AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480022417.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022417.01.T01 MTR_4g089080 97.927 193 4 0 1 193 1 193 4.36e-134 373
MsG0480022417.01.T01 MTR_3g026020 39.429 175 93 4 25 191 18 187 6.94e-20 83.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022417.01.T01 AT1G74730 65.625 192 64 2 3 193 8 198 7.57e-67 203
MsG0480022417.01.T01 AT5G08050 40.000 125 67 2 72 193 39 158 6.70e-15 69.3

Find 61 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGGCTGTTGGGTTGTTTGC+TGG 0.240768 4:-72288262 MsG0480022417.01.T01:CDS
TGTTGTTCTCGGCGGGTTGC+AGG 0.251096 4:-72288236 MsG0480022417.01.T01:CDS
CTCTTGGTGTTGGGGCTGTT+GGG 0.261115 4:-72288273 MsG0480022417.01.T01:CDS
TTGTGTATGTACCTTCTTCT+TGG 0.269616 4:+72288739 None:intergenic
GCTCTTGGTGTTGGGGCTGT+TGG 0.285475 4:-72288274 MsG0480022417.01.T01:CDS
TACTACTCTTGTTGTAGTTC+AGG 0.286824 4:-72288311 MsG0480022417.01.T01:CDS
TTGCTGCTGCTCTTGGTGTT+GGG 0.287275 4:-72288282 MsG0480022417.01.T01:CDS
TCTGGCGCTTCCGACGCTTT+TGG 0.312429 4:-72288371 MsG0480022417.01.T01:CDS
TCCTTCCGTCTTGGCTTCTC+TGG 0.328777 4:-72288389 MsG0480022417.01.T01:CDS
GAAGACGGTGAAAGGTTTAT+TGG 0.335357 4:+72288772 None:intergenic
GTTGCTGCTGCTCTTGGTGT+TGG 0.359407 4:-72288283 MsG0480022417.01.T01:CDS
TGAACAAGTACAACGATAAC+TGG 0.365581 4:-72288645 MsG0480022417.01.T01:CDS
GCTGTTGTTGCTGCTGCTCT+TGG 0.375504 4:-72288289 MsG0480022417.01.T01:CDS
TGTGTATGTACCTTCTTCTT+GGG 0.376534 4:+72288740 None:intergenic
TTTGCTGGATCTGTTGTTCT+CGG 0.382286 4:-72288247 MsG0480022417.01.T01:CDS
TTATCCAAAGCTGAAGAATT+CGG 0.394470 4:-72288505 MsG0480022417.01.T01:CDS
GACGCCGAATTCTTCAGCTT+TGG 0.394886 4:+72288501 None:intergenic
CGCAGTCTCTCCTTCCGTCT+TGG 0.401430 4:-72288398 MsG0480022417.01.T01:CDS
CTGGATCTGTTGTTCTCGGC+GGG 0.425288 4:-72288243 MsG0480022417.01.T01:CDS
AAGGTTTATTGGAGGGAGTA+GGG 0.427009 4:+72288783 None:intergenic
TGCTGCTGCTCTTGGTGTTG+GGG 0.441410 4:-72288281 MsG0480022417.01.T01:CDS
TCATCTCATTATATAATACA+AGG 0.475880 4:-72288095 MsG0480022417.01.T01:three_prime_UTR
TGGAGAGCTGAGGTTGGAGC+AGG 0.490180 4:+72288857 None:intergenic
CGCCATGGCTCCCAAGAAGA+AGG 0.494856 4:-72288750 MsG0480022417.01.T01:intron
AAAGGTTTATTGGAGGGAGT+AGG 0.498790 4:+72288782 None:intergenic
TACCTTCTTCTTGGGAGCCA+TGG 0.501630 4:+72288748 None:intergenic
AACTGGAAGAAACAATGGTT+CGG 0.517807 4:-72288628 MsG0480022417.01.T01:CDS
TTATATAATGAGATGAAGAA+AGG 0.522716 4:+72288102 None:intergenic
CTTGGGAGCCATGGCGAAGA+CGG 0.523930 4:+72288757 None:intergenic
AAGAAACAATGGTTCGGAGC+AGG 0.525520 4:-72288622 MsG0480022417.01.T01:CDS
GCCAGAGAAGCCAAGACGGA+AGG 0.526449 4:+72288388 None:intergenic
AGCGATAGTGACGGAGGGTG+CGG 0.535126 4:+72288810 None:intergenic
ACAAGAGTAGTAGAATCATC+AGG 0.544351 4:+72288322 None:intergenic
ACCTTTCACCGTCTTCGCCA+TGG 0.548618 4:-72288765 MsG0480022417.01.T01:CDS
ACGGTGAAAGGTTTATTGGA+GGG 0.551755 4:+72288776 None:intergenic
GACGGTGAAAGGTTTATTGG+AGG 0.551953 4:+72288775 None:intergenic
AGGAAGCGAAGAAGTAGAAG+TGG 0.553396 4:-72288587 MsG0480022417.01.T01:CDS
CTCTCTTCAATCGAGAAACT+AGG 0.554038 4:-72288475 MsG0480022417.01.T01:CDS
GCCATGGCGAAGACGGTGAA+AGG 0.555013 4:+72288764 None:intergenic
AAGCGCCAGAGAAGCCAAGA+CGG 0.557107 4:+72288384 None:intergenic
TGTTCTCGGCGGGTTGCAGG+AGG 0.559794 4:-72288233 MsG0480022417.01.T01:CDS
GGAGGGTGCGGTGGTTAGTG+TGG 0.562291 4:+72288822 None:intergenic
TTTGGCTGCTGTTGCGACGG+TGG 0.563007 4:-72288353 MsG0480022417.01.T01:CDS
TAGTGTGGATGTGTTGAAGA+TGG 0.568146 4:+72288837 None:intergenic
CATCAATCAATCATCATCCA+TGG 0.577265 4:-72288885 MsG0480022417.01.T01:exon
TGAAGATGGAGAGCTGAGGT+TGG 0.585555 4:+72288851 None:intergenic
GGAAACGATCGCACATGAAG+AGG 0.588048 4:-72288981 None:intergenic
GGTTGGAGCAGGAACAGCCA+TGG 0.616976 4:+72288868 None:intergenic
GCTGGATCTGTTGTTCTCGG+CGG 0.618325 4:-72288244 MsG0480022417.01.T01:CDS
ACGATAACTGGAAGAAACAA+TGG 0.622411 4:-72288633 MsG0480022417.01.T01:CDS
CAAGACGGAAGGAGAGACTG+CGG 0.624177 4:+72288399 None:intergenic
GATAGTGACGGAGGGTGCGG+TGG 0.630396 4:+72288813 None:intergenic
TAGGGAATGAGCGATAGTGA+CGG 0.635156 4:+72288801 None:intergenic
GCAACAGCAGCCAAAAGCGT+CGG 0.640980 4:+72288361 None:intergenic
GGAATGAGCGATAGTGACGG+AGG 0.658654 4:+72288804 None:intergenic
GAATGAGCGATAGTGACGGA+GGG 0.663461 4:+72288805 None:intergenic
CATCTCATTATATAATACAA+GGG 0.670501 4:-72288094 MsG0480022417.01.T01:three_prime_UTR
GGAGCAGGAATATTCTACGA+AGG 0.698664 4:-72288607 MsG0480022417.01.T01:CDS
TGCAATCTCAACTGCCACGT+AGG 0.711060 4:+72288927 None:intergenic
GTGTTGAAGATGGAGAGCTG+AGG 0.722843 4:+72288847 None:intergenic
ACTCTATTGATTGTCCTACG+TGG 0.755869 4:-72288941 MsG0480022417.01.T01:five_prime_UTR

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTATTTGAATTTATGTTAA+TGG - Chr4:72288357-72288376 MsG0480022417.01.T01:CDS 10.0%
!! AAAAATAATGATGAAAATGA+TGG + Chr4:72288326-72288345 None:intergenic 15.0%
!! CATCTCATTATATAATACAA+GGG - Chr4:72288941-72288960 MsG0480022417.01.T01:five_prime_UTR 20.0%
!! TCATCTCATTATATAATACA+AGG - Chr4:72288940-72288959 MsG0480022417.01.T01:five_prime_UTR 20.0%
!! TTATATAATGAGATGAAGAA+AGG + Chr4:72288936-72288955 None:intergenic 20.0%
!!! TGAATTTATGTTAATGGATA+TGG - Chr4:72288363-72288382 MsG0480022417.01.T01:CDS 20.0%
!! TTTATGTTAATGGATATGGA+AGG - Chr4:72288367-72288386 MsG0480022417.01.T01:CDS 25.0%
AATTACAACAAAAACAACCG+CGG + Chr4:72288856-72288875 None:intergenic 30.0%
TTATCCAAAGCTGAAGAATT+CGG - Chr4:72288530-72288549 MsG0480022417.01.T01:CDS 30.0%
!!! GAAACTAGGACTTTTTTCTA+AGG - Chr4:72288574-72288593 MsG0480022417.01.T01:CDS 30.0%
AACTGGAAGAAACAATGGTT+CGG - Chr4:72288407-72288426 MsG0480022417.01.T01:CDS 35.0%
ACAAGAGTAGTAGAATCATC+AGG + Chr4:72288716-72288735 None:intergenic 35.0%
ACGATAACTGGAAGAAACAA+TGG - Chr4:72288402-72288421 MsG0480022417.01.T01:CDS 35.0%
CATCAATCAATCATCATCCA+TGG - Chr4:72288150-72288169 MsG0480022417.01.T01:three_prime_UTR 35.0%
TGAACAAGTACAACGATAAC+TGG - Chr4:72288390-72288409 MsG0480022417.01.T01:CDS 35.0%
TGTGTATGTACCTTCTTCTT+GGG + Chr4:72288298-72288317 None:intergenic 35.0%
TTAAGCAACGTTGAAAAAGC+AGG - Chr4:72288503-72288522 MsG0480022417.01.T01:CDS 35.0%
TTGTGTATGTACCTTCTTCT+TGG + Chr4:72288299-72288318 None:intergenic 35.0%
! TACTACTCTTGTTGTAGTTC+AGG - Chr4:72288724-72288743 MsG0480022417.01.T01:intron 35.0%
!! AGTACACATGTTTTTAACCG+CGG - Chr4:72288836-72288855 MsG0480022417.01.T01:CDS 35.0%
!!! ACTAGGACTTTTTTCTAAGG+CGG - Chr4:72288577-72288596 MsG0480022417.01.T01:CDS 35.0%
AAAGGTTTATTGGAGGGAGT+AGG + Chr4:72288256-72288275 None:intergenic 40.0%
AAGGTTTATTGGAGGGAGTA+GGG + Chr4:72288255-72288274 None:intergenic 40.0%
ACGGTGAAAGGTTTATTGGA+GGG + Chr4:72288262-72288281 None:intergenic 40.0%
CTCTCTTCAATCGAGAAACT+AGG - Chr4:72288560-72288579 MsG0480022417.01.T01:CDS 40.0%
GAAGACGGTGAAAGGTTTAT+TGG + Chr4:72288266-72288285 None:intergenic 40.0%
TAGTGTGGATGTGTTGAAGA+TGG + Chr4:72288201-72288220 None:intergenic 40.0%
TTTGCTGGATCTGTTGTTCT+CGG - Chr4:72288788-72288807 MsG0480022417.01.T01:CDS 40.0%
! ACTCTATTGATTGTCCTACG+TGG - Chr4:72288094-72288113 MsG0480022417.01.T01:three_prime_UTR 40.0%
!!! TTTTCTAAGGCGGAAGAACT+TGG - Chr4:72288587-72288606 MsG0480022417.01.T01:CDS 40.0%
AGGAAGCGAAGAAGTAGAAG+TGG - Chr4:72288448-72288467 MsG0480022417.01.T01:CDS 45.0%
GACGGTGAAAGGTTTATTGG+AGG + Chr4:72288263-72288282 None:intergenic 45.0%
GGAGCAGGAATATTCTACGA+AGG - Chr4:72288428-72288447 MsG0480022417.01.T01:CDS 45.0%
TAGGGAATGAGCGATAGTGA+CGG + Chr4:72288237-72288256 None:intergenic 45.0%
! AAGAAACAATGGTTCGGAGC+AGG - Chr4:72288413-72288432 MsG0480022417.01.T01:CDS 45.0%
GACGCCGAATTCTTCAGCTT+TGG + Chr4:72288537-72288556 None:intergenic 50.0%
GTGTTGAAGATGGAGAGCTG+AGG + Chr4:72288191-72288210 None:intergenic 50.0%
TACCTTCTTCTTGGGAGCCA+TGG + Chr4:72288290-72288309 None:intergenic 50.0%
TGAAGATGGAGAGCTGAGGT+TGG + Chr4:72288187-72288206 None:intergenic 50.0%
TGCAATCTCAACTGCCACGT+AGG + Chr4:72288111-72288130 None:intergenic 50.0%
! GAATGAGCGATAGTGACGGA+GGG + Chr4:72288233-72288252 None:intergenic 50.0%
!! TTGCTGCTGCTCTTGGTGTT+GGG - Chr4:72288753-72288772 MsG0480022417.01.T01:CDS 50.0%
AAGCGCCAGAGAAGCCAAGA+CGG + Chr4:72288654-72288673 None:intergenic 55.0%
ACCTTTCACCGTCTTCGCCA+TGG - Chr4:72288270-72288289 MsG0480022417.01.T01:CDS 55.0%
CAAGACGGAAGGAGAGACTG+CGG + Chr4:72288639-72288658 None:intergenic 55.0%
CTGGATCTGTTGTTCTCGGC+GGG - Chr4:72288792-72288811 MsG0480022417.01.T01:CDS 55.0%
GCTGGATCTGTTGTTCTCGG+CGG - Chr4:72288791-72288810 MsG0480022417.01.T01:CDS 55.0%
GCTGTTGTTGCTGCTGCTCT+TGG - Chr4:72288746-72288765 MsG0480022417.01.T01:intron 55.0%
GGAATGAGCGATAGTGACGG+AGG + Chr4:72288234-72288253 None:intergenic 55.0%
TCCTTCCGTCTTGGCTTCTC+TGG - Chr4:72288646-72288665 MsG0480022417.01.T01:CDS 55.0%
! GCAACAGCAGCCAAAAGCGT+CGG + Chr4:72288677-72288696 None:intergenic 55.0%
! GTTGCTGCTGCTCTTGGTGT+TGG - Chr4:72288752-72288771 MsG0480022417.01.T01:CDS 55.0%
!! CTCTTGGTGTTGGGGCTGTT+GGG - Chr4:72288762-72288781 MsG0480022417.01.T01:CDS 55.0%
!! GCTTTTGGCTGCTGTTGCGA+CGG - Chr4:72288679-72288698 MsG0480022417.01.T01:intron 55.0%
!! TGCTGCTGCTCTTGGTGTTG+GGG - Chr4:72288754-72288773 MsG0480022417.01.T01:CDS 55.0%
CGCAGTCTCTCCTTCCGTCT+TGG - Chr4:72288637-72288656 MsG0480022417.01.T01:CDS 60.0%
CGCCATGGCTCCCAAGAAGA+AGG - Chr4:72288285-72288304 MsG0480022417.01.T01:CDS 60.0%
CTTGGGAGCCATGGCGAAGA+CGG + Chr4:72288281-72288300 None:intergenic 60.0%
GCCAGAGAAGCCAAGACGGA+AGG + Chr4:72288650-72288669 None:intergenic 60.0%
GCCATGGCGAAGACGGTGAA+AGG + Chr4:72288274-72288293 None:intergenic 60.0%
GGTTGGAGCAGGAACAGCCA+TGG + Chr4:72288170-72288189 None:intergenic 60.0%
TGGAGAGCTGAGGTTGGAGC+AGG + Chr4:72288181-72288200 None:intergenic 60.0%
TTTGGCTGCTGTTGCGACGG+TGG - Chr4:72288682-72288701 MsG0480022417.01.T01:intron 60.0%
! AGCGATAGTGACGGAGGGTG+CGG + Chr4:72288228-72288247 None:intergenic 60.0%
! GGGGCTGTTGGGTTGTTTGC+TGG - Chr4:72288773-72288792 MsG0480022417.01.T01:CDS 60.0%
! TCTGGCGCTTCCGACGCTTT+TGG - Chr4:72288664-72288683 MsG0480022417.01.T01:intron 60.0%
!! GCTCTTGGTGTTGGGGCTGT+TGG - Chr4:72288761-72288780 MsG0480022417.01.T01:CDS 60.0%
!! TGTTGTTCTCGGCGGGTTGC+AGG - Chr4:72288799-72288818 MsG0480022417.01.T01:CDS 60.0%
! GATAGTGACGGAGGGTGCGG+TGG + Chr4:72288225-72288244 None:intergenic 65.0%
! GGAGGGTGCGGTGGTTAGTG+TGG + Chr4:72288216-72288235 None:intergenic 65.0%
!! TGTTCTCGGCGGGTTGCAGG+AGG - Chr4:72288802-72288821 MsG0480022417.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr4 gene 72288060 72288997 72288060 ID=MsG0480022417.01;Name=MsG0480022417.01
Chr4 mRNA 72288060 72288997 72288060 ID=MsG0480022417.01.T01;Parent=MsG0480022417.01;Name=MsG0480022417.01.T01;_AED=0.49;_eAED=0.49;_QI=109|1|1|1|1|1|2|165|193
Chr4 exon 72288060 72288668 72288060 ID=MsG0480022417.01.T01:exon:10158;Parent=MsG0480022417.01.T01
Chr4 exon 72288751 72288997 72288751 ID=MsG0480022417.01.T01:exon:10157;Parent=MsG0480022417.01.T01
Chr4 five_prime_UTR 72288889 72288997 72288889 ID=MsG0480022417.01.T01:five_prime_utr;Parent=MsG0480022417.01.T01
Chr4 CDS 72288751 72288888 72288751 ID=MsG0480022417.01.T01:cds;Parent=MsG0480022417.01.T01
Chr4 CDS 72288225 72288668 72288225 ID=MsG0480022417.01.T01:cds;Parent=MsG0480022417.01.T01
Chr4 three_prime_UTR 72288060 72288224 72288060 ID=MsG0480022417.01.T01:three_prime_utr;Parent=MsG0480022417.01.T01
Gene Sequence

>MsG0480022417.01.T01

ATGGCTGTTCCTGCTCCAACCTCAGCTCTCCATCTTCAACACATCCACACTAACCACCGCACCCTCCGTCACTATCGCTCATTCCCTACTCCCTCCAATAAACCTTTCACCGTCTTCGCCATGGCTCCCAAGAAGAAGGTGAACAAGTACAACGATAACTGGAAGAAACAATGGTTCGGAGCAGGAATATTCTACGAAGGAAGCGAAGAAGTAGAAGTGGACGTATTCAAGAAACTCGAGAAACGCAAAGTTTTAAGCAACGTTGAAAAAGCAGGATTATTATCCAAAGCTGAAGAATTCGGCGTCACGCTCTCTTCAATCGAGAAACTAGGACTTTTTTCTAAGGCGGAAGAACTTGGCTTACTCAGCTTATTAGAGAAACTCGCCGCAGTCTCTCCTTCCGTCTTGGCTTCTCTGGCGCTTCCGACGCTTTTGGCTGCTGTTGCGACGGTGGTTCTTGTTCCTGATGATTCTACTACTCTTGTTGTAGTTCAGGCTGTTGTTGCTGCTGCTCTTGGTGTTGGGGCTGTTGGGTTGTTTGCTGGATCTGTTGTTCTCGGCGGGTTGCAGGAGGCTGATTGA

Protein sequence

>MsG0480022417.01.T01

MAVPAPTSALHLQHIHTNHRTLRHYRSFPTPSNKPFTVFAMAPKKKVNKYNDNWKKQWFGAGIFYEGSEEVEVDVFKKLEKRKVLSNVEKAGLLSKAEEFGVTLSSIEKLGLFSKAEELGLLSLLEKLAAVSPSVLASLALPTLLAAVATVVLVPDDSTTLVVVQAVVAAALGVGAVGLFAGSVVLGGLQEAD*