AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380018062.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380018062.01.T01 MTR_3g118150 96.373 193 7 0 1 193 1 193 5.60e-135 375
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380018062.01.T01 AT5G38110 86.391 169 22 1 1 168 1 169 1.18e-104 300
MsG0380018062.01.T01 AT1G66740 80.899 178 31 1 1 178 1 175 2.43e-103 296

Find 52 sgRNAs with CRISPR-Local

Find 94 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTACTCACCTGCTCTTATT+TGG 0.129518 3:+103893885 MsG0380018062.01.T01:CDS
TGGATCTTGTTCTCCAGTTT+GGG 0.231870 3:-103894112 None:intergenic
GTGGATCTTGTTCTCCAGTT+TGG 0.266545 3:-103894113 None:intergenic
CTACTCACCTGCTCTTATTT+GGG 0.267855 3:+103893886 MsG0380018062.01.T01:CDS
GATATCTTCTTCACGAATCT+TGG 0.287365 3:-103893845 None:intergenic
TGAGACTTATGACCAGTTAT+TGG 0.289525 3:+103893750 MsG0380018062.01.T01:CDS
CGAGATTTCCTATGAGTGTT+TGG 0.353611 3:+103893408 MsG0380018062.01.T01:CDS
GGGTAGTTGCTCTGAGGGAG+GGG 0.371206 3:-103894091 None:intergenic
TGGGGTAGTTGCTCTGAGGG+AGG 0.378053 3:-103894093 None:intergenic
GGGGTAGTTGCTCTGAGGGA+GGG 0.392562 3:-103894092 None:intergenic
GTTCTCAGGGTGGAAATTGA+TGG 0.403676 3:-103894049 None:intergenic
GGTAGTTGCTCTGAGGGAGG+GGG 0.407080 3:-103894090 None:intergenic
CAAGGACACTCTCCAATAAC+TGG 0.417188 3:-103893762 None:intergenic
TCACGAATCTTGGATGGGTC+TGG 0.425679 3:-103893835 None:intergenic
TCAGAGCAACTACCCCAAAC+TGG 0.436456 3:+103894099 MsG0380018062.01.T01:CDS
GAGAGCGGCCAAACACTCAT+AGG 0.445137 3:-103893416 None:intergenic
CTATCTGTTAAAACCTTGGT+TGG 0.449270 3:-103893979 None:intergenic
AACCCTATCTGTTAAAACCT+TGG 0.452925 3:-103893983 None:intergenic
TTATTGGAGAGTGTCCTTGT+TGG 0.475012 3:+103893766 MsG0380018062.01.T01:CDS
TTCTCAGGGTGGAAATTGAT+GGG 0.479943 3:-103894048 None:intergenic
TCTGTTAAAACCTTGGTTGG+AGG 0.483580 3:-103893976 None:intergenic
GAATGGAAGCTGATTTATGT+TGG 0.485287 3:+103893715 MsG0380018062.01.T01:CDS
TCTTCTTCACGAATCTTGGA+TGG 0.488809 3:-103893841 None:intergenic
ATGGGGAACTTAGTGACCCT+TGG 0.490528 3:-103894030 None:intergenic
GGTCAAGAGTTTATTCGTGT+TGG 0.494710 3:+103893907 MsG0380018062.01.T01:CDS
CTTGTTGGTCCTGTCAATGT+TGG 0.502550 3:+103893781 MsG0380018062.01.T01:CDS
CGATAGTTTCCAACATTGAC+AGG 0.504203 3:-103893790 None:intergenic
TAGGAAATCTCGAACTGAAA+GGG 0.513564 3:-103893397 None:intergenic
AAGGGATTGAGAAACGAAGC+TGG 0.517879 3:-103893379 None:intergenic
GTTTGGGGTAGTTGCTCTGA+GGG 0.518854 3:-103894096 None:intergenic
GAGAGAGGAACCTCCAACCA+AGG 0.524167 3:+103893966 MsG0380018062.01.T01:CDS
ATTCGTGAAGAAGATATCAT+TGG 0.528304 3:+103893850 MsG0380018062.01.T01:CDS
ATAGGAAATCTCGAACTGAA+AGG 0.536457 3:-103893398 None:intergenic
CGAATCTTGGATGGGTCTGG+TGG 0.541608 3:-103893832 None:intergenic
TGTTTGGCCGCTCTCAAAGA+TGG 0.557561 3:+103893424 MsG0380018062.01.T01:CDS
CTCTTGACCCAAATAAGAGC+AGG 0.559683 3:-103893893 None:intergenic
AAATTGTCACAGATTTGGAA+TGG 0.563329 3:+103893698 MsG0380018062.01.T01:intron
CTTCTTCACGAATCTTGGAT+GGG 0.564124 3:-103893840 None:intergenic
GGATCTTGTTCTCCAGTTTG+GGG 0.567661 3:-103894111 None:intergenic
AGTTTGGGGTAGTTGCTCTG+AGG 0.582073 3:-103894097 None:intergenic
GTATCGGGTGCAGCAGCAAG+TGG 0.584533 3:-103894132 None:intergenic
CAACATTGACAGGACCAACA+AGG 0.622504 3:-103893780 None:intergenic
TGACGACGAGCAGCTGAGAG+AGG 0.624627 3:+103893951 MsG0380018062.01.T01:CDS
ACATCTTATCTGATAAACCA+AGG 0.636524 3:+103894013 MsG0380018062.01.T01:CDS
GATTTATGTTGGATCTGCTG+AGG 0.636648 3:+103893726 MsG0380018062.01.T01:CDS
GAAACGAAGCTGGATTGTCA+AGG 0.636849 3:-103893369 None:intergenic
AAGAAGAAAAGCGATGAGCG+CGG 0.647668 3:+103893324 None:intergenic
CATCTTATCTGATAAACCAA+GGG 0.651929 3:+103894014 MsG0380018062.01.T01:CDS
AGAGCAGGTGAGTAGAAGCA+CGG 0.669211 3:-103893878 None:intergenic
GGTTAACATTACGAACGTGA+CGG 0.673152 3:+103893345 MsG0380018062.01.T01:CDS
TCTCAGGGTGGAAATTGATG+GGG 0.674973 3:-103894047 None:intergenic
ATGCATACCATCTTTGAGAG+CGG 0.678507 3:-103893431 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAATATAGTTAAATTGCAT+TGG - Chr3:103893668-103893687 None:intergenic 15.0%
!! TAATATAGTTAAATTGCATT+GGG - Chr3:103893667-103893686 None:intergenic 15.0%
!!! TTTACTCTACTTTTATTTTA+GGG + Chr3:103893462-103893481 MsG0380018062.01.T01:intron 15.0%
!! AATATAGTTAAATTGCATTG+GGG - Chr3:103893666-103893685 None:intergenic 20.0%
!!! CTTTACTCTACTTTTATTTT+AGG + Chr3:103893461-103893480 MsG0380018062.01.T01:intron 20.0%
!!! TCTACTTTCTTGTTTTTTTA+GGG + Chr3:103893617-103893636 MsG0380018062.01.T01:intron 20.0%
! ACTAAGTAACAGACAAAATT+AGG - Chr3:103893579-103893598 None:intergenic 25.0%
! AGACAAAATTAGGTCAAATT+TGG - Chr3:103893569-103893588 None:intergenic 25.0%
! ATATAGTTAAATTGCATTGG+GGG - Chr3:103893665-103893684 None:intergenic 25.0%
! CTAAAAAAACAAGAAAGTAG+AGG - Chr3:103893618-103893637 None:intergenic 25.0%
! GACAAAATTAGGTCAAATTT+GGG - Chr3:103893568-103893587 None:intergenic 25.0%
!!! CTCTACTTTCTTGTTTTTTT+AGG + Chr3:103893616-103893635 MsG0380018062.01.T01:intron 25.0%
!!! TTCTTGTTTTTTTAGGGTTT+AGG + Chr3:103893623-103893642 MsG0380018062.01.T01:intron 25.0%
AAAACAAGAAAGTAGAGGAT+TGG - Chr3:103893613-103893632 None:intergenic 30.0%
AAATTGTCACAGATTTGGAA+TGG + Chr3:103893698-103893717 MsG0380018062.01.T01:intron 30.0%
ACATCTTATCTGATAAACCA+AGG + Chr3:103894013-103894032 MsG0380018062.01.T01:CDS 30.0%
ATTCGTGAAGAAGATATCAT+TGG + Chr3:103893850-103893869 MsG0380018062.01.T01:CDS 30.0%
CATCTTATCTGATAAACCAA+GGG + Chr3:103894014-103894033 MsG0380018062.01.T01:CDS 30.0%
GTTGAAAATTGTCACAGATT+TGG + Chr3:103893693-103893712 MsG0380018062.01.T01:intron 30.0%
TATAGTTAAATTGCATTGGG+GGG - Chr3:103893664-103893683 None:intergenic 30.0%
! CTTCATTTTCATTGTTCTCA+GGG - Chr3:103894065-103894084 None:intergenic 30.0%
! GTCTGTTACTTAGTTAGTTA+GGG + Chr3:103893585-103893604 MsG0380018062.01.T01:intron 30.0%
! TCTTCATTTTCATTGTTCTC+AGG - Chr3:103894066-103894085 None:intergenic 30.0%
! TGTCTGTTACTTAGTTAGTT+AGG + Chr3:103893584-103893603 MsG0380018062.01.T01:intron 30.0%
! TTTTAACAGATAGGGTTCAA+AGG + Chr3:103893989-103894008 MsG0380018062.01.T01:CDS 30.0%
!! AACCAAGGTTTTAACAGATA+GGG + Chr3:103893981-103894000 MsG0380018062.01.T01:CDS 30.0%
!!! AAACTATCGCTTTGTTTTAC+AGG + Chr3:103893804-103893823 MsG0380018062.01.T01:CDS 30.0%
AACCCTATCTGTTAAAACCT+TGG - Chr3:103893986-103894005 None:intergenic 35.0%
ATAGGAAATCTCGAACTGAA+AGG - Chr3:103893401-103893420 None:intergenic 35.0%
CTATCTGTTAAAACCTTGGT+TGG - Chr3:103893982-103894001 None:intergenic 35.0%
GATATCTTCTTCACGAATCT+TGG - Chr3:103893848-103893867 None:intergenic 35.0%
TAGGAAATCTCGAACTGAAA+GGG - Chr3:103893400-103893419 None:intergenic 35.0%
TGAGACTTATGACCAGTTAT+TGG + Chr3:103893750-103893769 MsG0380018062.01.T01:CDS 35.0%
! ATTTTCGTTTTCACTCTGCT+AGG + Chr3:103893502-103893521 MsG0380018062.01.T01:intron 35.0%
! GAATGGAAGCTGATTTATGT+TGG + Chr3:103893715-103893734 MsG0380018062.01.T01:CDS 35.0%
!! CAACCAAGGTTTTAACAGAT+AGG + Chr3:103893980-103893999 MsG0380018062.01.T01:CDS 35.0%
CGAGATTTCCTATGAGTGTT+TGG + Chr3:103893408-103893427 MsG0380018062.01.T01:CDS 40.0%
CGATAGTTTCCAACATTGAC+AGG - Chr3:103893793-103893812 None:intergenic 40.0%
CTTCTTCACGAATCTTGGAT+GGG - Chr3:103893843-103893862 None:intergenic 40.0%
GATTTATGTTGGATCTGCTG+AGG + Chr3:103893726-103893745 MsG0380018062.01.T01:CDS 40.0%
GGTCAAGAGTTTATTCGTGT+TGG + Chr3:103893907-103893926 MsG0380018062.01.T01:CDS 40.0%
GGTTAACATTACGAACGTGA+CGG + Chr3:103893345-103893364 MsG0380018062.01.T01:CDS 40.0%
TCTACTCACCTGCTCTTATT+TGG + Chr3:103893885-103893904 MsG0380018062.01.T01:CDS 40.0%
TCTGTTAAAACCTTGGTTGG+AGG - Chr3:103893979-103893998 None:intergenic 40.0%
TCTTCTTCACGAATCTTGGA+TGG - Chr3:103893844-103893863 None:intergenic 40.0%
TGGATCTTGTTCTCCAGTTT+GGG - Chr3:103894115-103894134 None:intergenic 40.0%
TTCTCAGGGTGGAAATTGAT+GGG - Chr3:103894051-103894070 None:intergenic 40.0%
! ATGCATACCATCTTTGAGAG+CGG - Chr3:103893434-103893453 None:intergenic 40.0%
! CATTTTCATTGTTCTCAGGG+TGG - Chr3:103894062-103894081 None:intergenic 40.0%
! CTACTCACCTGCTCTTATTT+GGG + Chr3:103893886-103893905 MsG0380018062.01.T01:CDS 40.0%
! GTTTTCACTCTGCTAGGTTA+GGG + Chr3:103893508-103893527 MsG0380018062.01.T01:intron 40.0%
!! TTATTGGAGAGTGTCCTTGT+TGG + Chr3:103893766-103893785 MsG0380018062.01.T01:CDS 40.0%
AAGGGATTGAGAAACGAAGC+TGG - Chr3:103893382-103893401 None:intergenic 45.0%
ACTCTGCTAGGTTAGGGTTT+AGG + Chr3:103893514-103893533 MsG0380018062.01.T01:intron 45.0%
AGTTAAATTGCATTGGGGGG+AGG - Chr3:103893661-103893680 None:intergenic 45.0%
ATACCATTCCCCCAAATGAG+GGG + Chr3:103894151-103894170 MsG0380018062.01.T01:CDS 45.0%
CAACATTGACAGGACCAACA+AGG - Chr3:103893783-103893802 None:intergenic 45.0%
CAAGGACACTCTCCAATAAC+TGG - Chr3:103893765-103893784 None:intergenic 45.0%
CTCATTTGGGGGAATGGTAT+CGG - Chr3:103894151-103894170 None:intergenic 45.0%
CTCTGCTAGGTTAGGGTTTA+GGG + Chr3:103893515-103893534 MsG0380018062.01.T01:intron 45.0%
CTCTTGACCCAAATAAGAGC+AGG - Chr3:103893896-103893915 None:intergenic 45.0%
CTTGTTGGTCCTGTCAATGT+TGG + Chr3:103893781-103893800 MsG0380018062.01.T01:CDS 45.0%
GAAACGAAGCTGGATTGTCA+AGG - Chr3:103893372-103893391 None:intergenic 45.0%
GATACCATTCCCCCAAATGA+GGG + Chr3:103894150-103894169 MsG0380018062.01.T01:CDS 45.0%
GGATCTTGTTCTCCAGTTTG+GGG - Chr3:103894114-103894133 None:intergenic 45.0%
GTGGATCTTGTTCTCCAGTT+TGG - Chr3:103894116-103894135 None:intergenic 45.0%
GTTAAATTGCATTGGGGGGA+GGG - Chr3:103893660-103893679 None:intergenic 45.0%
GTTCTCAGGGTGGAAATTGA+TGG - Chr3:103894052-103894071 None:intergenic 45.0%
TCATTTGGGGGAATGGTATC+GGG - Chr3:103894150-103894169 None:intergenic 45.0%
TCTCAGGGTGGAAATTGATG+GGG - Chr3:103894050-103894069 None:intergenic 45.0%
TTAAATTGCATTGGGGGGAG+GGG - Chr3:103893659-103893678 None:intergenic 45.0%
TTAAGAACCCCCCTCATTTG+GGG - Chr3:103894163-103894182 None:intergenic 45.0%
! CGTTTTCACTCTGCTAGGTT+AGG + Chr3:103893507-103893526 MsG0380018062.01.T01:intron 45.0%
AGAGCAGGTGAGTAGAAGCA+CGG - Chr3:103893881-103893900 None:intergenic 50.0%
ATGGGGAACTTAGTGACCCT+TGG - Chr3:103894033-103894052 None:intergenic 50.0%
CGATACCATTCCCCCAAATG+AGG + Chr3:103894149-103894168 MsG0380018062.01.T01:CDS 50.0%
TAAGAACCCCCCTCATTTGG+GGG - Chr3:103894162-103894181 None:intergenic 50.0%
TACCATTCCCCCAAATGAGG+GGG + Chr3:103894152-103894171 MsG0380018062.01.T01:CDS 50.0%
TCACGAATCTTGGATGGGTC+TGG - Chr3:103893838-103893857 None:intergenic 50.0%
TCAGAGCAACTACCCCAAAC+TGG + Chr3:103894099-103894118 MsG0380018062.01.T01:CDS 50.0%
TGTTTGGCCGCTCTCAAAGA+TGG + Chr3:103893424-103893443 MsG0380018062.01.T01:CDS 50.0%
! AGTTTGGGGTAGTTGCTCTG+AGG - Chr3:103894100-103894119 None:intergenic 50.0%
! GTTTGGGGTAGTTGCTCTGA+GGG - Chr3:103894099-103894118 None:intergenic 50.0%
ACCATTCCCCCAAATGAGGG+GGG + Chr3:103894153-103894172 MsG0380018062.01.T01:CDS 55.0%
CGAATCTTGGATGGGTCTGG+TGG - Chr3:103893835-103893854 None:intergenic 55.0%
GAGAGAGGAACCTCCAACCA+AGG + Chr3:103893966-103893985 MsG0380018062.01.T01:CDS 55.0%
GAGAGCGGCCAAACACTCAT+AGG - Chr3:103893419-103893438 None:intergenic 55.0%
ACCCCCCTCATTTGGGGGAA+TGG - Chr3:103894157-103894176 None:intergenic 60.0%
GTATCGGGTGCAGCAGCAAG+TGG - Chr3:103894135-103894154 None:intergenic 60.0%
TGACGACGAGCAGCTGAGAG+AGG + Chr3:103893951-103893970 MsG0380018062.01.T01:CDS 60.0%
!! GGGGTAGTTGCTCTGAGGGA+GGG - Chr3:103894095-103894114 None:intergenic 60.0%
!! GGGTAGTTGCTCTGAGGGAG+GGG - Chr3:103894094-103894113 None:intergenic 60.0%
!! GGTAGTTGCTCTGAGGGAGG+GGG - Chr3:103894093-103894112 None:intergenic 60.0%
!! TGGGGTAGTTGCTCTGAGGG+AGG - Chr3:103894096-103894115 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 103893337 103894182 103893337 ID=MsG0380018062.01;Name=MsG0380018062.01
Chr3 mRNA 103893337 103894182 103893337 ID=MsG0380018062.01.T01;Parent=MsG0380018062.01;Name=MsG0380018062.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|1|2|0|193
Chr3 exon 103893337 103893445 103893337 ID=MsG0380018062.01.T01:exon:20351;Parent=MsG0380018062.01.T01
Chr3 exon 103893710 103894182 103893710 ID=MsG0380018062.01.T01:exon:20352;Parent=MsG0380018062.01.T01
Chr3 CDS 103893337 103893445 103893337 ID=MsG0380018062.01.T01:cds;Parent=MsG0380018062.01.T01
Chr3 CDS 103893710 103894182 103893710 ID=MsG0380018062.01.T01:cds;Parent=MsG0380018062.01.T01
Gene Sequence

>MsG0380018062.01.T01

ATGAGCGCGGTTAACATTACGAACGTGACGGTCCTTGACAATCCAGCTTCGTTTCTCAATCCCTTTCAGTTCGAGATTTCCTATGAGTGTTTGGCCGCTCTCAAAGATGATTTGGAATGGAAGCTGATTTATGTTGGATCTGCTGAGGATGAGACTTATGACCAGTTATTGGAGAGTGTCCTTGTTGGTCCTGTCAATGTTGGAAACTATCGCTTTGTTTTACAGGCAGATCCACCAGACCCATCCAAGATTCGTGAAGAAGATATCATTGGTGTTACCGTGCTTCTACTCACCTGCTCTTATTTGGGTCAAGAGTTTATTCGTGTTGGCTACTATGTCAACAATGACTATGACGACGAGCAGCTGAGAGAGGAACCTCCAACCAAGGTTTTAACAGATAGGGTTCAAAGGAACATCTTATCTGATAAACCAAGGGTCACTAAGTTCCCCATCAATTTCCACCCTGAGAACAATGAAAATGAAGAACAACCCCCTCCCTCAGAGCAACTACCCCAAACTGGAGAACAAGATCCACTTGCTGCTGCACCCGATACCATTCCCCCAAATGAGGGGGGTTCTTAA
Protein sequence

>MsG0380018062.01.T01

MSAVNITNVTVLDNPASFLNPFQFEISYECLAALKDDLEWKLIYVGSAEDETYDQLLESVLVGPVNVGNYRFVLQADPPDPSKIREEDIIGVTVLLLTCSYLGQEFIRVGYYVNNDYDDEQLREEPPTKVLTDRVQRNILSDKPRVTKFPINFHPENNENEEQPPPSEQLPQTGEQDPLAAAPDTIPPNEGGS*