AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780041705.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041705.01.T01 MTR_7g116610 93.452 168 3 3 6 171 3 164 6.72e-112 315
MsG0780041705.01.T01 MTR_8g011470 32.121 165 84 4 6 168 8 146 2.63e-18 77.4
MsG0780041705.01.T01 MTR_8g011470 35.065 154 65 6 6 154 8 131 6.59e-16 70.5
MsG0780041705.01.T01 MTR_7g052620 29.379 177 85 7 4 171 6 151 3.17e-13 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041705.01.T01 AT5G18310 36.095 169 91 5 5 168 11 167 1.96e-22 88.6
MsG0780041705.01.T01 AT5G18310 34.756 164 72 5 5 168 11 139 2.99e-20 82.0
MsG0780041705.01.T01 AT5G48500 31.395 172 93 6 3 166 9 163 1.43e-15 70.5
MsG0780041705.01.T01 AT5G18310 32.237 152 86 5 22 168 1 140 2.81e-12 61.2

Find 44 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATAAACTTACATCCATATT+TGG 0.155608 7:+94249361 None:intergenic
TTGATTTCCTTTATTCAATT+TGG 0.191566 7:-94248006 MsG0780041705.01.T01:three_prime_UTR
GTTTCAAAGTATTGAGTTAT+TGG 0.194110 7:+94249190 None:intergenic
TCTCATTCACCATAACATTT+TGG 0.210593 7:+94248595 None:intergenic
TTCTTGTTCATTTGCTTCCT+TGG 0.212136 7:+94248501 None:intergenic
TTGCATTCTTAAATTTAATT+TGG 0.223613 7:-94248031 MsG0780041705.01.T01:three_prime_UTR
AGATCTTCATCAACAGGTTT+TGG 0.271957 7:+94248441 None:intergenic
TTGATTTAAGAATCCAAATA+TGG 0.274014 7:-94249374 MsG0780041705.01.T01:exon
AGTGGTCAAATACCAGCTTT+TGG 0.338641 7:-94249238 MsG0780041705.01.T01:CDS
ATGTGTAGGCAACAAGGAAT+AGG 0.352813 7:-94248629 MsG0780041705.01.T01:intron
TTATAGAGATCTTCATCAAC+AGG 0.392468 7:+94248435 None:intergenic
GGGTTTCATTTCCAAGTGTC+TGG 0.396397 7:-94248262 MsG0780041705.01.T01:CDS
GGAAGTCTCGTTGGTTGTAA+TGG 0.406598 7:+94248462 None:intergenic
ATTCGTTACAGTTCTTCATC+TGG 0.411701 7:-94249148 MsG0780041705.01.T01:CDS
GCACCGACCAAATTGAATAA+AGG 0.418258 7:+94247999 None:intergenic
GTGGTTGTTACCTTTCGAAC+TGG 0.453480 7:+94249052 None:intergenic
AAGGAAGTACCAAAATGTTA+TGG 0.457410 7:-94248604 MsG0780041705.01.T01:CDS
TTAGTGATCATTTGTACGTT+GGG 0.466344 7:-94247947 MsG0780041705.01.T01:three_prime_UTR
AGCTACTTCGCACAACTAAG+AGG 0.477902 7:-94248401 MsG0780041705.01.T01:CDS
TTAGTTGTGCGAAGTAGCTC+AGG 0.482904 7:+94248405 None:intergenic
TTTGAAACTGCAAGACAAGC+TGG 0.494930 7:-94249175 MsG0780041705.01.T01:CDS
AACGCTAACGCATGTTGTGC+TGG 0.495224 7:-94248139 MsG0780041705.01.T01:three_prime_UTR
AGCAGCAGGCACCAGACACT+TGG 0.496535 7:+94248251 None:intergenic
AAATCCCAGTTTCCAAAAGC+TGG 0.500624 7:+94249226 None:intergenic
AGGGAAAGTGTACGATGTAA+TGG 0.505138 7:-94248529 MsG0780041705.01.T01:CDS
TGTGTAGGCAACAAGGAATA+GGG 0.512863 7:-94248628 MsG0780041705.01.T01:intron
CTGCTGCTTGTGTTTCATGA+GGG 0.515777 7:-94248236 MsG0780041705.01.T01:exon
GTTAGTGATCATTTGTACGT+TGG 0.526208 7:-94247948 MsG0780041705.01.T01:three_prime_UTR
CCTGCTGCTTGTGTTTCATG+AGG 0.531196 7:-94248237 MsG0780041705.01.T01:exon
TTTCCTTTATTCAATTTGGT+CGG 0.541625 7:-94248002 MsG0780041705.01.T01:three_prime_UTR
CCTCATGAAACACAAGCAGC+AGG 0.582533 7:+94248237 None:intergenic
GTTTCTATAATCAATCACTA+AGG 0.600084 7:-94248198 MsG0780041705.01.T01:three_prime_UTR
TTATAAGAAACCAGTTCGAA+AGG 0.603514 7:-94249062 MsG0780041705.01.T01:intron
GCTGCACGAACATGAACGTA+AGG 0.605636 7:+94249115 None:intergenic
AAGGAAGCAAATGAACAAGA+AGG 0.611603 7:-94248499 MsG0780041705.01.T01:CDS
TAATAGGAATGGAAGAGAAG+TGG 0.615162 7:-94249256 MsG0780041705.01.T01:intron
TGAACATGAGAAAGCAGCAA+GGG 0.621624 7:-94248548 MsG0780041705.01.T01:CDS
GTTGTGCGAAGTAGCTCAGG+AGG 0.623117 7:+94248408 None:intergenic
ACGATGTAATGGAACATCCA+AGG 0.634761 7:-94248518 MsG0780041705.01.T01:CDS
GCTACTTCGCACAACTAAGA+GGG 0.636297 7:-94248400 MsG0780041705.01.T01:intron
AGGCAACAAGGAATAGGGAA+AGG 0.648026 7:-94248623 MsG0780041705.01.T01:CDS
ATGAACATGAGAAAGCAGCA+AGG 0.652015 7:-94248549 MsG0780041705.01.T01:CDS
GTTGTTATGTGTAGGCAACA+AGG 0.682654 7:-94248635 MsG0780041705.01.T01:intron
TTGTGCGAAGTAGCTCAGGA+GGG 0.688459 7:+94248409 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTGCATTCTTAAATTTAATT+TGG - Chr7:94249276-94249295 MsG0780041705.01.T01:intron 15.0%
!!! AGTAGTACAAAAATAATTTT+TGG - Chr7:94248615-94248634 MsG0780041705.01.T01:CDS 15.0%
!! AAAGTTGTAAGGTTAAAATT+TGG + Chr7:94248319-94248338 None:intergenic 20.0%
!! AAGAACAAGAAAAAACAAAA+AGG + Chr7:94248280-94248299 None:intergenic 20.0%
!! AATAAACTTACATCCATATT+TGG + Chr7:94247949-94247968 None:intergenic 20.0%
!! ATTAACAACATTTCAAATCA+CGG + Chr7:94248986-94249005 None:intergenic 20.0%
!! TTGATTTAAGAATCCAAATA+TGG - Chr7:94247933-94247952 MsG0780041705.01.T01:three_prime_UTR 20.0%
!! TTGATTTCCTTTATTCAATT+TGG - Chr7:94249301-94249320 MsG0780041705.01.T01:intron 20.0%
!!! ACATTTTAATTTAGACACAA+TGG + Chr7:94249399-94249418 None:intergenic 20.0%
!!! ACTAAGGAAGTTTAATTTTT+TGG - Chr7:94249125-94249144 MsG0780041705.01.T01:CDS 20.0%
!!! GTACAAAAATAATTTTTGGT+TGG - Chr7:94248619-94248638 MsG0780041705.01.T01:CDS 20.0%
!!! TAATGTTTGTTGTTGTTAAT+AGG - Chr7:94248035-94248054 MsG0780041705.01.T01:three_prime_UTR 20.0%
! AACAAGAAAAAACAAAAAGG+TGG + Chr7:94248277-94248296 None:intergenic 25.0%
! AATAATGTGATGGTTAAGAA+AGG - Chr7:94248538-94248557 MsG0780041705.01.T01:CDS 25.0%
! AATTAAAATGTCTGTTGTCA+CGG - Chr7:94249408-94249427 MsG0780041705.01.T01:five_prime_UTR 25.0%
! CAATGATTATGAAAGTTGTA+AGG + Chr7:94248330-94248349 None:intergenic 25.0%
! CATCACATTATTAACCATAT+GGG + Chr7:94248530-94248549 None:intergenic 25.0%
! CCACTAGGAAATAAAAAAAT+AGG + Chr7:94248590-94248609 None:intergenic 25.0%
! GTTTCTATAATCAATCACTA+AGG - Chr7:94249109-94249128 MsG0780041705.01.T01:CDS 25.0%
! TATATGATGTTGTTATGTGT+AGG - Chr7:94248664-94248683 MsG0780041705.01.T01:intron 25.0%
! TTTCCTTTATTCAATTTGGT+CGG - Chr7:94249305-94249324 MsG0780041705.01.T01:intron 25.0%
! TTTGTGCAGAAAAAAATGTT+GGG - Chr7:94249025-94249044 MsG0780041705.01.T01:intron 25.0%
!! TGAGTTAGATTTTTCATTTG+AGG + Chr7:94248362-94248381 None:intergenic 25.0%
!!! ACTATTTACTCTGAAATTTG+TGG - Chr7:94248461-94248480 MsG0780041705.01.T01:CDS 25.0%
!!! CCTATTTTTTTATTTCCTAG+TGG - Chr7:94248587-94248606 MsG0780041705.01.T01:CDS 25.0%
!!! GTTTCAAAGTATTGAGTTAT+TGG + Chr7:94248120-94248139 None:intergenic 25.0%
!!! TTTGTTGTTGTTAATAGGAA+TGG - Chr7:94248040-94248059 MsG0780041705.01.T01:three_prime_UTR 25.0%
CCATATGGTTAATAATGTGA+TGG - Chr7:94248528-94248547 MsG0780041705.01.T01:CDS 30.0%
CCATCACATTATTAACCATA+TGG + Chr7:94248531-94248550 None:intergenic 30.0%
GTTTGTGCAGAAAAAAATGT+TGG - Chr7:94249024-94249043 MsG0780041705.01.T01:intron 30.0%
TTAGTGATCATTTGTACGTT+GGG - Chr7:94249360-94249379 MsG0780041705.01.T01:intron 30.0%
TTATAAGAAACCAGTTCGAA+AGG - Chr7:94248245-94248264 MsG0780041705.01.T01:CDS 30.0%
TTATAGAGATCTTCATCAAC+AGG + Chr7:94248875-94248894 None:intergenic 30.0%
! TCTCATTCACCATAACATTT+TGG + Chr7:94248715-94248734 None:intergenic 30.0%
!! AAGGAAGTACCAAAATGTTA+TGG - Chr7:94248703-94248722 MsG0780041705.01.T01:intron 30.0%
AAGGAAGCAAATGAACAAGA+AGG - Chr7:94248808-94248827 MsG0780041705.01.T01:intron 35.0%
ATTCGTTACAGTTCTTCATC+TGG - Chr7:94248159-94248178 MsG0780041705.01.T01:three_prime_UTR 35.0%
GTTAGTGATCATTTGTACGT+TGG - Chr7:94249359-94249378 MsG0780041705.01.T01:intron 35.0%
TAATAGGAATGGAAGAGAAG+TGG - Chr7:94248051-94248070 MsG0780041705.01.T01:three_prime_UTR 35.0%
TTCTTGTTCATTTGCTTCCT+TGG + Chr7:94248809-94248828 None:intergenic 35.0%
! AGATCTTCATCAACAGGTTT+TGG + Chr7:94248869-94248888 None:intergenic 35.0%
!! AAATACCAGCTTTTGGAAAC+TGG - Chr7:94248076-94248095 MsG0780041705.01.T01:three_prime_UTR 35.0%
!! AATACCAGCTTTTGGAAACT+GGG - Chr7:94248077-94248096 MsG0780041705.01.T01:three_prime_UTR 35.0%
AAATCCCAGTTTCCAAAAGC+TGG + Chr7:94248084-94248103 None:intergenic 40.0%
ATGAACATGAGAAAGCAGCA+AGG - Chr7:94248758-94248777 MsG0780041705.01.T01:intron 40.0%
ATGTGTAGGCAACAAGGAAT+AGG - Chr7:94248678-94248697 MsG0780041705.01.T01:intron 40.0%
GTTGTTATGTGTAGGCAACA+AGG - Chr7:94248672-94248691 MsG0780041705.01.T01:intron 40.0%
TGAACATGAGAAAGCAGCAA+GGG - Chr7:94248759-94248778 MsG0780041705.01.T01:intron 40.0%
TGTGTAGGCAACAAGGAATA+GGG - Chr7:94248679-94248698 MsG0780041705.01.T01:intron 40.0%
TTGTACTACTACTAGCCACT+AGG + Chr7:94248605-94248624 None:intergenic 40.0%
! ACGATGTAATGGAACATCCA+AGG - Chr7:94248789-94248808 MsG0780041705.01.T01:intron 40.0%
! AGGGAAAGTGTACGATGTAA+TGG - Chr7:94248778-94248797 MsG0780041705.01.T01:intron 40.0%
! AGTGGTCAAATACCAGCTTT+TGG - Chr7:94248069-94248088 MsG0780041705.01.T01:three_prime_UTR 40.0%
! GCACCGACCAAATTGAATAA+AGG + Chr7:94249311-94249330 None:intergenic 40.0%
! TTTGAAACTGCAAGACAAGC+TGG - Chr7:94248132-94248151 MsG0780041705.01.T01:three_prime_UTR 40.0%
ACGAGTCATGATGACCCATA+TGG - Chr7:94248513-94248532 MsG0780041705.01.T01:CDS 45.0%
AGCTACTTCGCACAACTAAG+AGG - Chr7:94248906-94248925 MsG0780041705.01.T01:intron 45.0%
AGGCAACAAGGAATAGGGAA+AGG - Chr7:94248684-94248703 MsG0780041705.01.T01:intron 45.0%
GCTACTTCGCACAACTAAGA+GGG - Chr7:94248907-94248926 MsG0780041705.01.T01:intron 45.0%
GGGTTTCATTTCCAAGTGTC+TGG - Chr7:94249045-94249064 MsG0780041705.01.T01:intron 45.0%
GTGGTTGTTACCTTTCGAAC+TGG + Chr7:94248258-94248277 None:intergenic 45.0%
TTAGTTGTGCGAAGTAGCTC+AGG + Chr7:94248905-94248924 None:intergenic 45.0%
! CTGCTGCTTGTGTTTCATGA+GGG - Chr7:94249071-94249090 MsG0780041705.01.T01:CDS 45.0%
! GGAAGTCTCGTTGGTTGTAA+TGG + Chr7:94248848-94248867 None:intergenic 45.0%
!!! ACAGGTTTTGGAAGTCTCGT+TGG + Chr7:94248857-94248876 None:intergenic 45.0%
AACGCTAACGCATGTTGTGC+TGG - Chr7:94249168-94249187 MsG0780041705.01.T01:CDS 50.0%
CCTCATGAAACACAAGCAGC+AGG + Chr7:94249073-94249092 None:intergenic 50.0%
CTTCGCACAACTAAGAGGGT+TGG - Chr7:94248911-94248930 MsG0780041705.01.T01:intron 50.0%
GCTGCACGAACATGAACGTA+AGG + Chr7:94248195-94248214 None:intergenic 50.0%
TTGTGCGAAGTAGCTCAGGA+GGG + Chr7:94248901-94248920 None:intergenic 50.0%
! CCTGCTGCTTGTGTTTCATG+AGG - Chr7:94249070-94249089 MsG0780041705.01.T01:CDS 50.0%
GTTGTGCGAAGTAGCTCAGG+AGG + Chr7:94248902-94248921 None:intergenic 55.0%
AGCAGCAGGCACCAGACACT+TGG + Chr7:94249059-94249078 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr7 gene 94247901 94249428 94247901 ID=MsG0780041705.01;Name=MsG0780041705.01
Chr7 mRNA 94247901 94249428 94247901 ID=MsG0780041705.01.T01;Parent=MsG0780041705.01;Name=MsG0780041705.01.T01;_AED=0.31;_eAED=0.31;_QI=51|1|1|1|1|1|4|338|171
Chr7 exon 94247901 94248295 94247901 ID=MsG0780041705.01.T01:exon:20717;Parent=MsG0780041705.01.T01
Chr7 exon 94248401 94248643 94248401 ID=MsG0780041705.01.T01:exon:20716;Parent=MsG0780041705.01.T01
Chr7 exon 94249063 94249272 94249063 ID=MsG0780041705.01.T01:exon:20715;Parent=MsG0780041705.01.T01
Chr7 exon 94249372 94249428 94249372 ID=MsG0780041705.01.T01:exon:20714;Parent=MsG0780041705.01.T01
Chr7 five_prime_UTR 94249378 94249428 94249378 ID=MsG0780041705.01.T01:five_prime_utr;Parent=MsG0780041705.01.T01
Chr7 CDS 94249372 94249377 94249372 ID=MsG0780041705.01.T01:cds;Parent=MsG0780041705.01.T01
Chr7 CDS 94249063 94249272 94249063 ID=MsG0780041705.01.T01:cds;Parent=MsG0780041705.01.T01
Chr7 CDS 94248401 94248643 94248401 ID=MsG0780041705.01.T01:cds;Parent=MsG0780041705.01.T01
Chr7 CDS 94248239 94248295 94248239 ID=MsG0780041705.01.T01:cds;Parent=MsG0780041705.01.T01
Chr7 three_prime_UTR 94247901 94248238 94247901 ID=MsG0780041705.01.T01:three_prime_utr;Parent=MsG0780041705.01.T01
Gene Sequence

>MsG0780041705.01.T01

ATGGATGAATGGAAGAGAAGTGGTCAAATACCAGCTTTTGGAAACTGGGATTTTGCAAATGAGTTACCAATAACTCAATACTTTGAAACTGCAAGACAAGCTGGTTTGATTCGTTACAGTTCTTCATCTGGTGAAAGTGATCCTTACGTTCATGTTCGTGCAGCAGAACATGATCTTTATGCTGTTTCTGTTGATTATAAGAAACCAGTTCGAAAGGCAACAAGGAATAGGGAAAGGAAGTACCAAAATGTTATGGTGAATGAGAAAGAAACAACAATGAACATGAACATGAACATGAGAAAGCAGCAAGGGAAAGTGTACGATGTAATGGAACATCCAAGGAAGCAAATGAACAAGAAGGTACATGTTAGTGCTCCATTACAACCAACGAGACTTCCAAAACCTGTTGATGAAGATCTCTATAAGATCCCTCCTGAGCTACTTCGCACAACTAAGAGGAAAAAAATGTTGGGTTTCATTTCCAAGTGTCTGGTGCCTGCTGCTTGTGTTTCATGA

Protein sequence

>MsG0780041705.01.T01

MDEWKRSGQIPAFGNWDFANELPITQYFETARQAGLIRYSSSSGESDPYVHVRAAEHDLYAVSVDYKKPVRKATRNRERKYQNVMVNEKETTMNMNMNMRKQQGKVYDVMEHPRKQMNKKVHVSAPLQPTRLPKPVDEDLYKIPPELLRTTKRKKMLGFISKCLVPAACVS*