547205-61547224 MS.gene20861:CDS 30.0%
TGATTTCTCTATGTAGAAGA+AGG + chr1.3:61547759-61547778 MS.gene20861:CDS 30.0%
TTGGAAAAAGAGAGAGATTA+TGG + chr1.3:61547528-61547547 MS.gene20861:CDS 30.0%
! AAGCAGAATGATATTTCTGT+TGG + chr1.3:61547433-61547452 MS.gene20861:CDS 30.0%
! AGCAGAATGATATTTCTGTT+GGG + chr1.3:61547434-61547453 MS.gene20861:CDS 30.0%
! GATTGTTAAAGGTCTTATGT+GGG + chr1.3:61547730-61547749 MS.gene20861:CDS 30.0%
!! CTCACTTTTCAAATATGTGT+TGG + chr1.3:61547311-61547330 MS.gene20861:CDS 30.0%
!! GAATAGAAGAATTTGTTGGA+TGG + chr1.3:61547669-61547688 MS.gene20861:CDS 30.0%
AAACTCGTCTTTACATGTCA+TGG + chr1.3:61547273-61547292 MS.gene20861:CDS 35.0%
AGAGAGGAAGTTGAGAATTT+AGG + chr1.3:61547605-61547624 MS.gene20861:CDS 35.0%
ATCGTCAAAAACATCGTTGT+CGG - chr1.3:61547378-61547397 None:intergenic 35.0%
ATGACATGTAAAGACGAGTT+TGG - chr1.3:61547274-61547293 None:intergenic 35.0%
CAAAGTAGCTACACTTACAA+TGG - chr1.3:61547192-61547211 None:intergenic 35.0%
GCTAAGAGAAGAAAAGATAG+AGG - chr1.3:61547059-61547078 None:intergenic 35.0%
GTCTTTACATGTCATGGAAA+TGG + chr1.3:61547279-61547298 MS.gene20861:CDS 35.0%
GTGGGAATAGAAGAATTTGT+TGG + chr1.3:61547665-61547684 MS.gene20861:CDS 35.0%
TCTAACTGTCACAATTGGTA+TGG + chr1.3:61547703-61547722 MS.gene20861:CDS 35.0%
! AAAGATGAAATGATGGAGGT+GGG + chr1.3:61547647-61547666 MS.gene20861:CDS 35.0%
! AGTGTAGCTACTTTGATCAA+TGG + chr1.3:61547197-61547216 MS.gene20861:CDS 35.0%
! GAGATTATGGATTGAGAAAG+TGG + chr1.3:61547541-61547560 MS.gene20861:CDS 35.0%
! GGATTGTTAAAGGTCTTATG+TGG + chr1.3:61547729-61547748 MS.gene20861:CDS 35.0%
! GTTGTTGTGAATGGATTTGA+AGG - chr1.3:61547106-61547125 None:intergenic 35.0%
!! GATGACACTATATTTGGTGT+TGG + chr1.3:61547509-61547528 MS.gene20861:CDS 35.0%
!! TAGAAGAATTTGTTGGATGG+TGG + chr1.3:61547672-61547691 MS.gene20861:CDS 35.0%
AAAAGATAGAGGGAGGAGAA+GGG - chr1.3:61547048-61547067 None:intergenic 40.0%
AACATAGAGAATACATGGGG+AGG - chr1.3:61547162-61547181 None:intergenic 40.0%
AAGGGTAACACAGATTCATG+AGG + chr1.3:61547778-61547797 MS.gene20861:CDS 40.0%
AAGGTAAGGGTTGTTGTGAA+TGG - chr1.3:61547115-61547134 None:intergenic 40.0%
AATATAGTGTCATCCACCAC+TGG - chr1.3:61547503-61547522 None:intergenic 40.0%
ACAGATTCATGAGGTGGAAT+TGG + chr1.3:61547787-61547806 MS.gene20861:CDS 40.0%
ACTGAGTCAGAATGATGACA+AGG + chr1.3:61547811-61547830 MS.gene20861:CDS 40.0%
AGAGAAGAAAAGATAGAGGG+AGG - chr1.3:61547055-61547074 None:intergenic 40.0%
CAGGTAGTTTAGGAACATTG+TGG + chr1.3:61547570-61547589 MS.gene20861:CDS 40.0%
GGTATGGTGAGGATTGTTAA+AGG + chr1.3:61547719-61547738 MS.gene20861:CDS 40.0%
GTAGTTTAGGAACATTGTGG+TGG + chr1.3:61547573-61547592 MS.gene20861:CDS 40.0%
! ATGGATTGAGAAAGTGGTTG+TGG + chr1.3:61547547-61547566 MS.gene20861:CDS 40.0%
! GAAAGATGAAATGATGGAGG+TGG + chr1.3:61547646-61547665 MS.gene20861:CDS 40.0%
!! GACAACGATGTTTTTGACGA+TGG + chr1.3:61547377-61547396 MS.gene20861:CDS 40.0%
!! GTGGTGGATGACACTATATT+TGG + chr1.3:61547503-61547522 MS.gene20861:CDS 40.0%
!!! GACGATGGTTCTAGTAGTTT+TGG + chr1.3:61547392-61547411 MS.gene20861:CDS 40.0%
AAGAGTTGTTGTGAGACCAG+TGG + chr1.3:61547484-61547503 MS.gene20861:CDS 45.0%
ATTGAGAAAGTGGTTGTGGC+AGG + chr1.3:61547551-61547570 MS.gene20861:CDS 45.0%
CTGTCACAATTGGTATGGTG+AGG + chr1.3:61547708-61547727 MS.gene20861:CDS 45.0%
GAAAAGATAGAGGGAGGAGA+AGG - chr1.3:61547049-61547068 None:intergenic 45.0%
GGTAACACAGATTCATGAGG+TGG + chr1.3:61547781-61547800 MS.gene20861:CDS 45.0%
GTTTAGGAACATTGTGGTGG+TGG + chr1.3:61547576-61547595 MS.gene20861:CDS 45.0%
! ATTGAAGCAAGCATTGCAGC+TGG + chr1.3:61547341-61547360 MS.gene20861:CDS 45.0%
! CTTCTCTTAGCTAGTCTCTC+TGG + chr1.3:61547068-61547087 MS.gene20861:CDS 45.0%
AGTTGTTGTGAGACCAGTGG+TGG + chr1.3:61547487-61547506 MS.gene20861:CDS 50.0%
GAGAAGGGTGAGGATAGTGA+TGG - chr1.3:61547033-61547052 None:intergenic 50.0%
GTGGTTGTGGCAGGTAGTTT+AGG + chr1.3:61547560-61547579 MS.gene20861:CDS 50.0%
TTGCTATCTACACCCCTGCA+AGG + chr1.3:61546991-61547010 MS.gene20861:CDS 50.0%
! TGAGGATAGTGATGGTGAGG+AGG - chr1.3:61547025-61547044 None:intergenic 50.0%
AGGAGGTGGAAGATCCTTGC+AGG - chr1.3:61547008-61547027 None:intergenic 55.0%
ATAGAGGGAGGAGAAGGGTG+AGG - chr1.3:61547043-61547062 None:intergenic 55.0%
GAGGTGGAAGATCCTTGCAG+GGG - chr1.3:61547006-61547025 None:intergenic 55.0%
GGAGGTGGAAGATCCTTGCA+GGG - chr1.3:61547007-61547026 None:intergenic 55.0%
! GGATAGTGATGGTGAGGAGG+TGG - chr1.3:61547022-61547041 None:intergenic 55.0%
! GGGTGAGGATAGTGATGGTG+AGG - chr1.3:61547028-61547047 None:intergenic 55.0%
!! GTGGTGGTGGAAGTTGAGAG+AGG + chr1.3:61547589-61547608 MS.gene20861:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 61546948 61547838 61546948 ID=MS.gene20861
chr1.3 mRNA 61546948 61547838 61546948 ID=MS.gene20861.t1;Parent=MS.gene20861
chr1.3 exon 61546948 61547838 61546948 ID=MS.gene20861.t1.exon1;Parent=MS.gene20861.t1
chr1.3 CDS 61546948 61547838 61546948 ID=cds.MS.gene20861.t1;Parent=MS.gene20861.t1
Gene Sequence

>MS.gene20861

ATGGATTGGCAGAAAAAATCCAAAGATTTCTTCTTCAACTATATTGCTATCTACACCCCTGCAAGGATCTTCCACCTCCTCACCATCACTATCCTCACCCTTCTCCTCCCTCTATCTTTTCTTCTCTTAGCTAGTCTCTCTGGTGCCAAATTCTACCTTCAAATCCATTCACAACAACCCTTACCTTATCTTTTCTCTTTTGCTATTCACACCTCCCCATGTATTCTCTATGTTCTTGTTTCCATTGTAAGTGTAGCTACTTTGATCAATGGTTTGATGGGAAAAATCAACCTTATGAATGATTCATCCAATTCTATTCTTCTCCAAACTCGTCTTTACATGTCATGGAAATGGATTCTTCTTCTCACTTTTCAAATATGTGTTGGTTTAGGAATTGAAGCAAGCATTGCAGCTGGAGTTTTCGACTCCGACAACGATGTTTTTGACGATGGTTCTAGTAGTTTTGGTGTTGAGAGAAGCTTCATAAGCAGAATGATATTTCTGTTGGGACTACATGAAACAACACAAATTTGGTCAAGAGTTGTTGTGAGACCAGTGGTGGATGACACTATATTTGGTGTTGGAAAAAGAGAGAGATTATGGATTGAGAAAGTGGTTGTGGCAGGTAGTTTAGGAACATTGTGGTGGTGGAAGTTGAGAGAGGAAGTTGAGAATTTAGGTGTTATGGCTGAAACAAAGAAAGATGAAATGATGGAGGTGGGAATAGAAGAATTTGTTGGATGGTGGTTATATTATCTAACTGTCACAATTGGTATGGTGAGGATTGTTAAAGGTCTTATGTGGGTGTTCATGATTTCTCTATGTAGAAGAAGGGTAACACAGATTCATGAGGTGGAATTGGAACTGAGTCAGAATGATGACAAGGTGTAA
Protein sequence

>MS.gene20861.t1

MDWQKKSKDFFFNYIAIYTPARIFHLLTITILTLLLPLSFLLLASLSGAKFYLQIHSQQPLPYLFSFAIHTSPCILYVLVSIVSVATLINGLMGKINLMNDSSNSILLQTRLYMSWKWILLLTFQICVGLGIEASIAAGVFDSDNDVFDDGSSSFGVERSFISRMIFLLGLHETTQIWSRVVVRPVVDDTIFGVGKRERLWIEKVVVAGSLGTLWWWKLREEVENLGVMAETKKDEMMEVGIEEFVGWWLYYLTVTIGMVRIVKGLMWVFMISLCRRRVTQIHEVELELSQNDDKV