AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene07296


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07296.t1 MTR_1g086950 98.311 296 5 0 1 296 1 296 0.0 591
MS.gene07296.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.gene07296.t1 AT2G47360 42.553 235 100 6 63 278 63 281 1.28e-50 169
MS.gene07296.t1 AT1G02570 38.559 236 129 5 64 296 56 278 8.67e-44 150
MS.gene07296.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 1.4:+69314255 MS.gene07296:CDS
TACATGAAACAACACAAATT+TGG 0.272884 1.4:+69314109 MS.gene07296:CDS
TTTCAAATATGTGTTGGTTT+AGG 0.275769 1.4:+69313967 MS.gene07296:CDS
ATAGTTGAAGAAGAAATCTT+TGG 0.285743 1.4:-69313617 None:intergenic
ATGGATTTGAAGGTAGAATT+TGG 0.286827 1.4:-69313743 None:intergenic
GACGATGGTTCTAGTAGTTT+TGG 0.302357 1.4:+69314042 MS.gene07296:CDS
AGTTGAGAATTTAGGTGTTA+TGG 0.309415 1.4:+69314263 MS.gene07296:CDS
ACAGATTAATGAGGTGGAAT+TGG 0.353558 1.4:+69314437 MS.gene07296:CDS
TACTTTGATCAATGGTTTGA+TGG 0.354298 1.4:+69313855 MS.gene07296:CDS
GCTAAGAGAAGAAAAGATAG+AGG 0.357745 1.4:-69313706 None:intergenic
GTCTTTACATGTCATGGAAA+TGG 0.358547 1.4:+69313929 MS.gene07296:CDS
GAGATTATGGATTGAGAAAG+TGG 0.371004 1.4:+69314191 MS.gene07296:CDS
CTTCTCTTAGCTAGTCTCTC+TGG 0.372938 1.4:+69313718 MS.gene07296:CDS
GTGGTTGTGGCAGGTAGTTT+AGG 0.376947 1.4:+69314210 MS.gene07296:CDS
ATGACATGTAAAGACGAGTT+TGG 0.390360 1.4:-69313921 None:intergenic
GGTATGGTGAGGATTGTTAA+AGG 0.394274 1.4:+69314369 MS.gene07296:CDS
AAAAGAGAAAAGATAAGGTA+AGG 0.399838 1.4:-69313776 None:intergenic
AGGAGGTGGAAGATCCTTGC+AGG 0.405724 1.4:-69313655 None:intergenic
TATTATCTAATTGTCACAAT+TGG 0.405785 1.4:+69314348 MS.gene07296:CDS
AAGGTAAGGGTTGTTGTGAA+TGG 0.409710 1.4:-69313762 None:intergenic
AGTGTAGCTACTTTGATCAA+TGG 0.424175 1.4:+69313847 MS.gene07296:CDS
AGTTTGGAGAAGAATAGAAT+TGG 0.429200 1.4:-69313905 None:intergenic
GAAAAGATAGAGGGAGGAGA+AGG 0.430845 1.4:-69313696 None:intergenic
AAGCAGAATGATATTTCTGT+TGG 0.438907 1.4:+69314083 MS.gene07296:CDS
GTGGGAATAGAAGAATTTGT+TGG 0.445922 1.4:+69314315 MS.gene07296:CDS
TGATTTCTCTATGTAGAAGA+AGG 0.454333 1.4:+69314409 MS.gene07296:CDS
GGATTGTTAAAGGTCTTATG+TGG 0.482472 1.4:+69314379 MS.gene07296:CDS
AATTGGATGAATCATTCATA+AGG 0.483645 1.4:-69313888 None:intergenic
AACAAAGAAAGATGAAATGA+TGG 0.484417 1.4:+69314290 MS.gene07296:CDS
AAAAGATAGAGGGAGGAGAA+GGG 0.494482 1.4:-69313695 None:intergenic
GTTGTTGTGAATGGATTTGA+AGG 0.496977 1.4:-69313753 None:intergenic
GTTTAGGAACATTGTGGTGG+TGG 0.497414 1.4:+69314226 MS.gene07296:CDS
ATGGATTGAGAAAGTGGTTG+TGG 0.498685 1.4:+69314197 MS.gene07296:CDS
TCATTCTACACAAAATGGAT+TGG 0.502402 1.4:+69313584 None:intergenic
TCTAATTGTCACAATTGGTA+TGG 0.503683 1.4:+69314353 MS.gene07296:CDS
GAAAGATGAAATGATGGAGG+TGG 0.504281 1.4:+69314296 MS.gene07296:CDS
GGATAGTGATGGTGAGGAGG+TGG 0.504511 1.4:-69313669 None:intergenic
ACTTTGATCAATGGTTTGAT+GGG 0.504932 1.4:+69313856 MS.gene07296:CDS
GGGTGAGGATAGTGATGGTG+AGG 0.507453 1.4:-69313675 None:intergenic
GTGGTGGATGACACTATATT+TGG 0.509880 1.4:+69314153 MS.gene07296:CDS
AAAGAGAAAAGATAAGGTAA+GGG 0.510747 1.4:-69313775 None:intergenic
AGCAGAATGATATTTCTGTT+GGG 0.516467 1.4:+69314084 MS.gene07296:CDS
ATAGAGGGAGGAGAAGGGTG+AGG 0.523270 1.4:-69313690 None:intergenic
TGAGGATAGTGATGGTGAGG+AGG 0.526694 1.4:-69313672 None:intergenic
ACAAGAACATAGAGAATACA+TGG 0.527333 1.4:-69313814 None:intergenic
TAGAAGAATTTGTTGGATGG+TGG 0.527444 1.4:+69314322 MS.gene07296:CDS
AAACTCGTCTTTACATGTCA+TGG 0.528069 1.4:+69313923 MS.gene07296:CDS
ATAGCAAAAGAGAAAAGATA+AGG 0.540841 1.4:-69313781 None:intergenic
GATGACACTATATTTGGTGT+TGG 0.542896 1.4:+69314159 MS.gene07296:CDS
ATTGAAGCAAGCATTGCAGC+TGG 0.549729 1.4:+69313991 MS.gene07296:CDS
AAAGATGAAATGATGGAGGT+GGG 0.557012 1.4:+69314297 MS.gene07296:CDS
CAAAGTAGCTACACTTACAA+TGG 0.557980 1.4:-69313839 None:intergenic
ATTGAGAAAGTGGTTGTGGC+AGG 0.560585 1.4:+69314201 MS.gene07296:CDS
GAGAAGGGTGAGGATAGTGA+TGG 0.583678 1.4:-69313680 None:intergenic
AGAGAAGAAAAGATAGAGGG+AGG 0.590383 1.4:-69313702 None:intergenic
TTGTCACAATTGGTATGGTG+AGG 0.590458 1.4:+69314358 MS.gene07296:CDS
AAAGAAAGATGAAATGATGG+AGG 0.600117 1.4:+69314293 MS.gene07296:CDS
CTAAGAGAAGAAAAGATAGA+GGG 0.601150 1.4:-69313705 None:intergenic
TTGCTATCTACACCCCTGCA+AGG 0.606162 1.4:+69313641 MS.gene07296:CDS
GGTAACACAGATTAATGAGG+TGG 0.609717 1.4:+69314431 MS.gene07296:CDS
GATTTCTCTATGTAGAAGAA+GGG 0.614319 1.4:+69314410 MS.gene07296:CDS
AATATAGTGTCATCCACCAC+TGG 0.619508 1.4:-69314150 None:intergenic
GAATAGAAGAATTTGTTGGA+TGG 0.624191 1.4:+69314319 MS.gene07296:CDS
GATTGTTAAAGGTCTTATGT+GGG 0.625679 1.4:+69314380 MS.gene07296:CDS
AACATAGAGAATACATGGGG+AGG 0.632641 1.4:-69313809 None:intergenic
AAGGGTAACACAGATTAATG+AGG 0.632667 1.4:+69314428 MS.gene07296:CDS
GGAGGTGGAAGATCCTTGCA+GGG 0.633817 1.4:-69313654 None:intergenic
GTGGTGGTGGAAGTTGAGAG+AGG 0.639795 1.4:+69314239 MS.gene07296:CDS
CAAGAACATAGAGAATACAT+GGG 0.640474 1.4:-69313813 None:intergenic
AGTTGTTGTGAGACCAGTGG+TGG 0.655710 1.4:+69314137 MS.gene07296:CDS
GTAGTTTAGGAACATTGTGG+TGG 0.662467 1.4:+69314223 MS.gene07296:CDS
CAGGTAGTTTAGGAACATTG+TGG 0.681497 1.4:+69314220 MS.gene07296:CDS
GAGGTGGAAGATCCTTGCAG+GGG 0.700426 1.4:-69313653 None:intergenic
AAGAGTTGTTGTGAGACCAG+TGG 0.721375 1.4:+69314134 MS.gene07296:CDS
AAGAACATAGAGAATACATG+GGG 0.725668 1.4:-69313812 None:intergenic
ACTGAGTCAGAATGATGACA+AGG 0.757755 1.4:+69314461 MS.gene07296:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTATCTAATTGTCACAAT+TGG + chr1.4:69314348-69314367 MS.gene07296:CDS 20.0%
! AAAAGAGAAAAGATAAGGTA+AGG - chr1.4:69313779-69313798 None:intergenic 25.0%
! AAAGAGAAAAGATAAGGTAA+GGG - chr1.4:69313778-69313797 None:intergenic 25.0%
! AACAAAGAAAGATGAAATGA+TGG + chr1.4:69314290-69314309 MS.gene07296:CDS 25.0%
! AATTGGATGAATCATTCATA+AGG - chr1.4:69313891-69313910 None:intergenic 25.0%
! ATAGCAAAAGAGAAAAGATA+AGG - chr1.4:69313784-69313803 None:intergenic 25.0%
! ATAGTTGAAGAAGAAATCTT+TGG - chr1.4:69313620-69313639 None:intergenic 25.0%
! TACATGAAACAACACAAATT+TGG + chr1.4:69314109-69314128 MS.gene07296:CDS 25.0%
!!! TTCACTTTTCAAATATGTGT+TGG + chr1.4:69313961-69313980 MS.gene07296:CDS 25.0%
!!! TTTCAAATATGTGTTGGTTT+AGG + chr1.4:69313967-69313986 MS.gene07296:CDS 25.0%
AAAGAAAGATGAAATGATGG+AGG + chr1.4:69314293-69314312 MS.gene07296:CDS 30.0%
AAGAACATAGAGAATACATG+GGG - chr1.4:69313815-69313834 None:intergenic 30.0%
ACAAGAACATAGAGAATACA+TGG - chr1.4:69313817-69313836 None:intergenic 30.0%
ACTTTGATCAATGGTTTGAT+GGG + chr1.4:69313856-69313875 MS.gene07296:CDS 30.0%
AGTTGAGAATTTAGGTGTTA+TGG + chr1.4:69314263-69314282 MS.gene07296:CDS 30.0%
AGTTTGGAGAAGAATAGAAT+TGG - chr1.4:69313908-69313927 None:intergenic 30.0%
ATGGATTTGAAGGTAGAATT+TGG - chr1.4:69313746-69313765 None:intergenic 30.0%
CAAGAACATAGAGAATACAT+GGG - chr1.4:69313816-69313835 None:intergenic 30.0%
CTAAGAGAAGAAAAGATAGA+GGG - chr1.4:69313708-69313727 None:intergenic 30.0%
GATTTCTCTATGTAGAAGAA+GGG + chr1.4:69314410-69314429 MS.gene07296:CDS 30.0%
TACTTTGATCAATGGTTTGA+TGG + chr1.4:69313855-69313874 MS.gene07296:CDS 30.0%
TCTAATTGTCACAATTGGTA+TGG + chr1.4:69314353-69314372 MS.gene07296:CDS 30.0%
TGATTTCTCTATGTAGAAGA+AGG + chr1.4:69314409-69314428 MS.gene07296:CDS 30.0%
TTGGAAAAAGAGAGAGATTA+TGG + chr1.4:69314178-69314197 MS.gene07296:CDS 30.0%
! AAGCAGAATGATATTTCTGT+TGG + chr1.4:69314083-69314102 MS.gene07296:CDS 30.0%
! AGCAGAATGATATTTCTGTT+GGG + chr1.4:69314084-69314103 MS.gene07296:CDS 30.0%
! GATTGTTAAAGGTCTTATGT+GGG + chr1.4:69314380-69314399 MS.gene07296:CDS 30.0%
!! GAATAGAAGAATTTGTTGGA+TGG + chr1.4:69314319-69314338 MS.gene07296:CDS 30.0%
AAACTCGTCTTTACATGTCA+TGG + chr1.4:69313923-69313942 MS.gene07296:CDS 35.0%
AAGGGTAACACAGATTAATG+AGG + chr1.4:69314428-69314447 MS.gene07296:CDS 35.0%
ACAGATTAATGAGGTGGAAT+TGG + chr1.4:69314437-69314456 MS.gene07296:CDS 35.0%
AGAGAGGAAGTTGAGAATTT+AGG + chr1.4:69314255-69314274 MS.gene07296:CDS 35.0%
ATCGTCAAAAACATCGTTGT+CGG - chr1.4:69314028-69314047 None:intergenic 35.0%
ATGACATGTAAAGACGAGTT+TGG - chr1.4:69313924-69313943 None:intergenic 35.0%
CAAAGTAGCTACACTTACAA+TGG - chr1.4:69313842-69313861 None:intergenic 35.0%
GCTAAGAGAAGAAAAGATAG+AGG - chr1.4:69313709-69313728 None:intergenic 35.0%
GTCTTTACATGTCATGGAAA+TGG + chr1.4:69313929-69313948 MS.gene07296:CDS 35.0%
GTGGGAATAGAAGAATTTGT+TGG + chr1.4:69314315-69314334 MS.gene07296:CDS 35.0%
! AAAGATGAAATGATGGAGGT+GGG + chr1.4:69314297-69314316 MS.gene07296:CDS 35.0%
! AGTGTAGCTACTTTGATCAA+TGG + chr1.4:69313847-69313866 MS.gene07296:CDS 35.0%
! GAGATTATGGATTGAGAAAG+TGG + chr1.4:69314191-69314210 MS.gene07296:CDS 35.0%
! GGATTGTTAAAGGTCTTATG+TGG + chr1.4:69314379-69314398 MS.gene07296:CDS 35.0%
! GTTGTTGTGAATGGATTTGA+AGG - chr1.4:69313756-69313775 None:intergenic 35.0%
!! GATGACACTATATTTGGTGT+TGG + chr1.4:69314159-69314178 MS.gene07296:CDS 35.0%
!! TAGAAGAATTTGTTGGATGG+TGG + chr1.4:69314322-69314341 MS.gene07296:CDS 35.0%
AAAAGATAGAGGGAGGAGAA+GGG - chr1.4:69313698-69313717 None:intergenic 40.0%
AACATAGAGAATACATGGGG+AGG - chr1.4:69313812-69313831 None:intergenic 40.0%
AAGGTAAGGGTTGTTGTGAA+TGG - chr1.4:69313765-69313784 None:intergenic 40.0%
AATATAGTGTCATCCACCAC+TGG - chr1.4:69314153-69314172 None:intergenic 40.0%
ACTGAGTCAGAATGATGACA+AGG + chr1.4:69314461-69314480 MS.gene07296:CDS 40.0%
AGAGAAGAAAAGATAGAGGG+AGG - chr1.4:69313705-69313724 None:intergenic 40.0%
CAGGTAGTTTAGGAACATTG+TGG + chr1.4:69314220-69314239 MS.gene07296:CDS 40.0%
GGTAACACAGATTAATGAGG+TGG + chr1.4:69314431-69314450 MS.gene07296:CDS 40.0%
GGTATGGTGAGGATTGTTAA+AGG + chr1.4:69314369-69314388 MS.gene07296:CDS 40.0%
GTAGTTTAGGAACATTGTGG+TGG + chr1.4:69314223-69314242 MS.gene07296:CDS 40.0%
TTGTCACAATTGGTATGGTG+AGG + chr1.4:69314358-69314377 MS.gene07296:CDS 40.0%
! ATGGATTGAGAAAGTGGTTG+TGG + chr1.4:69314197-69314216 MS.gene07296:CDS 40.0%
! GAAAGATGAAATGATGGAGG+TGG + chr1.4:69314296-69314315 MS.gene07296:CDS 40.0%
!! GACAACGATGTTTTTGACGA+TGG + chr1.4:69314027-69314046 MS.gene07296:CDS 40.0%
!! GTGGTGGATGACACTATATT+TGG + chr1.4:69314153-69314172 MS.gene07296:CDS 40.0%
!!! GACGATGGTTCTAGTAGTTT+TGG + chr1.4:69314042-69314061 MS.gene07296:CDS 40.0%
AAGAGTTGTTGTGAGACCAG+TGG + chr1.4:69314134-69314153 MS.gene07296:CDS 45.0%
ATTGAGAAAGTGGTTGTGGC+AGG + chr1.4:69314201-69314220 MS.gene07296:CDS 45.0%
GAAAAGATAGAGGGAGGAGA+AGG - chr1.4:69313699-69313718 None:intergenic 45.0%
GTTTAGGAACATTGTGGTGG+TGG + chr1.4:69314226-69314245 MS.gene07296:CDS 45.0%
! ATTGAAGCAAGCATTGCAGC+TGG + chr1.4:69313991-69314010 MS.gene07296:CDS 45.0%
! CTTCTCTTAGCTAGTCTCTC+TGG + chr1.4:69313718-69313737 MS.gene07296:CDS 45.0%
AGTTGTTGTGAGACCAGTGG+TGG + chr1.4:69314137-69314156 MS.gene07296:CDS 50.0%
GAGAAGGGTGAGGATAGTGA+TGG - chr1.4:69313683-69313702 None:intergenic 50.0%
GTGGTTGTGGCAGGTAGTTT+AGG + chr1.4:69314210-69314229 MS.gene07296:CDS 50.0%
TTGCTATCTACACCCCTGCA+AGG + chr1.4:69313641-69313660 MS.gene07296:CDS 50.0%
! TGAGGATAGTGATGGTGAGG+AGG - chr1.4:69313675-69313694 None:intergenic 50.0%
AGGAGGTGGAAGATCCTTGC+AGG - chr1.4:69313658-69313677 None:intergenic 55.0%
ATAGAGGGAGGAGAAGGGTG+AGG - chr1.4:69313693-69313712 None:intergenic 55.0%
GAGGTGGAAGATCCTTGCAG+GGG - chr1.4:69313656-69313675 None:intergenic 55.0%
GGAGGTGGAAGATCCTTGCA+GGG - chr1.4:69313657-69313676 None:intergenic 55.0%
! GGATAGTGATGGTGAGGAGG+TGG - chr1.4:69313672-69313691 None:intergenic 55.0%
! GGGTGAGGATAGTGATGGTG+AGG - chr1.4:69313678-69313697 None:intergenic 55.0%
!! GTGGTGGTGGAAGTTGAGAG+AGG + chr1.4:69314239-69314258 MS.gene07296:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 69313598 69314488 69313598 ID=MS.gene07296
chr1.4 mRNA 69313598 69314488 69313598 ID=MS.gene07296.t1;Parent=MS.gene07296
chr1.4 exon 69313598 69314488 69313598 ID=MS.gene07296.t1.exon1;Parent=MS.gene07296.t1
chr1.4 CDS 69313598 69314488 69313598 ID=cds.MS.gene07296.t1;Parent=MS.gene07296.t1
Gene Sequence

>MS.gene07296

ATGGATTGGCAGAAAAAATCCAAAGATTTCTTCTTCAACTATATTGCTATCTACACCCCTGCAAGGATCTTCCACCTCCTCACCATCACTATCCTCACCCTTCTCCTCCCTCTATCTTTTCTTCTCTTAGCTAGTCTCTCTGGTGCCAAATTCTACCTTCAAATCCATTCACAACAACCCTTACCTTATCTTTTCTCTTTTGCTATTCACACCTCCCCATGTATTCTCTATGTTCTTGTTTCCATTGTAAGTGTAGCTACTTTGATCAATGGTTTGATGGGAAAAATCAACCTTATGAATGATTCATCCAATTCTATTCTTCTCCAAACTCGTCTTTACATGTCATGGAAATGGATTCTTCTTTTCACTTTTCAAATATGTGTTGGTTTAGGAATTGAAGCAAGCATTGCAGCTGGAGTTTTCGACTCCGACAACGATGTTTTTGACGATGGTTCTAGTAGTTTTGGTGTTGAGAGAAGCTTCATAAGCAGAATGATATTTCTGTTGGGACTACATGAAACAACACAAATTTGGTCAAGAGTTGTTGTGAGACCAGTGGTGGATGACACTATATTTGGTGTTGGAAAAAGAGAGAGATTATGGATTGAGAAAGTGGTTGTGGCAGGTAGTTTAGGAACATTGTGGTGGTGGAAGTTGAGAGAGGAAGTTGAGAATTTAGGTGTTATGGCTGAAACAAAGAAAGATGAAATGATGGAGGTGGGAATAGAAGAATTTGTTGGATGGTGGTTATATTATCTAATTGTCACAATTGGTATGGTGAGGATTGTTAAAGGTCTTATGTGGGTGTTCATGATTTCTCTATGTAGAAGAAGGGTAACACAGATTAATGAGGTGGAATTGGAACTGAGTCAGAATGATGACAAGGTGTAA

Protein sequence

>MS.gene07296.t1

MDWQKKSKDFFFNYIAIYTPARIFHLLTITILTLLLPLSFLLLASLSGAKFYLQIHSQQPLPYLFSFAIHTSPCILYVLVSIVSVATLINGLMGKINLMNDSSNSILLQTRLYMSWKWILLFTFQICVGLGIEASIAAGVFDSDNDVFDDGSSSFGVERSFISRMIFLLGLHETTQIWSRVVVRPVVDDTIFGVGKRERLWIEKVVVAGSLGTLWWWKLREEVENLGVMAETKKDEMMEVGIEEFVGWWLYYLIVTIGMVRIVKGLMWVFMISLCRRRVTQINEVELELSQNDDKV