AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180004211.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004211.01.T01 MTR_1g077210 100.000 164 0 0 1 164 74 237 1.20e-117 332
MsG0180004211.01.T01 MTR_3g109280 78.523 149 30 1 1 149 74 220 4.29e-81 239
MsG0180004211.01.T01 MTR_0054s0080 73.171 164 39 3 1 164 74 232 6.94e-81 239
MsG0180004211.01.T01 MTR_1g009030 67.683 164 33 2 1 164 74 217 1.13e-70 213
MsG0180004211.01.T01 MTR_6g066040 59.211 152 60 1 1 152 74 223 1.93e-57 179
MsG0180004211.01.T01 MTR_6g066090 59.589 146 57 1 1 146 1 144 1.00e-56 175
MsG0180004211.01.T01 MTR_5g068640 34.868 152 92 3 1 146 72 222 9.78e-24 93.6
MsG0180004211.01.T01 MTR_8g106520 35.211 142 85 2 1 142 16 150 4.73e-19 79.7
MsG0180004211.01.T01 MTR_8g106520 35.211 142 85 2 1 142 72 206 2.50e-18 79.0
MsG0180004211.01.T01 MTR_7g073370 38.532 109 62 1 36 144 108 211 1.73e-17 76.6
MsG0180004211.01.T01 MTR_2g014820 35.915 142 81 4 2 141 718 851 1.53e-14 70.5
MsG0180004211.01.T01 MTR_8g106530 33.562 146 81 4 1 142 329 462 1.14e-12 65.1
MsG0180004211.01.T01 MTR_8g106530 31.944 144 87 3 1 142 73 207 1.61e-12 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004211.01.T01 AT4G31330 72.109 147 37 2 1 143 74 220 1.00e-70 213
MsG0180004211.01.T01 AT5G10580 64.327 171 53 2 1 163 74 244 1.08e-69 211
MsG0180004211.01.T01 AT5G10580 64.327 171 53 2 1 163 74 244 1.08e-69 211
MsG0180004211.01.T01 AT5G10580 70.000 150 39 1 1 144 74 223 1.61e-68 208
MsG0180004211.01.T01 AT5G24790 56.875 160 66 1 1 157 74 233 2.06e-50 162
MsG0180004211.01.T01 AT5G10580 66.071 112 32 1 1 106 74 185 5.48e-45 146
MsG0180004211.01.T01 AT3G18215 37.324 142 87 1 1 142 1 140 4.25e-21 85.1
MsG0180004211.01.T01 AT3G18215 37.324 142 87 1 1 142 73 212 2.61e-20 84.7
MsG0180004211.01.T01 AT5G24600 30.263 152 94 3 1 142 72 221 2.18e-16 74.3
MsG0180004211.01.T01 AT5G24600 30.263 152 94 3 1 142 72 221 2.19e-16 73.9

Find 27 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCTCAATGATTCCATTTA+TGG 0.062471 1:+74911720 MsG0180004211.01.T01:CDS
GATTCCAGTGCTTTATAATT+TGG 0.112917 1:+74912034 MsG0180004211.01.T01:CDS
TGAATATTTGTCTGAGCTTT+TGG 0.189699 1:+74911902 MsG0180004211.01.T01:CDS
TGGAGCTCATAGTGAATTTA+TGG 0.212693 1:+74911740 MsG0180004211.01.T01:CDS
TTCACTATGAGCTCCATAAA+TGG 0.279592 1:-74911733 None:intergenic
CATCTTGTGGTGTGCAAATA+AGG 0.279736 1:-74911854 None:intergenic
TCTGTCACACATTGTCCATT+AGG 0.321977 1:+74911811 MsG0180004211.01.T01:CDS
AATAATGGGATCAACACTTA+TGG 0.371912 1:+74911629 None:intergenic
CATTCTACTCTCAGCTGGTT+TGG 0.383869 1:+74911662 MsG0180004211.01.T01:CDS
TTGGACTTTGTTTGTGGGAA+TGG 0.387422 1:+74912053 MsG0180004211.01.T01:CDS
TATAATTTGGACTTTGTTTG+TGG 0.396446 1:+74912047 MsG0180004211.01.T01:CDS
TTGGATCTTTGGACCTGTCT+TGG 0.400498 1:+74911989 MsG0180004211.01.T01:CDS
CCAAAGATCCAAAGCAAAAG+AGG 0.411193 1:-74911978 None:intergenic
AAAAGCTCAGACAAATATTC+AGG 0.422507 1:-74911900 None:intergenic
ATAATTTGGACTTTGTTTGT+GGG 0.446470 1:+74912048 MsG0180004211.01.T01:CDS
ATGAGAATAAGAATATAGTT+AGG 0.446792 1:-74911785 None:intergenic
TGCAAATAAGGATGCTCACT+TGG 0.496404 1:-74911842 None:intergenic
ACATCCATTCTACTCTCAGC+TGG 0.523277 1:+74911657 MsG0180004211.01.T01:CDS
AAGTCCAAATTATAAAGCAC+TGG 0.539896 1:-74912038 None:intergenic
GAACACAAGAAAACCAAGAC+AGG 0.547850 1:-74912002 None:intergenic
CAAACCAGCTGAGAGTAGAA+TGG 0.570136 1:-74911661 None:intergenic
GTGAAGATTAATGACAAAGG+AGG 0.586414 1:+74912089 MsG0180004211.01.T01:CDS
CAAAGATCCAAAGCAAAAGA+GGG 0.615516 1:-74911977 None:intergenic
GCATAGGACAAGACATCTTG+TGG 0.640111 1:-74911867 None:intergenic
CCATAAATGGAATCATTGAG+AGG 0.651845 1:-74911720 None:intergenic
ATTGTGAAGATTAATGACAA+AGG 0.655961 1:+74912086 MsG0180004211.01.T01:CDS
TTCAGGTGTGATGACAGCAT+AGG 0.682375 1:-74911883 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGAGAATAAGAATATAGTT+AGG - Chr1:74911788-74911807 None:intergenic 20.0%
! ATTGTGAAGATTAATGACAA+AGG + Chr1:74912086-74912105 MsG0180004211.01.T01:CDS 25.0%
!! ATAATTTGGACTTTGTTTGT+GGG + Chr1:74912048-74912067 MsG0180004211.01.T01:CDS 25.0%
!! TATAATTTGGACTTTGTTTG+TGG + Chr1:74912047-74912066 MsG0180004211.01.T01:CDS 25.0%
AAAAGCTCAGACAAATATTC+AGG - Chr1:74911903-74911922 None:intergenic 30.0%
AAGTCCAAATTATAAAGCAC+TGG - Chr1:74912041-74912060 None:intergenic 30.0%
GATTCCAGTGCTTTATAATT+TGG + Chr1:74912034-74912053 MsG0180004211.01.T01:CDS 30.0%
! TGAATATTTGTCTGAGCTTT+TGG + Chr1:74911902-74911921 MsG0180004211.01.T01:CDS 30.0%
!! TAGGAGTGTGACATATTTTA+GGG - Chr1:74911769-74911788 None:intergenic 30.0%
!! TTAGGAGTGTGACATATTTT+AGG - Chr1:74911770-74911789 None:intergenic 30.0%
CAAAGATCCAAAGCAAAAGA+GGG - Chr1:74911980-74911999 None:intergenic 35.0%
CACTTGGTTGAAAAACCTAA+TGG - Chr1:74911829-74911848 None:intergenic 35.0%
CCATAAATGGAATCATTGAG+AGG - Chr1:74911723-74911742 None:intergenic 35.0%
CCTCTCAATGATTCCATTTA+TGG + Chr1:74911720-74911739 MsG0180004211.01.T01:CDS 35.0%
GTGAAGATTAATGACAAAGG+AGG + Chr1:74912089-74912108 MsG0180004211.01.T01:CDS 35.0%
TGGAGCTCATAGTGAATTTA+TGG + Chr1:74911740-74911759 MsG0180004211.01.T01:CDS 35.0%
TTCACTATGAGCTCCATAAA+TGG - Chr1:74911736-74911755 None:intergenic 35.0%
CATCTTGTGGTGTGCAAATA+AGG - Chr1:74911857-74911876 None:intergenic 40.0%
CCAAAGATCCAAAGCAAAAG+AGG - Chr1:74911981-74912000 None:intergenic 40.0%
GAACACAAGAAAACCAAGAC+AGG - Chr1:74912005-74912024 None:intergenic 40.0%
TCTGTCACACATTGTCCATT+AGG + Chr1:74911811-74911830 MsG0180004211.01.T01:CDS 40.0%
TGCAAATAAGGATGCTCACT+TGG - Chr1:74911845-74911864 None:intergenic 40.0%
! TTGGACTTTGTTTGTGGGAA+TGG + Chr1:74912053-74912072 MsG0180004211.01.T01:CDS 40.0%
! TTGTCTGAGCTTTTGGACAA+AGG + Chr1:74911909-74911928 MsG0180004211.01.T01:CDS 40.0%
!! CCTCTTTTGCTTTGGATCTT+TGG + Chr1:74911978-74911997 MsG0180004211.01.T01:CDS 40.0%
!!! GGAATTGTTTTGAGCACTGT+TGG + Chr1:74911930-74911949 MsG0180004211.01.T01:CDS 40.0%
ACATCCATTCTACTCTCAGC+TGG + Chr1:74911657-74911676 MsG0180004211.01.T01:CDS 45.0%
CAAACCAGCTGAGAGTAGAA+TGG - Chr1:74911664-74911683 None:intergenic 45.0%
CATTCTACTCTCAGCTGGTT+TGG + Chr1:74911662-74911681 MsG0180004211.01.T01:CDS 45.0%
GCATAGGACAAGACATCTTG+TGG - Chr1:74911870-74911889 None:intergenic 45.0%
TTCAGGTGTGATGACAGCAT+AGG - Chr1:74911886-74911905 None:intergenic 45.0%
TTGGATCTTTGGACCTGTCT+TGG + Chr1:74911989-74912008 MsG0180004211.01.T01:CDS 45.0%
! CAGCATTCCCTCTTTTGCTT+TGG + Chr1:74911970-74911989 MsG0180004211.01.T01:CDS 45.0%
Chromosome Type Strat End Strand Name
Chr1 gene 74911633 74912127 74911633 ID=MsG0180004211.01;Name=MsG0180004211.01
Chr1 mRNA 74911633 74912127 74911633 ID=MsG0180004211.01.T01;Parent=MsG0180004211.01;Name=MsG0180004211.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|164
Chr1 exon 74911633 74912127 74911633 ID=MsG0180004211.01.T01:exon:31709;Parent=MsG0180004211.01.T01
Chr1 CDS 74911633 74912127 74911633 ID=MsG0180004211.01.T01:cds;Parent=MsG0180004211.01.T01
Gene Sequence

>MsG0180004211.01.T01

ATGGGATCAACACTTATGGCAACTACATCCATTCTACTCTCAGCTGGTTTGGCAGCAGTCATAAGCAGCACATACAGTGTGAAGAAGCCTCTCAATGATTCCATTTATGGAGCTCATAGTGAATTTATGGTAGCCCTAAAATATGTCACACTCCTAACTATATTCTTATTCTCATTTTTCTGTCACACATTGTCCATTAGGTTTTTCAACCAAGTGAGCATCCTTATTTGCACACCACAAGATGTCTTGTCCTATGCTGTCATCACACCTGAATATTTGTCTGAGCTTTTGGACAAAGGAATTGTTTTGAGCACTGTTGGAAATAGACTTTTCTATTCAGCATTCCCTCTTTTGCTTTGGATCTTTGGACCTGTCTTGGTTTTCTTGTGTTCTGTTGCTATGATTCCAGTGCTTTATAATTTGGACTTTGTTTGTGGGAATGGAAAGCAACATATTGTGAAGATTAATGACAAAGGAGGAGACAATTATGTTTGA
Protein sequence

>MsG0180004211.01.T01

MGSTLMATTSILLSAGLAAVISSTYSVKKPLNDSIYGAHSEFMVALKYVTLLTIFLFSFFCHTLSIRFFNQVSILICTPQDVLSYAVITPEYLSELLDKGIVLSTVGNRLFYSAFPLLLWIFGPVLVFLCSVAMIPVLYNLDFVCGNGKQHIVKINDKGGDNYV*