AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene20811

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20811.t1 MTR_1g086950 98.311 296 5 0 1 296 1 296 0.0 591
MS.gene20811.t1 MTR_7g109590 51.768 311 122 7 1 295 1 299 4.59e-89 268
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20811.t1 AT2G47360 42.553 235 100 6 63 278 63 281 1.28e-50 169
MS.gene20811.t1 AT1G02570 38.559 236 129 5 64 296 56 278 8.67e-44 150
MS.gene20811.t1 AT1G02575 37.755 196 102 8 75 267 67 245 3.12e-31 118

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 1.2:-65375849 MS.gene20811:CDS
TACATGAAACAACACAAATT+TGG 0.272884 1.2:-65375995 MS.gene20811:CDS
TTTCAAATATGTGTTGGTTT+AGG 0.275769 1.2:-65376137 MS.gene20811:CDS
ATAGTTGAAGAAGAAATCTT+TGG 0.285743 1.2:+65376487 None:intergenic
ATGGATTTGAAGGTAGAATT+TGG 0.286827 1.2:+65376361 None:intergenic
GACGATGGTTCTAGTAGTTT+TGG 0.302357 1.2:-65376062 MS.gene20811:CDS
AGTTGAGAATTTAGGTGTTA+TGG 0.309415 1.2:-65375841 MS.gene20811:CDS
ACAGATTAATGAGGTGGAAT+TGG 0.353558 1.2:-65375667 MS.gene20811:CDS
TACTTTGATCAATGGTTTGA+TGG 0.354298 1.2:-65376249 MS.gene20811:CDS
GCTAAGAGAAGAAAAGATAG+AGG 0.357745 1.2:+65376398 None:intergenic
GTCTTTACATGTCATGGAAA+TGG 0.358547 1.2:-65376175 MS.gene20811:CDS
GAGATTATGGATTGAGAAAG+TGG 0.371004 1.2:-65375913 MS.gene20811:CDS
CTTCTCTTAGCTAGTCTCTC+TGG 0.372938 1.2:-65376386 MS.gene20811:CDS
GTGGTTGTGGCAGGTAGTTT+AGG 0.376947 1.2:-65375894 MS.gene20811:CDS
ATGACATGTAAAGACGAGTT+TGG 0.390360 1.2:+65376183 None:intergenic
GGTATGGTGAGGATTGTTAA+AGG 0.394274 1.2:-65375735 MS.gene20811:CDS
AAAAGAGAAAAGATAAGGTA+AGG 0.399838 1.2:+65376328 None:intergenic
AGGAGGTGGAAGATCCTTGC+AGG 0.405724 1.2:+65376449 None:intergenic
TATTATCTAATTGTCACAAT+TGG 0.405785 1.2:-65375756 MS.gene20811:CDS
AAGGTAAGGGTTGTTGTGAA+TGG 0.409710 1.2:+65376342 None:intergenic
AGTGTAGCTACTTTGATCAA+TGG 0.424175 1.2:-65376257 MS.gene20811:CDS
AGTTTGGAGAAGAATAGAAT+TGG 0.429200 1.2:+65376199 None:intergenic
GAAAAGATAGAGGGAGGAGA+AGG 0.430845 1.2:+65376408 None:intergenic
AAGCAGAATGATATTTCTGT+TGG 0.438907 1.2:-65376021 MS.gene20811:CDS
GTGGGAATAGAAGAATTTGT+TGG 0.445922 1.2:-65375789 MS.gene20811:CDS
TGATTTCTCTATGTAGAAGA+AGG 0.454333 1.2:-65375695 MS.gene20811:CDS
GGATTGTTAAAGGTCTTATG+TGG 0.482472 1.2:-65375725 MS.gene20811:CDS
AATTGGATGAATCATTCATA+AGG 0.483645 1.2:+65376216 None:intergenic
AACAAAGAAAGATGAAATGA+TGG 0.484417 1.2:-65375814 MS.gene20811:CDS
AAAAGATAGAGGGAGGAGAA+GGG 0.494482 1.2:+65376409 None:intergenic
GTTGTTGTGAATGGATTTGA+AGG 0.496977 1.2:+65376351 None:intergenic
GTTTAGGAACATTGTGGTGG+TGG 0.497414 1.2:-65375878 MS.gene20811:CDS
ATGGATTGAGAAAGTGGTTG+TGG 0.498685 1.2:-65375907 MS.gene20811:CDS
TCATTCTACACAAAATGGAT+TGG 0.502402 1.2:-65376520 None:intergenic
TCTAATTGTCACAATTGGTA+TGG 0.503683 1.2:-65375751 MS.gene20811:CDS
GAAAGATGAAATGATGGAGG+TGG 0.504281 1.2:-65375808 MS.gene20811:CDS
GGATAGTGATGGTGAGGAGG+TGG 0.504511 1.2:+65376435 None:intergenic
ACTTTGATCAATGGTTTGAT+GGG 0.504932 1.2:-65376248 MS.gene20811:CDS
GGGTGAGGATAGTGATGGTG+AGG 0.507453 1.2:+65376429 None:intergenic
GTGGTGGATGACACTATATT+TGG 0.509880 1.2:-65375951 MS.gene20811:CDS
AAAGAGAAAAGATAAGGTAA+GGG 0.510747 1.2:+65376329 None:intergenic
AGCAGAATGATATTTCTGTT+GGG 0.516467 1.2:-65376020 MS.gene20811:CDS
ATAGAGGGAGGAGAAGGGTG+AGG 0.523270 1.2:+65376414 None:intergenic
TGAGGATAGTGATGGTGAGG+AGG 0.526694 1.2:+65376432 None:intergenic
ACAAGAACATAGAGAATACA+TGG 0.527333 1.2:+65376290 None:intergenic
TAGAAGAATTTGTTGGATGG+TGG 0.527444 1.2:-65375782 MS.gene20811:CDS
AAACTCGTCTTTACATGTCA+TGG 0.528069 1.2:-65376181 MS.gene20811:CDS
ATAGCAAAAGAGAAAAGATA+AGG 0.540841 1.2:+65376323 None:intergenic
GATGACACTATATTTGGTGT+TGG 0.542896 1.2:-65375945 MS.gene20811:CDS
ATTGAAGCAAGCATTGCAGC+TGG 0.549729 1.2:-65376113 MS.gene20811:CDS
AAAGATGAAATGATGGAGGT+GGG 0.557012 1.2:-65375807 MS.gene20811:CDS
CAAAGTAGCTACACTTACAA+TGG 0.557980 1.2:+65376265 None:intergenic
ATTGAGAAAGTGGTTGTGGC+AGG 0.560585 1.2:-65375903 MS.gene20811:CDS
GAGAAGGGTGAGGATAGTGA+TGG 0.583678 1.2:+65376424 None:intergenic
AGAGAAGAAAAGATAGAGGG+AGG 0.590383 1.2:+65376402 None:intergenic
TTGTCACAATTGGTATGGTG+AGG 0.590458 1.2:-65375746 MS.gene20811:CDS
AAAGAAAGATGAAATGATGG+AGG 0.600117 1.2:-65375811 MS.gene20811:CDS
CTAAGAGAAGAAAAGATAGA+GGG 0.601150 1.2:+65376399 None:intergenic
TTGCTATCTACACCCCTGCA+AGG 0.606162 1.2:-65376463 MS.gene20811:CDS
GGTAACACAGATTAATGAGG+TGG 0.609717 1.2:-65375673 MS.gene20811:CDS
GATTTCTCTATGTAGAAGAA+GGG 0.614319 1.2:-65375694 MS.gene20811:CDS
AATATAGTGTCATCCACCAC+TGG 0.619508 1.2:+65375954 None:intergenic
GAATAGAAGAATTTGTTGGA+TGG 0.624191 1.2:-65375785 MS.gene20811:CDS
GATTGTTAAAGGTCTTATGT+GGG 0.625679 1.2:-65375724 MS.gene20811:CDS
AACATAGAGAATACATGGGG+AGG 0.632641 1.2:+65376295 None:intergenic
AAGGGTAACACAGATTAATG+AGG 0.632667 1.2:-65375676 MS.gene20811:CDS
GGAGGTGGAAGATCCTTGCA+GGG 0.633817 1.2:+65376450 None:intergenic
GTGGTGGTGGAAGTTGAGAG+AGG 0.639795 1.2:-65375865 MS.gene20811:CDS
CAAGAACATAGAGAATACAT+GGG 0.640474 1.2:+65376291 None:intergenic
AGTTGTTGTGAGACCAGTGG+TGG 0.655710 1.2:-65375967 MS.gene20811:CDS
GTAGTTTAGGAACATTGTGG+TGG 0.662467 1.2:-65375881 MS.gene20811:CDS
CAGGTAGTTTAGGAACATTG+TGG 0.681497 1.2:-65375884 MS.gene20811:CDS
GAGGTGGAAGATCCTTGCAG+GGG 0.700426 1.2:+65376451 None:intergenic
AAGAGTTGTTGTGAGACCAG+TGG 0.721375 1.2:-65375970 MS.gene20811:CDS
AAGAACATAGAGAATACATG+GGG 0.725668 1.2:+65376292 None:intergenic
ACTGAGTCAGAATGATGACA+AGG 0.757755 1.2:-65375643 MS.gene20811:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTATCTAATTGTCACAAT+TGG - chr1.2:65376388-65376407 MS.gene20811:CDS 20.0%
! AAAAGAGAAAAGATAAGGTA+AGG + chr1.2:65375819-65375838 None:intergenic 25.0%
! AAAGAGAAAAGATAAGGTAA+GGG + chr1.2:65375818-65375837 None:intergenic 25.0%
! AACAAAGAAAGATGAAATGA+TGG - chr1.2:65376330-65376349 MS.gene20811:CDS 25.0%
! AATTGGATGAATCATTCATA+AGG + chr1.2:65375931-65375950 None:intergenic 25.0%
! ATAGCAAAAGAGAAAAGATA+AGG + chr1.2:65375824-65375843 None:intergenic 25.0%
! ATAGTTGAAGAAGAAATCTT+TGG + chr1.2:65375660-65375679 None:intergenic 25.0%
! TACATGAAACAACACAAATT+TGG - chr1.2:65376149-65376168 MS.gene20811:CDS 25.0%
!!! TTCACTTTTCAAATATGTGT+TGG - chr1.2:65376001-65376020 MS.gene20811:CDS 25.0%
!!! TTTCAAATATGTGTTGGTTT+AGG - chr1.2:65376007-65376026 MS.gene20811:CDS 25.0%
AAAGAAAGATGAAATGATGG+AGG - chr1.2:65376333-65376352 MS.gene20811:CDS 30.0%
AAGAACATAGAGAATACATG+GGG + chr1.2:65375855-65375874 None:intergenic 30.0%
ACAAGAACATAGAGAATACA+TGG + chr1.2:65375857-65375876 None:intergenic 30.0%
ACTTTGATCAATGGTTTGAT+GGG - chr1.2:65375896-65375915 MS.gene20811:CDS 30.0%
AGTTGAGAATTTAGGTGTTA+TGG - chr1.2:65376303-65376322 MS.gene20811:CDS 30.0%
AGTTTGGAGAAGAATAGAAT+TGG + chr1.2:65375948-65375967 None:intergenic 30.0%
ATGGATTTGAAGGTAGAATT+TGG + chr1.2:65375786-65375805 None:intergenic 30.0%
CAAGAACATAGAGAATACAT+GGG + chr1.2:65375856-65375875 None:intergenic 30.0%
CTAAGAGAAGAAAAGATAGA+GGG + chr1.2:65375748-65375767 None:intergenic 30.0%
GATTTCTCTATGTAGAAGAA+GGG - chr1.2:65376450-65376469 MS.gene20811:CDS 30.0%
TACTTTGATCAATGGTTTGA+TGG - chr1.2:65375895-65375914 MS.gene20811:CDS 30.0%
TCTAATTGTCACAATTGGTA+TGG - chr1.2:65376393-65376412 MS.gene20811:CDS 30.0%
TGATTTCTCTATGTAGAAGA+AGG - chr1.2:65376449-65376468 MS.gene20811:CDS 30.0%
TTGGAAAAAGAGAGAGATTA+TGG - chr1.2:65376218-65376237 MS.gene20811:CDS 30.0%
! AAGCAGAATGATATTTCTGT+TGG - chr1.2:65376123-65376142 MS.gene20811:CDS 30.0%
! AGCAGAATGATATTTCTGTT+GGG - chr1.2:65376124-65376143 MS.gene20811:CDS 30.0%
! GATTGTTAAAGGTCTTATGT+GGG - chr1.2:65376420-65376439 MS.gene20811:CDS 30.0%
!! GAATAGAAGAATTTGTTGGA+TGG - chr1.2:65376359-65376378 MS.gene20811:CDS 30.0%
AAACTCGTCTTTACATGTCA+TGG - chr1.2:65375963-65375982 MS.gene20811:CDS 35.0%
AAGGGTAACACAGATTAATG+AGG - chr1.2:65376468-65376487 MS.gene20811:CDS 35.0%
ACAGATTAATGAGGTGGAAT+TGG - chr1.2:65376477-65376496 MS.gene20811:CDS 35.0%
AGAGAGGAAGTTGAGAATTT+AGG - chr1.2:65376295-65376314 MS.gene20811:CDS 35.0%
ATCGTCAAAAACATCGTTGT+CGG + chr1.2:65376068-65376087 None:intergenic 35.0%
ATGACATGTAAAGACGAGTT+TGG + chr1.2:65375964-65375983 None:intergenic 35.0%
CAAAGTAGCTACACTTACAA+TGG + chr1.2:65375882-65375901 None:intergenic 35.0%
GCTAAGAGAAGAAAAGATAG+AGG + chr1.2:65375749-65375768 None:intergenic 35.0%
GTCTTTACATGTCATGGAAA+TGG - chr1.2:65375969-65375988 MS.gene20811:CDS 35.0%
GTGGGAATAGAAGAATTTGT+TGG - chr1.2:65376355-65376374 MS.gene20811:CDS 35.0%
! AAAGATGAAATGATGGAGGT+GGG - chr1.2:65376337-65376356 MS.gene20811:CDS 35.0%
! AGTGTAGCTACTTTGATCAA+TGG - chr1.2:65375887-65375906 MS.gene20811:CDS 35.0%
! GAGATTATGGATTGAGAAAG+TGG - chr1.2:65376231-65376250 MS.gene20811:CDS 35.0%
! GGATTGTTAAAGGTCTTATG+TGG - chr1.2:65376419-65376438 MS.gene20811:CDS 35.0%
! GTTGTTGTGAATGGATTTGA+AGG + chr1.2:65375796-65375815 None:intergenic 35.0%
!! GATGACACTATATTTGGTGT+TGG - chr1.2:65376199-65376218 MS.gene20811:CDS 35.0%
!! TAGAAGAATTTGTTGGATGG+TGG - chr1.2:65376362-65376381 MS.gene20811:CDS 35.0%
AAAAGATAGAGGGAGGAGAA+GGG + chr1.2:65375738-65375757 None:intergenic 40.0%
AACATAGAGAATACATGGGG+AGG + chr1.2:65375852-65375871 None:intergenic 40.0%
AAGGTAAGGGTTGTTGTGAA+TGG + chr1.2:65375805-65375824 None:intergenic 40.0%
AATATAGTGTCATCCACCAC+TGG + chr1.2:65376193-65376212 None:intergenic 40.0%
ACTGAGTCAGAATGATGACA+AGG - chr1.2:65376501-65376520 MS.gene20811:CDS 40.0%
AGAGAAGAAAAGATAGAGGG+AGG + chr1.2:65375745-65375764 None:intergenic 40.0%
CAGGTAGTTTAGGAACATTG+TGG - chr1.2:65376260-65376279 MS.gene20811:CDS 40.0%
GGTAACACAGATTAATGAGG+TGG - chr1.2:65376471-65376490 MS.gene20811:CDS 40.0%
GGTATGGTGAGGATTGTTAA+AGG - chr1.2:65376409-65376428 MS.gene20811:CDS 40.0%
GTAGTTTAGGAACATTGTGG+TGG - chr1.2:65376263-65376282 MS.gene20811:CDS 40.0%
TTGTCACAATTGGTATGGTG+AGG - chr1.2:65376398-65376417 MS.gene20811:CDS 40.0%
! ATGGATTGAGAAAGTGGTTG+TGG - chr1.2:65376237-65376256 MS.gene20811:CDS 40.0%
! GAAAGATGAAATGATGGAGG+TGG - chr1.2:65376336-65376355 MS.gene20811:CDS 40.0%
!! GACAACGATGTTTTTGACGA+TGG - chr1.2:65376067-65376086 MS.gene20811:CDS 40.0%
!! GTGGTGGATGACACTATATT+TGG - chr1.2:65376193-65376212 MS.gene20811:CDS 40.0%
!!! GACGATGGTTCTAGTAGTTT+TGG - chr1.2:65376082-65376101 MS.gene20811:CDS 40.0%
AAGAGTTGTTGTGAGACCAG+TGG - chr1.2:65376174-65376193 MS.gene20811:CDS 45.0%
ATTGAGAAAGTGGTTGTGGC+AGG - chr1.2:65376241-65376260 MS.gene20811:CDS 45.0%
GAAAAGATAGAGGGAGGAGA+AGG + chr1.2:65375739-65375758 None:intergenic 45.0%
GTTTAGGAACATTGTGGTGG+TGG - chr1.2:65376266-65376285 MS.gene20811:CDS 45.0%
! ATTGAAGCAAGCATTGCAGC+TGG - chr1.2:65376031-65376050 MS.gene20811:CDS 45.0%
! CTTCTCTTAGCTAGTCTCTC+TGG - chr1.2:65375758-65375777 MS.gene20811:CDS 45.0%
AGTTGTTGTGAGACCAGTGG+TGG - chr1.2:65376177-65376196 MS.gene20811:CDS 50.0%
GAGAAGGGTGAGGATAGTGA+TGG + chr1.2:65375723-65375742 None:intergenic 50.0%
GTGGTTGTGGCAGGTAGTTT+AGG - chr1.2:65376250-65376269 MS.gene20811:CDS 50.0%
TTGCTATCTACACCCCTGCA+AGG - chr1.2:65375681-65375700 MS.gene20811:CDS 50.0%
! TGAGGATAGTGATGGTGAGG+AGG + chr1.2:65375715-65375734 None:intergenic 50.0%
AGGAGGTGGAAGATCCTTGC+AGG + chr1.2:65375698-65375717 None:intergenic 55.0%
ATAGAGGGAGGAGAAGGGTG+AGG + chr1.2:65375733-65375752 None:intergenic 55.0%
GAGGTGGAAGATCCTTGCAG+GGG + chr1.2:65375696-65375715 None:intergenic 55.0%
GGAGGTGGAAGATCCTTGCA+GGG + chr1.2:65375697-65375716 None:intergenic 55.0%
! GGATAGTGATGGTGAGGAGG+TGG + chr1.2:65375712-65375731 None:intergenic 55.0%
! GGGTGAGGATAGTGATGGTG+AGG + chr1.2:65375718-65375737 None:intergenic 55.0%
!! GTGGTGGTGGAAGTTGAGAG+AGG - chr1.2:65376279-65376298 MS.gene20811:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 65375638 65376528 65375638 ID=MS.gene20811
chr1.2 mRNA 65375638 65376528 65375638 ID=MS.gene20811.t1;Parent=MS.gene20811
chr1.2 exon 65375638 65376528 65375638 ID=MS.gene20811.t1.exon1;Parent=MS.gene20811.t1
chr1.2 CDS 65375638 65376528 65375638 ID=cds.MS.gene20811.t1;Parent=MS.gene20811.t1
Gene Sequence

>MS.gene20811

ATGGATTGGCAGAAAAAATCCAAAGATTTCTTCTTCAACTATATTGCTATCTACACCCCTGCAAGGATCTTCCACCTCCTCACCATCACTATCCTCACCCTTCTCCTCCCTCTATCTTTTCTTCTCTTAGCTAGTCTCTCTGGTGCCAAATTCTACCTTCAAATCCATTCACAACAACCCTTACCTTATCTTTTCTCTTTTGCTATTCACACCTCCCCATGTATTCTCTATGTTCTTGTTTCCATTGTAAGTGTAGCTACTTTGATCAATGGTTTGATGGGAAAAATCAACCTTATGAATGATTCATCCAATTCTATTCTTCTCCAAACTCGTCTTTACATGTCATGGAAATGGATTCTTCTTTTCACTTTTCAAATATGTGTTGGTTTAGGAATTGAAGCAAGCATTGCAGCTGGAGTTTTCGACTCCGACAACGATGTTTTTGACGATGGTTCTAGTAGTTTTGGTGTTGAGAGAAGCTTCATAAGCAGAATGATATTTCTGTTGGGACTACATGAAACAACACAAATTTGGTCAAGAGTTGTTGTGAGACCAGTGGTGGATGACACTATATTTGGTGTTGGAAAAAGAGAGAGATTATGGATTGAGAAAGTGGTTGTGGCAGGTAGTTTAGGAACATTGTGGTGGTGGAAGTTGAGAGAGGAAGTTGAGAATTTAGGTGTTATGGCTGAAACAAAGAAAGATGAAATGATGGAGGTGGGAATAGAAGAATTTGTTGGATGGTGGTTATATTATCTAATTGTCACAATTGGTATGGTGAGGATTGTTAAAGGTCTTATGTGGGTGTTCATGATTTCTCTATGTAGAAGAAGGGTAACACAGATTAATGAGGTGGAATTGGAACTGAGTCAGAATGATGACAAGGTGTAA
Protein sequence

>MS.gene20811.t1

MDWQKKSKDFFFNYIAIYTPARIFHLLTITILTLLLPLSFLLLASLSGAKFYLQIHSQQPLPYLFSFAIHTSPCILYVLVSIVSVATLINGLMGKINLMNDSSNSILLQTRLYMSWKWILLFTFQICVGLGIEASIAAGVFDSDNDVFDDGSSSFGVERSFISRMIFLLGLHETTQIWSRVVVRPVVDDTIFGVGKRERLWIEKVVVAGSLGTLWWWKLREEVENLGVMAETKKDEMMEVGIEEFVGWWLYYLIVTIGMVRIVKGLMWVFMISLCRRRVTQINEVELELSQNDDKV