AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780039443.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039443.01.T01 MTR_7g073690 82.609 115 12 2 28 142 85 191 3.66e-54 180
MsG0780039443.01.T01 MTR_7g073700 49.275 138 33 4 27 142 220 342 3.89e-28 108
MsG0780039443.01.T01 MTR_7g073700 39.450 109 30 2 22 94 23 131 2.75e-11 60.5
MsG0780039443.01.T01 MTR_7g073700 49.275 138 33 4 27 142 220 342 4.68e-28 108
MsG0780039443.01.T01 MTR_7g073700 39.450 109 30 2 22 94 23 131 2.86e-11 60.5
MsG0780039443.01.T01 MTR_0279s0010 47.727 88 27 1 56 143 10 78 8.62e-18 77.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 31 sgRNAs with CRISPR-Local

Find 101 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAAGAATAATGTCGATATT+AGG 0.174392 7:+64136350 MsG0780039443.01.T01:CDS
GGGTTGGAGAAACAGTTATT+AGG 0.235636 7:+64136371 MsG0780039443.01.T01:CDS
ATTGGGATTGCGATTGGAAT+TGG 0.315524 7:+64136569 MsG0780039443.01.T01:CDS
CAAGAATAATGTCGATATTA+GGG 0.330282 7:+64136351 MsG0780039443.01.T01:CDS
GGTTGGAGAAACAGTTATTA+GGG 0.339456 7:+64136372 MsG0780039443.01.T01:CDS
TTCACATTCAGATCTTTGTT+TGG 0.349137 7:-64136604 None:intergenic
TTGGGATTGCGATTGGAATT+GGG 0.376680 7:+64136570 MsG0780039443.01.T01:CDS
TCACATTCAGATCTTTGTTT+GGG 0.388978 7:-64136603 None:intergenic
GATCTGAATGTGAATTTCAA+TGG 0.423691 7:+64136613 MsG0780039443.01.T01:CDS
GAGGATGTGGTGAATTCAAA+TGG 0.428107 7:+64136445 MsG0780039443.01.T01:CDS
CTCAATCAGGGATCAAAATC+AGG 0.428610 7:+64136480 MsG0780039443.01.T01:CDS
GGGATGGAGAAAGCTCAATC+AGG 0.439745 7:+64136467 MsG0780039443.01.T01:CDS
TTCAATGGACATCTGCCAAA+TGG 0.490536 7:+64136628 MsG0780039443.01.T01:CDS
GTGAGGATTGGGATTGCGAT+TGG 0.498542 7:+64136563 MsG0780039443.01.T01:CDS
GCAAAGTGTGAGTGAGGATT+GGG 0.505991 7:+64136552 MsG0780039443.01.T01:CDS
TGCTAGGCTCATTCAGAAAG+AGG 0.508522 7:+64137909 MsG0780039443.01.T01:CDS
AGGATGTGGTGAATTCAAAT+GGG 0.511614 7:+64136446 MsG0780039443.01.T01:CDS
GGCAAAGTGTGAGTGAGGAT+TGG 0.518868 7:+64136551 MsG0780039443.01.T01:CDS
TGCTCATATTTCAGAGGATG+TGG 0.522323 7:+64136432 MsG0780039443.01.T01:CDS
GATCAAAATCAGGTGAATAA+CGG 0.529398 7:+64136490 MsG0780039443.01.T01:CDS
AATAATGTCGATATTAGGGT+TGG 0.529892 7:+64136355 MsG0780039443.01.T01:CDS
GGATGGAGGATGATAAGAAA+AGG 0.537485 7:+64136296 None:intergenic
TCAGGTGAATAACGGTAAAG+AGG 0.548266 7:+64136498 MsG0780039443.01.T01:CDS
TCTTCTAGTGAATGATGCTA+AGG 0.552488 7:+64136402 MsG0780039443.01.T01:CDS
GTGGTGAATTCAAATGGGGA+TGG 0.560888 7:+64136451 MsG0780039443.01.T01:CDS
AATTAAAAGAAGAAAATGCT+AGG 0.580486 7:+64137893 MsG0780039443.01.T01:CDS
CGATTGGAATTGGGATGCAG+AGG 0.604274 7:+64136579 MsG0780039443.01.T01:CDS
GGATGGAGAAAGCTCAATCA+GGG 0.621358 7:+64136468 MsG0780039443.01.T01:CDS
TCATGGGCAAAGTGTGAGTG+AGG 0.627639 7:+64136546 MsG0780039443.01.T01:CDS
CGAGCATGCTCATATTTCAG+AGG 0.634590 7:+64136426 MsG0780039443.01.T01:CDS
GGATGTGGTGAATTCAAATG+GGG 0.744378 7:+64136447 MsG0780039443.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTAACAATATTATATGT+TGG + Chr7:64137792-64137811 MsG0780039443.01.T01:intron 10.0%
!! AACTATATACAAAATGAATT+AGG - Chr7:64137129-64137148 None:intergenic 15.0%
!!! TTCTTTTAAATCCAATTATT+GGG + Chr7:64137675-64137694 MsG0780039443.01.T01:intron 15.0%
!!! TTTCTTTTAAATCCAATTAT+TGG + Chr7:64137674-64137693 MsG0780039443.01.T01:intron 15.0%
!!! TTTTGTATATAGTTTTTTCT+AGG + Chr7:64137135-64137154 MsG0780039443.01.T01:intron 15.0%
!! AAAAGGTAATTTCATTAGTT+TGG - Chr7:64137301-64137320 None:intergenic 20.0%
!! AATTAAAAGAAGAAAATGCT+AGG + Chr7:64137893-64137912 MsG0780039443.01.T01:CDS 20.0%
!! TGATAGGATTATAGAATAAA+GGG + Chr7:64137330-64137349 MsG0780039443.01.T01:intron 20.0%
!! TTATACTTGAAGTTAGAAAT+TGG + Chr7:64136895-64136914 MsG0780039443.01.T01:intron 20.0%
!!! TTTGTTGTATTTTCTGTTAT+AGG + Chr7:64137473-64137492 MsG0780039443.01.T01:intron 20.0%
! AATTGATTATGGCTAAAAGT+GGG - Chr7:64137015-64137034 None:intergenic 25.0%
! ACAAGAATAATGTCGATATT+AGG + Chr7:64136350-64136369 MsG0780039443.01.T01:CDS 25.0%
! AGTTATCTATTTAGTTAGCA+AGG + Chr7:64137399-64137418 MsG0780039443.01.T01:intron 25.0%
! CAAGAATAATGTCGATATTA+GGG + Chr7:64136351-64136370 MsG0780039443.01.T01:CDS 25.0%
! GTGATAGGATTATAGAATAA+AGG + Chr7:64137329-64137348 MsG0780039443.01.T01:intron 25.0%
! TCAAGTATAATCAATTCTTG+AGG - Chr7:64136885-64136904 None:intergenic 25.0%
! TTACAAAGAGACATTGATAA+TGG - Chr7:64137520-64137539 None:intergenic 25.0%
!! GTTAAAAAAACCTTTTGACA+CGG - Chr7:64137709-64137728 None:intergenic 25.0%
!! TAATGAAATTACCTTTTGAC+AGG + Chr7:64137304-64137323 MsG0780039443.01.T01:intron 25.0%
!! TACAAAGAGACATTGATAAT+GGG - Chr7:64137519-64137538 None:intergenic 25.0%
!!! CATACACATTTTTTACCATT+TGG - Chr7:64136646-64136665 None:intergenic 25.0%
!!! GATTTTGAGTGAATTGATTA+TGG - Chr7:64137026-64137045 None:intergenic 25.0%
AAAACTGCGAAAGTCTATAT+TGG - Chr7:64136680-64136699 None:intergenic 30.0%
AAATATAACCTTCTACCCTT+AGG + Chr7:64137552-64137571 MsG0780039443.01.T01:intron 30.0%
AAGGTAAAGTGATTTATGGT+TGG - Chr7:64136989-64137008 None:intergenic 30.0%
AAGGTAGTTAGCTAAAGTTA+AGG + Chr7:64137418-64137437 MsG0780039443.01.T01:intron 30.0%
AATAATGTCGATATTAGGGT+TGG + Chr7:64136355-64136374 MsG0780039443.01.T01:CDS 30.0%
GAATTGATTATGGCTAAAAG+TGG - Chr7:64137016-64137035 None:intergenic 30.0%
GATCAAAATCAGGTGAATAA+CGG + Chr7:64136490-64136509 MsG0780039443.01.T01:CDS 30.0%
GATCTGAATGTGAATTTCAA+TGG + Chr7:64136613-64136632 MsG0780039443.01.T01:CDS 30.0%
GCGTATATCTTAGTTGTAAT+TGG + Chr7:64137587-64137606 MsG0780039443.01.T01:intron 30.0%
GTTGAAGGTAAAGTGATTTA+TGG - Chr7:64136993-64137012 None:intergenic 30.0%
TTCACATTCAGATCTTTGTT+TGG - Chr7:64136607-64136626 None:intergenic 30.0%
! AGAATTGACTCTTACATGTT+TGG + Chr7:64136834-64136853 MsG0780039443.01.T01:intron 30.0%
! ATGAACTTGTTTGCATAACA+AGG - Chr7:64137210-64137229 None:intergenic 30.0%
! TCACATTCAGATCTTTGTTT+GGG - Chr7:64136606-64136625 None:intergenic 30.0%
! TGAACTTGTTTGCATAACAA+GGG - Chr7:64137209-64137228 None:intergenic 30.0%
! TGAATATGCTTTCTTTTGAC+AGG + Chr7:64137846-64137865 MsG0780039443.01.T01:intron 30.0%
!! TACACCTCTAGAATCAAATT+CGG - Chr7:64136815-64136834 None:intergenic 30.0%
!! TGACTTCAAATGTTGATTCA+TGG + Chr7:64136733-64136752 MsG0780039443.01.T01:intron 30.0%
!! TTCAAATGTTGATTCATGGA+GGG + Chr7:64136737-64136756 MsG0780039443.01.T01:intron 30.0%
!!! ATTGGTTTTATAACCAGTGT+AGG + Chr7:64137605-64137624 MsG0780039443.01.T01:intron 30.0%
AAAGTGATTATGTGCACGTT+AGG - Chr7:64137068-64137087 None:intergenic 35.0%
AACAAGAGACAGAGAGAATA+AGG - Chr7:64137248-64137267 None:intergenic 35.0%
ACAAGAGACAGAGAGAATAA+GGG - Chr7:64137247-64137266 None:intergenic 35.0%
AGGATGTGGTGAATTCAAAT+GGG + Chr7:64136446-64136465 MsG0780039443.01.T01:CDS 35.0%
CAAACAAGTTCATACAAGCT+TGG + Chr7:64137217-64137236 MsG0780039443.01.T01:intron 35.0%
CAATGTCTCTTTGTAACAGA+AGG + Chr7:64137524-64137543 MsG0780039443.01.T01:intron 35.0%
CTTATTGTGCAAGCTATGTA+TGG + Chr7:64137167-64137186 MsG0780039443.01.T01:intron 35.0%
GCTATGTATGGCCAAAAAAT+TGG + Chr7:64137179-64137198 MsG0780039443.01.T01:intron 35.0%
GGTTGGAGAAACAGTTATTA+GGG + Chr7:64136372-64136391 MsG0780039443.01.T01:CDS 35.0%
TCTTCTAGTGAATGATGCTA+AGG + Chr7:64136402-64136421 MsG0780039443.01.T01:CDS 35.0%
! CTGTTATAGGTTAGTTGCTA+TGG + Chr7:64137486-64137505 MsG0780039443.01.T01:intron 35.0%
!! AGAGACATTGATAATGGGTA+AGG - Chr7:64137514-64137533 None:intergenic 35.0%
!! AGTTTTTGAGGACAACTCAT+GGG + Chr7:64136530-64136549 MsG0780039443.01.T01:CDS 35.0%
!! CTTCAAATGTTGATTCATGG+AGG + Chr7:64136736-64136755 MsG0780039443.01.T01:intron 35.0%
!! TCTCTGGTTTCACTTTTAGA+GGG + Chr7:64136788-64136807 MsG0780039443.01.T01:intron 35.0%
!! TTGTTTGAGTTGAGTGTTTG+TGG + Chr7:64137263-64137282 MsG0780039443.01.T01:intron 35.0%
ACTTGTTTGCATAACAAGGG+AGG - Chr7:64137206-64137225 None:intergenic 40.0%
ATTGGGATTGCGATTGGAAT+TGG + Chr7:64136569-64136588 MsG0780039443.01.T01:CDS 40.0%
CAGAGACATACACATAGCTA+GGG - Chr7:64136774-64136793 None:intergenic 40.0%
CTCAATCAGGGATCAAAATC+AGG + Chr7:64136480-64136499 MsG0780039443.01.T01:CDS 40.0%
CTGCGAAAGTCTATATTGGT+TGG - Chr7:64136676-64136695 None:intergenic 40.0%
GAGGATGTGGTGAATTCAAA+TGG + Chr7:64136445-64136464 MsG0780039443.01.T01:CDS 40.0%
GGATGTGGTGAATTCAAATG+GGG + Chr7:64136447-64136466 MsG0780039443.01.T01:CDS 40.0%
GGGTTGGAGAAACAGTTATT+AGG + Chr7:64136371-64136390 MsG0780039443.01.T01:CDS 40.0%
TAACCTTCTACCCTTAGGAA+TGG + Chr7:64137557-64137576 MsG0780039443.01.T01:intron 40.0%
TACCCTTAGGAATGGATCTT+TGG + Chr7:64137565-64137584 MsG0780039443.01.T01:intron 40.0%
TCAGGTGAATAACGGTAAAG+AGG + Chr7:64136498-64136517 MsG0780039443.01.T01:CDS 40.0%
TCCTATCACATCCTGTCAAA+AGG - Chr7:64137318-64137337 None:intergenic 40.0%
TGCTCATATTTCAGAGGATG+TGG + Chr7:64136432-64136451 MsG0780039443.01.T01:CDS 40.0%
TTCAATGGACATCTGCCAAA+TGG + Chr7:64136628-64136647 MsG0780039443.01.T01:CDS 40.0%
TTGGGATTGCGATTGGAATT+GGG + Chr7:64136570-64136589 MsG0780039443.01.T01:CDS 40.0%
! AAAACCTTTTGACACGGTGT+TGG - Chr7:64137703-64137722 None:intergenic 40.0%
! ACCTTTTGACAGGATGTGAT+AGG + Chr7:64137314-64137333 MsG0780039443.01.T01:intron 40.0%
! AGGATTCTGCTGAGTTTTTG+AGG + Chr7:64136518-64136537 MsG0780039443.01.T01:CDS 40.0%
! CGAAAGTCTATATTGGTTGG+AGG - Chr7:64136673-64136692 None:intergenic 40.0%
!! CTCTGGTTTCACTTTTAGAG+GGG + Chr7:64136789-64136808 MsG0780039443.01.T01:intron 40.0%
!! GAGTTTTTGAGGACAACTCA+TGG + Chr7:64136529-64136548 MsG0780039443.01.T01:CDS 40.0%
!! GTCTCTGGTTTCACTTTTAG+AGG + Chr7:64136787-64136806 MsG0780039443.01.T01:intron 40.0%
!! TATGGCTAAAAGTGGGTTGA+AGG - Chr7:64137008-64137027 None:intergenic 40.0%
!!! ACAAGGGAGGTCCAATTTTT+TGG - Chr7:64137193-64137212 None:intergenic 40.0%
ACGCCAAAGATCCATTCCTA+AGG - Chr7:64137571-64137590 None:intergenic 45.0%
CCAGAGACATACACATAGCT+AGG - Chr7:64136775-64136794 None:intergenic 45.0%
CCTAGCTATGTGTATGTCTC+TGG + Chr7:64136772-64136791 MsG0780039443.01.T01:intron 45.0%
CGAGCATGCTCATATTTCAG+AGG + Chr7:64136426-64136445 MsG0780039443.01.T01:CDS 45.0%
CGCCAAAGATCCATTCCTAA+GGG - Chr7:64137570-64137589 None:intergenic 45.0%
GATCCATTCCTAAGGGTAGA+AGG - Chr7:64137563-64137582 None:intergenic 45.0%
GCAAAGTGTGAGTGAGGATT+GGG + Chr7:64136552-64136571 MsG0780039443.01.T01:CDS 45.0%
GGATGGAGAAAGCTCAATCA+GGG + Chr7:64136468-64136487 MsG0780039443.01.T01:CDS 45.0%
GTGGTGAATTCAAATGGGGA+TGG + Chr7:64136451-64136470 MsG0780039443.01.T01:CDS 45.0%
TGCTAGGCTCATTCAGAAAG+AGG + Chr7:64137909-64137928 MsG0780039443.01.T01:CDS 45.0%
! CGGTGTTGGAACCCAATAAT+TGG - Chr7:64137689-64137708 None:intergenic 45.0%
CGATTGGAATTGGGATGCAG+AGG + Chr7:64136579-64136598 MsG0780039443.01.T01:CDS 50.0%
GGCAAAGTGTGAGTGAGGAT+TGG + Chr7:64136551-64136570 MsG0780039443.01.T01:CDS 50.0%
GGGATGGAGAAAGCTCAATC+AGG + Chr7:64136467-64136486 MsG0780039443.01.T01:CDS 50.0%
GGGGCCGAATTTGATTCTAG+AGG + Chr7:64136808-64136827 MsG0780039443.01.T01:intron 50.0%
GGTTCCAACACCGTGTCAAA+AGG + Chr7:64137696-64137715 MsG0780039443.01.T01:intron 50.0%
GTGAGGATTGGGATTGCGAT+TGG + Chr7:64136563-64136582 MsG0780039443.01.T01:CDS 50.0%
TCATGGGCAAAGTGTGAGTG+AGG + Chr7:64136546-64136565 MsG0780039443.01.T01:CDS 50.0%
GAGAGCGAGCTCTCCTACAC+TGG - Chr7:64137621-64137640 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr7 gene 64136298 64137945 64136298 ID=MsG0780039443.01;Name=MsG0780039443.01
Chr7 mRNA 64136298 64137945 64136298 ID=MsG0780039443.01.T01;Parent=MsG0780039443.01;Name=MsG0780039443.01.T01;_AED=0.50;_eAED=0.64;_QI=0|1|0|1|1|0.5|2|0|146
Chr7 exon 64136298 64136660 64136298 ID=MsG0780039443.01.T01:exon:16615;Parent=MsG0780039443.01.T01
Chr7 exon 64137868 64137945 64137868 ID=MsG0780039443.01.T01:exon:16614;Parent=MsG0780039443.01.T01
Chr7 CDS 64136298 64136660 64136298 ID=MsG0780039443.01.T01:cds;Parent=MsG0780039443.01.T01
Chr7 CDS 64137868 64137945 64137868 ID=MsG0780039443.01.T01:cds;Parent=MsG0780039443.01.T01
Gene Sequence

>MsG0780039443.01.T01

ATGGAGGATGATAAGAAAAGGAGAAAAAACAAGAAGAAAAAGAGCAAGCAAAACAAGAATAATGTCGATATTAGGGTTGGAGAAACAGTTATTAGGGATCATAATCTTCTAGTGAATGATGCTAAGGACGAGCATGCTCATATTTCAGAGGATGTGGTGAATTCAAATGGGGATGGAGAAAGCTCAATCAGGGATCAAAATCAGGTGAATAACGGTAAAGAGGATTCTGCTGAGTTTTTGAGGACAACTCATGGGCAAAGTGTGAGTGAGGATTGGGATTGCGATTGGAATTGGGATGCAGAGGTCCCAAACAAAGATCTGAATGTGAATTTCAATGGACATCTGCCAAATGGTAAAAAATGTGACATATCAGACGAAACAATTAGAAAATTAAAAGAAGAAAATGCTAGGCTCATTCAGAAAGAGGTAACATTCTACTGA

Protein sequence

>MsG0780039443.01.T01

MEDDKKRRKNKKKKSKQNKNNVDIRVGETVIRDHNLLVNDAKDEHAHISEDVVNSNGDGESSIRDQNQVNNGKEDSAEFLRTTHGQSVSEDWDCDWNWDAEVPNKDLNVNFNGHLPNGKKCDISDETIRKLKEENARLIQKEVTFY*