AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180004301.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004301.01.T01 MTR_1g076720 94.828 174 9 0 12 185 1 174 2.18e-117 337
MsG0180004301.01.T01 MTR_1g076730 87.640 178 22 0 8 185 150 327 2.20e-100 299
MsG0180004301.01.T01 MTR_6g060550 72.515 171 46 1 15 185 3 172 4.10e-85 254
MsG0180004301.01.T01 MTR_6g060550 72.515 171 46 1 15 185 44 213 4.53e-85 256
MsG0180004301.01.T01 MTR_6g060550 72.515 171 46 1 15 185 3 172 8.28e-85 254
MsG0180004301.01.T01 MTR_3g077740 29.341 167 102 5 22 186 519 671 2.48e-14 70.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004301.01.T01 AT4G35360 70.175 171 50 1 15 185 3 172 1.03e-80 244
MsG0180004301.01.T01 AT4G35360 70.175 171 50 1 15 185 3 172 1.03e-80 244
MsG0180004301.01.T01 AT2G17340 70.175 171 50 1 15 185 3 172 2.68e-79 241
MsG0180004301.01.T01 AT2G17320 66.467 167 55 1 19 185 1 166 2.22e-72 223
MsG0180004301.01.T01 AT2G17320 66.467 167 55 1 19 185 1 166 2.24e-72 222
MsG0180004301.01.T01 AT4G35360 79.104 67 14 0 119 185 9 75 1.48e-29 110
MsG0180004301.01.T01 AT4G32180 29.333 150 94 4 47 186 530 677 7.02e-14 69.7
MsG0180004301.01.T01 AT4G32180 29.333 150 94 4 47 186 530 677 8.63e-14 69.3
MsG0180004301.01.T01 AT4G32180 29.333 150 94 4 47 186 530 677 8.63e-14 69.3

Find 43 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACGAACAACATTCTCAAAT+AGG 0.282309 1:-76294978 None:intergenic
CGACTTGAGAATTTAGTTAG+AGG 0.325458 1:+76295030 MsG0180004301.01.T01:CDS
AATGGTGCATGCTGAGTATT+TGG 0.337934 1:-76293936 None:intergenic
TCAGCTTTATTTGCAGCATC+AGG 0.385927 1:-76294176 None:intergenic
TGAGGAAGTTCTTAAAGAAC+TGG 0.388118 1:+76294602 MsG0180004301.01.T01:CDS
ACGAACAACATTCTCAAATA+GGG 0.405415 1:-76294977 None:intergenic
GGTGAGATTCCCTTTGTTGA+TGG 0.411077 1:+76293898 MsG0180004301.01.T01:CDS
GCAGGGAACGTATTTGATCT+TGG 0.416285 1:+76295060 MsG0180004301.01.T01:CDS
CCTTTGTTGATGGATGATAC+TGG 0.416576 1:+76293908 MsG0180004301.01.T01:CDS
AGAGGATCGCCATGACTTGC+AGG 0.416925 1:-76294425 None:intergenic
TCACTCCCACCGAGTTATCT+TGG 0.422428 1:+76293993 MsG0180004301.01.T01:CDS
AATGATTCTATTGAAGATGA+AGG 0.450374 1:+76295003 MsG0180004301.01.T01:CDS
ACTCAGCATGCACCATTCCT+TGG 0.486421 1:+76293942 MsG0180004301.01.T01:CDS
CAGCATGCACCATTCCTTGG+AGG 0.526434 1:+76293945 MsG0180004301.01.T01:CDS
GTGAGATCATACTTGTAGGA+GGG 0.547151 1:-76294040 None:intergenic
ATTTGATCTTGGTTCTCCCC+AGG 0.554481 1:+76295071 MsG0180004301.01.T01:CDS
TGAGATCATACTTGTAGGAG+GGG 0.554989 1:-76294039 None:intergenic
CAGTATCATCCATCAACAAA+GGG 0.555127 1:-76293907 None:intergenic
TAGATAAAATCAAACTACCT+GGG 0.564956 1:-76295088 None:intergenic
GGCAAGTAGTAGATCACAGT+TGG 0.571985 1:+76293877 MsG0180004301.01.T01:CDS
TGTGAGATCATACTTGTAGG+AGG 0.573650 1:-76294041 None:intergenic
AAGAAAGATCCTGCAAGTCA+TGG 0.579855 1:+76294416 MsG0180004301.01.T01:CDS
TATATCAGAAGAAGAAGCAA+TGG 0.580992 1:+76293856 MsG0180004301.01.T01:CDS
AGAAGGGAACCTCCAAGGAA+TGG 0.582699 1:-76293954 None:intergenic
GAGGAAGTTCTTAAAGAACT+GGG 0.585672 1:+76294603 MsG0180004301.01.T01:CDS
ATAGATAAAATCAAACTACC+TGG 0.587926 1:-76295089 None:intergenic
CCAGTATCATCCATCAACAA+AGG 0.588590 1:-76293908 None:intergenic
AGGAGGGGATACCACTGTCT+AGG 0.589365 1:-76294024 None:intergenic
TCATCAGAAGGGAACCTCCA+AGG 0.615232 1:-76293959 None:intergenic
GTTCTTTAAGAACTTCCTCA+CGG 0.615555 1:-76294599 None:intergenic
ACTACACGTGGATCATCAGA+AGG 0.625437 1:-76293971 None:intergenic
TTTATCCAAGATAACTCGGT+GGG 0.627208 1:-76293998 None:intergenic
GAGATTTATCCAAGATAACT+CGG 0.639617 1:-76294002 None:intergenic
AGATATCTTCAAGAAAGTCA+AGG 0.640034 1:+76294632 MsG0180004301.01.T01:CDS
GAACGTACAAGGATATCAAG+AGG 0.642086 1:-76294443 None:intergenic
AGATAAAATCAAACTACCTG+GGG 0.666147 1:-76295087 None:intergenic
ACAGGCTGAAGAGAACGCAA+AGG 0.681920 1:+76294948 MsG0180004301.01.T01:intron
TGGATAAATCTCCTAGACAG+TGG 0.682304 1:+76294013 MsG0180004301.01.T01:CDS
AGGAAGTTCTTAAAGAACTG+GGG 0.687598 1:+76294604 MsG0180004301.01.T01:CDS
TCGGTGGGAGTGACTACACG+TGG 0.696965 1:-76293983 None:intergenic
GCTTCTATGTAGACTCCGTG+AGG 0.714416 1:+76294584 MsG0180004301.01.T01:intron
ATTTATCCAAGATAACTCGG+TGG 0.722264 1:-76293999 None:intergenic
CTACACGTGGATCATCAGAA+GGG 0.724492 1:-76293970 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATGAATTATTATAAATCT+TGG - Chr1:76294914-76294933 None:intergenic 10.0%
!!! ATTAATTTTTAGCTTTTATT+TGG + Chr1:76294120-76294139 MsG0180004301.01.T01:intron 10.0%
!!! TATATCAAACATTTTAGTAT+TGG - Chr1:76294504-76294523 None:intergenic 15.0%
!!! TAAATCATATAGTTCCATTT+TGG + Chr1:76294888-76294907 MsG0180004301.01.T01:intron 20.0%
!!! TTTTCAATGTCATTAAGATA+GGG + Chr1:76294847-76294866 MsG0180004301.01.T01:intron 20.0%
! AACAACAATTTGAATTACCT+AGG - Chr1:76294328-76294347 None:intergenic 25.0%
! AAGATTAAGAAAACAATCTG+CGG + Chr1:76294656-76294675 MsG0180004301.01.T01:intron 25.0%
! AATGATTCTATTGAAGATGA+AGG + Chr1:76295003-76295022 MsG0180004301.01.T01:CDS 25.0%
! ACAAAAAAAAAAACCTCTCA+AGG - Chr1:76294259-76294278 None:intergenic 25.0%
! ACAACGAATAAAGAGAATAA+GGG - Chr1:76294552-76294571 None:intergenic 25.0%
! ATATATGATTTGAATGCAAC+AGG + Chr1:76294930-76294949 MsG0180004301.01.T01:intron 25.0%
! ATTATAAATCTTGGCCAAAA+TGG - Chr1:76294905-76294924 None:intergenic 25.0%
! CATACAATTCTTCCAAAATT+TGG - Chr1:76294712-76294731 None:intergenic 25.0%
! TTTCAATGTCATTAAGATAG+GGG + Chr1:76294848-76294867 MsG0180004301.01.T01:intron 25.0%
! TTTGTGCATTCATTTCAAAA+AGG + Chr1:76294369-76294388 MsG0180004301.01.T01:intron 25.0%
!! AATACTATTCAGCCAAATTT+TGG + Chr1:76294697-76294716 MsG0180004301.01.T01:intron 25.0%
!! AATGCATTCTTTTCATGATT+TGG + Chr1:76294795-76294814 MsG0180004301.01.T01:intron 25.0%
!! CTTTTCAATGTCATTAAGAT+AGG + Chr1:76294846-76294865 MsG0180004301.01.T01:intron 25.0%
!!! TTTTAGCTTTTATTTGGTAC+AGG + Chr1:76294126-76294145 MsG0180004301.01.T01:intron 25.0%
AACATCTTGCAGAAAGAATA+TGG + Chr1:76294764-76294783 MsG0180004301.01.T01:intron 30.0%
AAGAATTGTATGTGTATGTC+TGG + Chr1:76294720-76294739 MsG0180004301.01.T01:intron 30.0%
ACATCTTGCAGAAAGAATAT+GGG + Chr1:76294765-76294784 MsG0180004301.01.T01:intron 30.0%
ACGAACAACATTCTCAAATA+GGG - Chr1:76294980-76294999 None:intergenic 30.0%
AGATATCTTCAAGAAAGTCA+AGG + Chr1:76294632-76294651 MsG0180004301.01.T01:CDS 30.0%
CACAACGAATAAAGAGAATA+AGG - Chr1:76294553-76294572 None:intergenic 30.0%
GAGATTTATCCAAGATAACT+CGG - Chr1:76294005-76294024 None:intergenic 30.0%
TATATCAGAAGAAGAAGCAA+TGG + Chr1:76293856-76293875 MsG0180004301.01.T01:CDS 30.0%
! AAGCTGAAATTTTTGCTCAA+AGG + Chr1:76294192-76294211 MsG0180004301.01.T01:CDS 30.0%
! GAAATTTTTGCTCAAAGGTT+AGG + Chr1:76294197-76294216 MsG0180004301.01.T01:intron 30.0%
! TAGTTAGAGGAATTTTTGCA+GGG + Chr1:76295043-76295062 MsG0180004301.01.T01:CDS 30.0%
! TTAGTTAGAGGAATTTTTGC+AGG + Chr1:76295042-76295061 MsG0180004301.01.T01:CDS 30.0%
! TTTTGTGAGATCATACTTGT+AGG - Chr1:76294047-76294066 None:intergenic 30.0%
AATAAGGGAAAACACAGAAG+GGG - Chr1:76294537-76294556 None:intergenic 35.0%
AATGTCATTAAGATAGGGGA+TGG + Chr1:76294852-76294871 MsG0180004301.01.T01:intron 35.0%
AGAATAAGGGAAAACACAGA+AGG - Chr1:76294539-76294558 None:intergenic 35.0%
AGGAAGTTCTTAAAGAACTG+GGG + Chr1:76294604-76294623 MsG0180004301.01.T01:CDS 35.0%
ATCCTTGTACGTTCTTTATC+TGG + Chr1:76294452-76294471 MsG0180004301.01.T01:intron 35.0%
ATGTGTATGTCTGGTTATTG+AGG + Chr1:76294729-76294748 MsG0180004301.01.T01:intron 35.0%
ATTTATCCAAGATAACTCGG+TGG - Chr1:76294002-76294021 None:intergenic 35.0%
CAGTATCATCCATCAACAAA+GGG - Chr1:76293910-76293929 None:intergenic 35.0%
CATCTTGCAGAAAGAATATG+GGG + Chr1:76294766-76294785 MsG0180004301.01.T01:intron 35.0%
CGACTTGAGAATTTAGTTAG+AGG + Chr1:76295030-76295049 MsG0180004301.01.T01:CDS 35.0%
GAATAAGGGAAAACACAGAA+GGG - Chr1:76294538-76294557 None:intergenic 35.0%
GACGAACAACATTCTCAAAT+AGG - Chr1:76294981-76295000 None:intergenic 35.0%
GAGGAAGTTCTTAAAGAACT+GGG + Chr1:76294603-76294622 MsG0180004301.01.T01:CDS 35.0%
TGAGGAAGTTCTTAAAGAAC+TGG + Chr1:76294602-76294621 MsG0180004301.01.T01:CDS 35.0%
TTTATCCAAGATAACTCGGT+GGG - Chr1:76294001-76294020 None:intergenic 35.0%
! ACCTGTTTCTCATAAACATC+AGG + Chr1:76294286-76294305 MsG0180004301.01.T01:intron 35.0%
! ATTTTTGCTCAAAGGTTAGG+TGG + Chr1:76294200-76294219 MsG0180004301.01.T01:intron 35.0%
! GTTCTTTAAGAACTTCCTCA+CGG - Chr1:76294602-76294621 None:intergenic 35.0%
AAGAAAGATCCTGCAAGTCA+TGG + Chr1:76294416-76294435 MsG0180004301.01.T01:CDS 40.0%
AATGGTGCATGCTGAGTATT+TGG - Chr1:76293939-76293958 None:intergenic 40.0%
ACCTCTCAAGGTAAACGAAA+AGG - Chr1:76294247-76294266 None:intergenic 40.0%
CCAGTATCATCCATCAACAA+AGG - Chr1:76293911-76293930 None:intergenic 40.0%
CCTCTCAAGGTAAACGAAAA+GGG - Chr1:76294246-76294265 None:intergenic 40.0%
GAACGTACAAGGATATCAAG+AGG - Chr1:76294446-76294465 None:intergenic 40.0%
GCCTGATGTTTATGAGAAAC+AGG - Chr1:76294290-76294309 None:intergenic 40.0%
GTCCAGATAAAGAACGTACA+AGG - Chr1:76294457-76294476 None:intergenic 40.0%
GTGAGATCATACTTGTAGGA+GGG - Chr1:76294043-76294062 None:intergenic 40.0%
TGAGATCATACTTGTAGGAG+GGG - Chr1:76294042-76294061 None:intergenic 40.0%
TGGATAAATCTCCTAGACAG+TGG + Chr1:76294013-76294032 MsG0180004301.01.T01:CDS 40.0%
TGTGAGATCATACTTGTAGG+AGG - Chr1:76294044-76294063 None:intergenic 40.0%
! CCTTTGTTGATGGATGATAC+TGG + Chr1:76293908-76293927 MsG0180004301.01.T01:CDS 40.0%
!! TCAGCTTTATTTGCAGCATC+AGG - Chr1:76294179-76294198 None:intergenic 40.0%
ACTACACGTGGATCATCAGA+AGG - Chr1:76293974-76293993 None:intergenic 45.0%
CATTAAGATAGGGGATGGAG+TGG + Chr1:76294857-76294876 MsG0180004301.01.T01:intron 45.0%
CTACACGTGGATCATCAGAA+GGG - Chr1:76293973-76293992 None:intergenic 45.0%
GCAGGGAACGTATTTGATCT+TGG + Chr1:76295060-76295079 MsG0180004301.01.T01:CDS 45.0%
GCTTGCACTGTCTTTATCCT+AGG + Chr1:76294308-76294327 MsG0180004301.01.T01:intron 45.0%
GGCAAGTAGTAGATCACAGT+TGG + Chr1:76293877-76293896 MsG0180004301.01.T01:CDS 45.0%
GGTGAGATTCCCTTTGTTGA+TGG + Chr1:76293898-76293917 MsG0180004301.01.T01:CDS 45.0%
! ATTTGATCTTGGTTCTCCCC+AGG + Chr1:76295071-76295090 MsG0180004301.01.T01:CDS 45.0%
! CCCTTTTCGTTTACCTTGAG+AGG + Chr1:76294243-76294262 MsG0180004301.01.T01:intron 45.0%
ACAGGCTGAAGAGAACGCAA+AGG + Chr1:76294948-76294967 MsG0180004301.01.T01:intron 50.0%
ACTCAGCATGCACCATTCCT+TGG + Chr1:76293942-76293961 MsG0180004301.01.T01:CDS 50.0%
AGAAGGGAACCTCCAAGGAA+TGG - Chr1:76293957-76293976 None:intergenic 50.0%
GCTTCTATGTAGACTCCGTG+AGG + Chr1:76294584-76294603 MsG0180004301.01.T01:intron 50.0%
TCACTCCCACCGAGTTATCT+TGG + Chr1:76293993-76294012 MsG0180004301.01.T01:CDS 50.0%
TCATCAGAAGGGAACCTCCA+AGG - Chr1:76293962-76293981 None:intergenic 50.0%
AGGAGGGGATACCACTGTCT+AGG - Chr1:76294027-76294046 None:intergenic 55.0%
CAGCATGCACCATTCCTTGG+AGG + Chr1:76293945-76293964 MsG0180004301.01.T01:CDS 55.0%
! AGAGGATCGCCATGACTTGC+AGG - Chr1:76294428-76294447 None:intergenic 55.0%
TCGGTGGGAGTGACTACACG+TGG - Chr1:76293986-76294005 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 76293842 76295101 76293842 ID=MsG0180004301.01;Name=MsG0180004301.01
Chr1 mRNA 76293842 76295101 76293842 ID=MsG0180004301.01.T01;Parent=MsG0180004301.01;Name=MsG0180004301.01.T01;_AED=0.49;_eAED=0.51;_QI=0|1|0.6|1|1|1|5|0|186
Chr1 exon 76293842 76294050 76293842 ID=MsG0180004301.01.T01:exon:14764;Parent=MsG0180004301.01.T01
Chr1 exon 76294148 76294213 76294148 ID=MsG0180004301.01.T01:exon:14765;Parent=MsG0180004301.01.T01
Chr1 exon 76294391 76294457 76294391 ID=MsG0180004301.01.T01:exon:14766;Parent=MsG0180004301.01.T01
Chr1 exon 76294585 76294653 76294585 ID=MsG0180004301.01.T01:exon:14767;Parent=MsG0180004301.01.T01
Chr1 exon 76294952 76295101 76294952 ID=MsG0180004301.01.T01:exon:14768;Parent=MsG0180004301.01.T01
Chr1 CDS 76293842 76294050 76293842 ID=MsG0180004301.01.T01:cds;Parent=MsG0180004301.01.T01
Chr1 CDS 76294148 76294213 76294148 ID=MsG0180004301.01.T01:cds;Parent=MsG0180004301.01.T01
Chr1 CDS 76294391 76294457 76294391 ID=MsG0180004301.01.T01:cds;Parent=MsG0180004301.01.T01
Chr1 CDS 76294585 76294653 76294585 ID=MsG0180004301.01.T01:cds;Parent=MsG0180004301.01.T01
Chr1 CDS 76294952 76295101 76294952 ID=MsG0180004301.01.T01:cds;Parent=MsG0180004301.01.T01
Gene Sequence

>MsG0180004301.01.T01

CTGAAATGTATATTTATATCAGAAGAAGAAGCAATGGCAAGTAGTAGATCACAGTTGGTGAGATTCCCTTTGTTGATGGATGATACTGGTACTACCAAATACTCAGCATGCACCATTCCTTGGAGGTTCCCTTCTGATGATCCACGTGTAGTCACTCCCACCGAGTTATCTTGGATAAATCTCCTAGACAGTGGTATCCCCTCCTACAAGAAGCGTGCTGAGAGTGATACTTCTGTTCCTGATGCTGCAAATAAAGCTGAAATTTTTGCTCAAAGGTATGCTGAAATACTTGAAGATTTGAAGAAAGATCCTGCAAGTCATGGCGATCCTCTTGATATCCTTCTTCTATGTAGACTCCGTGAGGAAGTTCTTAAAGAACTGGGGTTCAGAGATATCTTCAAGAAAGTCAAGGCTGAAGAGAACGCAAAGGCAATCTCCCTATTTGAGAATGTTGTTCGTCTTAATGATTCTATTGAAGATGAAGGCAAGCGACTTGAGAATTTAGTTAGAGGAATTTTTGCAGGGAACGTATTTGATCTTGGTTCTCCCCAGGTAGTTTGA

Protein sequence

>MsG0180004301.01.T01

LKCIFISEEEAMASSRSQLVRFPLLMDDTGTTKYSACTIPWRFPSDDPRVVTPTELSWINLLDSGIPSYKKRAESDTSVPDAANKAEIFAQRYAEILEDLKKDPASHGDPLDILLLCRLREEVLKELGFRDIFKKVKAEENAKAISLFENVVRLNDSIEDEGKRLENLVRGIFAGNVFDLGSPQVV*