AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene053278


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 0 sgRNAs with CRISPR-Local

Find 143 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GACAAAATAAAAAGATGAAA+AGG - 32807:1049891-1049910 None:intergenic 20.0%
!!! ATTTTCAATTTACTTTAAGC+TGG + 32807:1050066-1050085 MS.gene053278:intron 20.0%
!!! GGTAACTGTTTTTTTTTTAA+TGG - 32807:1049724-1049743 None:intergenic 20.0%
!!! TTTTCAATTTACTTTAAGCT+GGG + 32807:1050067-1050086 MS.gene053278:intron 20.0%
! AAAAAACCACAAACTACATA+AGG - 32807:1050046-1050065 None:intergenic 25.0%
! AAAAACCACAAACTACATAA+GGG - 32807:1050045-1050064 None:intergenic 25.0%
! AAAATTCACATTGCAAATCA+AGG - 32807:1049745-1049764 None:intergenic 25.0%
! ATCATAGACTAATAGACTAA+AGG - 32807:1049845-1049864 None:intergenic 25.0%
! TAATTGTGTGAAAAAACAGA+TGG + 32807:1049789-1049808 MS.gene053278:intron 25.0%
! TATGACATAGAATGATGTTT+GGG + 32807:1049626-1049645 MS.gene053278:intron 25.0%
! TTATGACATAGAATGATGTT+TGG + 32807:1049625-1049644 MS.gene053278:intron 25.0%
!! CTAAAAAGTTTCAAAAGTAC+AGG - 32807:1049390-1049409 None:intergenic 25.0%
!!! CAGCTGCATTATTTTAATAT+TGG + 32807:1049988-1050007 MS.gene053278:intron 25.0%
!!! GGTATTTTTTATGCTTATAC+AGG + 32807:1050088-1050107 MS.gene053278:intron 25.0%
ACATAAAGAAATATCAGACC+TGG + 32807:1048726-1048745 MS.gene053278:CDS 30.0%
AGCTGACATGTATATAAGTA+TGG + 32807:1050556-1050575 MS.gene053278:CDS 30.0%
ATAGACTAATAGACTAAAGG+TGG - 32807:1049842-1049861 None:intergenic 30.0%
GACATGTATATAAGTATGGA+AGG + 32807:1050560-1050579 MS.gene053278:CDS 30.0%
TACAGAAAAACCATCAGAAT+CGG - 32807:1048686-1048705 None:intergenic 30.0%
TATAAGTATGGAAGGAAATG+CGG + 32807:1050568-1050587 MS.gene053278:CDS 30.0%
TGGAAACAAAATTGTACGAA+TGG + 32807:1050259-1050278 MS.gene053278:CDS 30.0%
TTTCAGCCCTTAAAAAACTT+GGG + 32807:1048998-1049017 MS.gene053278:CDS 30.0%
! TCTGATGGTTTTTCTGTAAA+TGG + 32807:1048688-1048707 MS.gene053278:CDS 30.0%
! TTTTTCTGTAAATGGTACAC+TGG + 32807:1048696-1048715 MS.gene053278:CDS 30.0%
!! TGAGTAGTTGTTCTAAAACT+AGG + 32807:1049684-1049703 MS.gene053278:intron 30.0%
AAAATCGTCATCCTGAACAA+CGG + 32807:1050426-1050445 MS.gene053278:CDS 35.0%
AAATATCAGACCTGGACAAA+TGG + 32807:1048734-1048753 MS.gene053278:CDS 35.0%
AACCATCAAATTGAAGCGAT+GGG - 32807:1049571-1049590 None:intergenic 35.0%
AAGAGAACATCCAAAAGATC+AGG - 32807:1048772-1048791 None:intergenic 35.0%
AAGGAGATATCCGATTTAGA+AGG + 32807:1048568-1048587 MS.gene053278:CDS 35.0%
AGAATTCTATTACCGAACGT+AGG + 32807:1048902-1048921 MS.gene053278:CDS 35.0%
AGTATAACATGCAAAGTCTC+CGG + 32807:1049073-1049092 MS.gene053278:CDS 35.0%
ATTCTTCTGAACTTGTGATG+TGG + 32807:1049211-1049230 MS.gene053278:CDS 35.0%
CATATCCTCCTAATGCTAAT+CGG + 32807:1049499-1049518 MS.gene053278:CDS 35.0%
CTTACAGGAATCTTGGTTTA+GGG - 32807:1050375-1050394 None:intergenic 35.0%
GAGTGTGTTCAAATAGCATT+GGG + 32807:1049324-1049343 MS.gene053278:CDS 35.0%
GTTTCAGCCCTTAAAAAACT+TGG + 32807:1048997-1049016 MS.gene053278:CDS 35.0%
TATCATCCTTACAGGAATCT+TGG - 32807:1050382-1050401 None:intergenic 35.0%
TCTAATGCTTGTTCAACACT+AGG - 32807:1049414-1049433 None:intergenic 35.0%
TGAAAGCTCACCTTCTAAAT+CGG - 32807:1048581-1048600 None:intergenic 35.0%
TTATCGATATCCGATTCTGA+TGG + 32807:1048673-1048692 MS.gene053278:CDS 35.0%
TTCAGCCCTTAAAAAACTTG+GGG + 32807:1048999-1049018 MS.gene053278:CDS 35.0%
TTCTAAATCGGATATCTCCT+TGG - 32807:1048569-1048588 None:intergenic 35.0%
TTCTTCTGAACTTGTGATGT+GGG + 32807:1049212-1049231 MS.gene053278:CDS 35.0%
TTGAAATGCTGTTGTACTAC+CGG - 32807:1049529-1049548 None:intergenic 35.0%
! AGCTAATTTTTGCCTACGTT+CGG - 32807:1048917-1048936 None:intergenic 35.0%
! AGTTGAGTTTCCTGATCTTT+TGG + 32807:1048759-1048778 MS.gene053278:CDS 35.0%
! TGATCTTTTGGATGTTCTCT+TGG + 32807:1048771-1048790 MS.gene053278:CDS 35.0%
! TTTGAGCCTGATTTTTACAG+AGG + 32807:1050514-1050533 MS.gene053278:CDS 35.0%
!! AAAAGCACTACCAGAATCAA+TGG + 32807:1050211-1050230 MS.gene053278:CDS 35.0%
!! AGTGACTCATTGGCTATTTT+TGG + 32807:1049174-1049193 MS.gene053278:CDS 35.0%
!!! ACCATCCCCAAGTTTTTTAA+GGG - 32807:1049007-1049026 None:intergenic 35.0%
!!! TCAGGTGAGACTTTTAGTTT+TGG + 32807:1049590-1049609 MS.gene053278:intron 35.0%
AAATCAGGCTCAAAGCATGT+TGG - 32807:1050508-1050527 None:intergenic 40.0%
AAATCGTCATCCTGAACAAC+GGG + 32807:1050427-1050446 MS.gene053278:CDS 40.0%
AACTACTCACATTGTCCCAA+CGG - 32807:1049673-1049692 None:intergenic 40.0%
AATAGTGATATAGCAGCCGT+TGG + 32807:1049654-1049673 MS.gene053278:intron 40.0%
ACAAGTTCAGAAGAATACGC+TGG - 32807:1049207-1049226 None:intergenic 40.0%
ACTCAACTAACCATTTGTCC+AGG - 32807:1048747-1048766 None:intergenic 40.0%
ACTCAAGCAACCTTGATACA+TGG + 32807:1048622-1048641 MS.gene053278:CDS 40.0%
AGCAACCTTGATACATGGTT+TGG + 32807:1048627-1048646 MS.gene053278:CDS 40.0%
AGTATATGCTCCTCCATATG+AGG - 32807:1049109-1049128 None:intergenic 40.0%
AGTGGATAGTAGGTTTCTGA+TGG - 32807:1048605-1048624 None:intergenic 40.0%
ATAGTGATATAGCAGCCGTT+GGG + 32807:1049655-1049674 MS.gene053278:intron 40.0%
ATGTATCAAGGTTGCTTGAG+TGG - 32807:1048623-1048642 None:intergenic 40.0%
CAAACTACATAAGGGAAACG+TGG - 32807:1050037-1050056 None:intergenic 40.0%
CACCATCCTCTGTAAAAATC+AGG - 32807:1050523-1050542 None:intergenic 40.0%
CATTTGCTCTTCTGGTGAAA+AGG + 32807:1049253-1049272 MS.gene053278:CDS 40.0%
CCTAAACCAAGATTCCTGTA+AGG + 32807:1050373-1050392 MS.gene053278:CDS 40.0%
CCTTACAGGAATCTTGGTTT+AGG - 32807:1050376-1050395 None:intergenic 40.0%
CGTTTCCCTTATGTAGTTTG+TGG + 32807:1050037-1050056 MS.gene053278:intron 40.0%
GAAATGCGGATGAAGTTGAA+TGG + 32807:1050582-1050601 MS.gene053278:CDS 40.0%
GAACCATCAAATTGAAGCGA+TGG - 32807:1049572-1049591 None:intergenic 40.0%
GCAGAGACAGAAGTAAAGAT+GGG - 32807:1048882-1048901 None:intergenic 40.0%
GCTTATACAGGACTTCTTTG+AGG + 32807:1050100-1050119 MS.gene053278:intron 40.0%
GGAGTGTGTTCAAATAGCAT+TGG + 32807:1049323-1049342 MS.gene053278:CDS 40.0%
TAGTTCATCAGCCAGTAATG+AGG - 32807:1050324-1050343 None:intergenic 40.0%
TCTACGGTTATCATCCTTAC+AGG - 32807:1050390-1050409 None:intergenic 40.0%
TGAATCGATGTGAACTCCAT+CGG - 32807:1048653-1048672 None:intergenic 40.0%
TGCAGAGACAGAAGTAAAGA+TGG - 32807:1048883-1048902 None:intergenic 40.0%
TGCTCATTATTAGAAGCTCG+TGG + 32807:1049351-1049370 MS.gene053278:CDS 40.0%
! AGCCTGATTTTTACAGAGGA+TGG + 32807:1050518-1050537 MS.gene053278:CDS 40.0%
! ATGACGATTTTGCCTTTCTG+TGG - 32807:1050417-1050436 None:intergenic 40.0%
! TCGCTTCAATTTGATGGTTC+AGG + 32807:1049572-1049591 MS.gene053278:CDS 40.0%
!! AACAGAAGCATTTGCTCTTC+TGG + 32807:1049245-1049264 MS.gene053278:CDS 40.0%
!! GAAGAAAGCTTTGAGGATTC+TGG + 32807:1050239-1050258 MS.gene053278:CDS 40.0%
!! TCTTCTTCGTCCATTGATTC+TGG - 32807:1050224-1050243 None:intergenic 40.0%
!!! CTCATTGGCTATTTTTGGTG+AGG + 32807:1049179-1049198 MS.gene053278:CDS 40.0%
!!! GACCATCCCCAAGTTTTTTA+AGG - 32807:1049008-1049027 None:intergenic 40.0%
AAGGCGAGTAGAAGAAGCTT+TGG + 32807:1048798-1048817 MS.gene053278:CDS 45.0%
AATCTGCTGGGCTTCAGTTT+CGG - 32807:1050285-1050304 None:intergenic 45.0%
ACAAGCTGCAAGTGACTCAT+TGG + 32807:1049164-1049183 MS.gene053278:CDS 45.0%
ACAGGAATCTTGGTTTAGGG+AGG - 32807:1050372-1050391 None:intergenic 45.0%
ACCGTAGAAGAACCACAGAA+AGG + 32807:1050402-1050421 MS.gene053278:CDS 45.0%
ACCTCTGCTTAGTATGCAGT+TGG + 32807:1050130-1050149 MS.gene053278:CDS 45.0%
ACGTTCTCCTTCATCAAGAG+CGG - 32807:1048824-1048843 None:intergenic 45.0%
AGGTTGCTTGAGTGGATAGT+AGG - 32807:1048615-1048634 None:intergenic 45.0%
ATCGGCCAAACCATGTATCA+AGG - 32807:1048635-1048654 None:intergenic 45.0%
ATGCACGAAGTTCAGATCCA+CGG - 32807:1048975-1048994 None:intergenic 45.0%
CCTCTGCTTAGTATGCAGTT+GGG + 32807:1050131-1050150 MS.gene053278:CDS 45.0%
GCCCTTAAAAAACTTGGGGA+TGG + 32807:1049003-1049022 MS.gene053278:CDS 45.0%
GCCTTTCTGTGGTTCTTCTA+CGG - 32807:1050406-1050425 None:intergenic 45.0%
GCTAGCTAATGCCTCATTAC+TGG + 32807:1050310-1050329 MS.gene053278:CDS 45.0%
GGACGAAGAAGAAAGCTTTG+AGG + 32807:1050232-1050251 MS.gene053278:CDS 45.0%
TATGGCTGCTGCTGATGATT+GGG + 32807:1049470-1049489 MS.gene053278:CDS 45.0%
TGCCCATCGCTTCAATTTGA+TGG + 32807:1049566-1049585 MS.gene053278:CDS 45.0%
TGGATGTTCTCTTGGCTGAA+AGG + 32807:1048779-1048798 MS.gene053278:CDS 45.0%
! CAGGACTTCTTTGAGGATGT+AGG + 32807:1050107-1050126 MS.gene053278:intron 45.0%
! CCTCCATATGAGGTGTTTGA+CGG - 32807:1049099-1049118 None:intergenic 45.0%
! TCTGGTGAAAAGGCATGCAT+TGG + 32807:1049263-1049282 MS.gene053278:CDS 45.0%
! TTGATACATGGTTTGGCCGA+TGG + 32807:1048634-1048653 MS.gene053278:CDS 45.0%
!! ACAAGAGAGTACTGCTGCTA+TGG + 32807:1049452-1049471 MS.gene053278:CDS 45.0%
AGCTAGCAGTGCAATCTGCT+GGG - 32807:1050297-1050316 None:intergenic 50.0%
AGGAGGTTTAAGAGCTGCTG+CGG + 32807:1049302-1049321 MS.gene053278:CDS 50.0%
AGTAGCAAGCTGTGAGCATG+CGG - 32807:1049030-1049049 None:intergenic 50.0%
AGTTCAGATCCACGGGTAGA+AGG - 32807:1048967-1048986 None:intergenic 50.0%
ATCCTGAACAACGGGAATGG+AGG + 32807:1050435-1050454 MS.gene053278:CDS 50.0%
CCCAACTGCATACTAAGCAG+AGG - 32807:1050134-1050153 None:intergenic 50.0%
CCGTCAAACACCTCATATGG+AGG + 32807:1049096-1049115 MS.gene053278:CDS 50.0%
CCTAATGCTAATCGGCAGAC+CGG + 32807:1049507-1049526 MS.gene053278:CDS 50.0%
CTATGGCTGCTGCTGATGAT+TGG + 32807:1049469-1049488 MS.gene053278:CDS 50.0%
CTGCTTAGTATGCAGTTGGG+AGG + 32807:1050134-1050153 MS.gene053278:CDS 50.0%
GTCATCCTGAACAACGGGAA+TGG + 32807:1050432-1050451 MS.gene053278:CDS 50.0%
GTTTAGGGAGGAGAGCTTCA+TGG - 32807:1050360-1050379 None:intergenic 50.0%
TAGCTAGCAGTGCAATCTGC+TGG - 32807:1050298-1050317 None:intergenic 50.0%
TGCACGAAGTTCAGATCCAC+GGG - 32807:1048974-1048993 None:intergenic 50.0%
! CATATGAGGTGTTTGACGGC+CGG - 32807:1049095-1049114 None:intergenic 50.0%
! GTCTGCCGATTAGCATTAGG+AGG - 32807:1049507-1049526 None:intergenic 50.0%
! TACTGCAGCTCTAGCACAAC+TGG + 32807:1049125-1049144 MS.gene053278:CDS 50.0%
CGGCCGTCAAACACCTCATA+TGG + 32807:1049093-1049112 MS.gene053278:CDS 55.0%
CTCCTCCATTCCCGTTGTTC+AGG - 32807:1050440-1050459 None:intergenic 55.0%
GAATGGAGGAGACGACTCGT+GGG + 32807:1050449-1050468 MS.gene053278:CDS 55.0%
GACTCGTGGGTTCAGTTGAC+AGG + 32807:1050462-1050481 MS.gene053278:CDS 55.0%
GCTTTGGCCGCTCTTGATGA+AGG + 32807:1048814-1048833 MS.gene053278:CDS 55.0%
TTGGCTTCATCAGCAGCTGC+AGG + 32807:1049282-1049301 MS.gene053278:CDS 55.0%
! CCGGTCTGCCGATTAGCATT+AGG - 32807:1049510-1049529 None:intergenic 55.0%
!! TGGGAGGACAAGCTCTGGAA+GGG + 32807:1050150-1050169 MS.gene053278:CDS 55.0%
!! TTGGGAGGACAAGCTCTGGA+AGG + 32807:1050149-1050168 MS.gene053278:CDS 55.0%
GCAGTTGGGAGGACAAGCTC+TGG + 32807:1050145-1050164 MS.gene053278:CDS 60.0%
GCTTCATCAGCAGCTGCAGG+AGG + 32807:1049285-1049304 MS.gene053278:CDS 60.0%
GCTTGTCAGCCTTCTACCCG+TGG + 32807:1048955-1048974 MS.gene053278:CDS 60.0%
GGAATGGAGGAGACGACTCG+TGG + 32807:1050448-1050467 MS.gene053278:CDS 60.0%
GAGAGCTTCATGGCTGCGCG+TGG - 32807:1050350-1050369 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
32807 gene 1048561 1050625 1048561 ID=MS.gene053278
32807 mRNA 1048561 1050625 1048561 ID=MS.gene053278.t1;Parent=MS.gene053278
32807 exon 1048561 1049593 1048561 ID=MS.gene053278.t1.exon1;Parent=MS.gene053278.t1
32807 CDS 1048561 1049593 1048561 ID=cds.MS.gene053278.t1;Parent=MS.gene053278.t1
32807 exon 1050110 1050625 1050110 ID=MS.gene053278.t1.exon2;Parent=MS.gene053278.t1
32807 CDS 1050110 1050625 1050110 ID=cds.MS.gene053278.t1;Parent=MS.gene053278.t1
Gene Sequence

>MS.gene053278

AACTTCCAAGGAGATATCCGATTTAGAAGGTGAGCTTTCATCCATCAGAAACCTACTATCCACTCAAGCAACCTTGATACATGGTTTGGCCGATGGAGTTCACATCGATTCATTATCGATATCCGATTCTGATGGTTTTTCTGTAAATGGTACACTGGATTCTGAACATAAAGAAATATCAGACCTGGACAAATGGTTAGTTGAGTTTCCTGATCTTTTGGATGTTCTCTTGGCTGAAAGGCGAGTAGAAGAAGCTTTGGCCGCTCTTGATGAAGGAGAACGTGTAGTCTCTGAAGCAAAAGAGATGAAATCTCTCAACCCATCTTTACTTCTGTCTCTGCAGAATTCTATTACCGAACGTAGGCAAAAATTAGCTGATCAGCTTGCTGAAGCTGCTTGTCAGCCTTCTACCCGTGGATCTGAACTTCGTGCATCAGTTTCAGCCCTTAAAAAACTTGGGGATGGTCCGCATGCTCACAGCTTGCTACTCAATGCTCATCTGCAACGATATCAGTATAACATGCAAAGTCTCCGGCCGTCAAACACCTCATATGGAGGAGCATATACTGCAGCTCTAGCACAACTGGTATTTTCTGCAGTTGCACAAGCTGCAAGTGACTCATTGGCTATTTTTGGTGAGGAGCCAGCGTATTCTTCTGAACTTGTGATGTGGGCTACAAAGCAAACAGAAGCATTTGCTCTTCTGGTGAAAAGGCATGCATTGGCTTCATCAGCAGCTGCAGGAGGTTTAAGAGCTGCTGCGGAGTGTGTTCAAATAGCATTGGGTCATTGCTCATTATTAGAAGCTCGTGGTCTAGCTCTCTGTCCTGTACTTTTGAAACTTTTTAGACCTAGTGTTGAACAAGCATTAGATGCGAATTTGAAGCGAATACAAGAGAGTACTGCTGCTATGGCTGCTGCTGATGATTGGGTACTCACATATCCTCCTAATGCTAATCGGCAGACCGGTAGTACAACAGCATTTCAACTTAAACTAACAAGTAGTGCCCATCGCTTCAATTTGATGGTTCAGGTGAGACTTTTAGTTTTGGCATAATATTGACTTATGACATAGAATGATGTTTGGGTGAGAAATAGTGATATAGCAGCCGTTGGGACAATGTGAGTAGTTGTTCTAAAACTAGGTGTATTATTATTAGCCATTAAAAAAAAAACAGTTACCTTGATTTGCAATGTGAATTTTTTCTGCTTTAAGTGAAGAAATTTGTAATTGTGTGAAAAAACAGATGGTTTATTTCAGTCATTTATAAATAATATCCACCTTTAGTCTATTAGTCTATGATTTTTTCTGTTTTTTTTTTTTTTTCCTTTTCATCTTTTTATTTTGTCTGTTAATAACATTTTAAACTTTAACTTAATGAGATTGAATAAAAAATTGTCTTCGCACTTCAATACACACAGCTACTCAGCTGCATTATTTTAATATTGGTTTACTTAATATCAAGTTATTTTCCACGTTTCCCTTATGTAGTTTGTGGTTTTTTATTTTCAATTTACTTTAAGCTGGGTATTTTTTATGCTTATACAGGACTTCTTTGAGGATGTAGGACCTCTGCTTAGTATGCAGTTGGGAGGACAAGCTCTGGAAGGGTTGTTTCAAGTATTTAACTCTTATGTAAACATGCTTATAAAAGCACTACCAGAATCAATGGACGAAGAAGAAAGCTTTGAGGATTCTGGAAACAAAATTGTACGAATGGCCGAAACTGAAGCCCAGCAGATTGCACTGCTAGCTAATGCCTCATTACTGGCTGATGAACTACTTCCACGCGCAGCCATGAAGCTCTCCTCCCTAAACCAAGATTCCTGTAAGGATGATAACCGTAGAAGAACCACAGAAAGGCAAAATCGTCATCCTGAACAACGGGAATGGAGGAGACGACTCGTGGGTTCAGTTGACAGGTTGAAAGATTCATTCTGTCGCCAACATGCTTTGAGCCTGATTTTTACAGAGGATGGTGATAGTCATCTTACAGCTGACATGTATATAAGTATGGAAGGAAATGCGGATGAAGTTGAATGGATTCCGTCTTTGATTTTTCAG

Protein sequence

>MS.gene053278.t1

NFQGDIRFRRUAFIHQKPTIHSSNLDTWFGRWSSHRFIIDIRFUWFFCKWYTGFUTURNIRPGQMVSUVSUSFGCSLGUKASRRSFGRSUURRTCSLUSKRDEISQPIFTSVSAEFYYRTUAKISUSACUSCLSAFYPWIUTSCISFSPUKTWGWSACSQLATQCSSATISVUHAKSPAVKHLIWRSIYCSSSTTGIFCSCTSCKULIGYFWUGASVFFUTCDVGYKANRSICSSGEKACIGFISSCRRFKSCCGVCSNSIGSLLIIRSSWSSSLSCTFETFUTUCUTSIRCEFEANTREYCCYGCCUULGTHISSUCUSADRUYNSISTUTNKUCPSLQFDGSGLLUGCRTSAUYAVGRTSSGRVVSSIULLCKHAYKSTTRINGRRRKLUGFWKQNCTNGRNUSPADCTASUCLITGUUTTSTRSHEALLPKPRFLUGUUPUKNHRKAKSSSUTTGMEETTRGFSUQVERFILSPTCFEPDFYRGWUUSSYSUHVYKYGRKCGUSUMDSVFDFS