AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280008746.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280008746.01.T01 MTR_2g049610 78.764 259 34 2 4 262 2 239 2.66e-150 419
MsG0280008746.01.T01 MTR_2g049630 60.079 253 67 4 1 245 1 227 4.88e-96 286
MsG0280008746.01.T01 MTR_2g049530 70.115 174 50 1 1 172 1 174 2.59e-83 248
MsG0280008746.01.T01 MTR_4g107170 46.606 221 103 5 1 214 1 213 1.49e-60 192
MsG0280008746.01.T01 MTR_4g045977 45.106 235 100 6 4 222 2 223 3.78e-57 187
MsG0280008746.01.T01 MTR_1g115290 49.091 165 59 5 40 198 2 147 1.16e-40 138
MsG0280008746.01.T01 MTR_1g114730 33.654 208 125 3 4 199 2 208 3.46e-31 118
MsG0280008746.01.T01 MTR_6g018920 38.065 155 89 2 4 152 2 155 5.42e-31 118
MsG0280008746.01.T01 MTR_6g005440 32.093 215 128 5 4 212 2 204 2.07e-29 113
MsG0280008746.01.T01 MTR_6g005450 32.558 215 136 5 4 212 2 213 8.30e-27 107
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 46 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAAAATCCATCTATTGTTTC+TGG 0.138351 2:-37612071 None:intergenic
ACTTGGTAATGTTGCATATT+TGG 0.170747 2:+37611986 MsG0280008746.01.T01:CDS
GGAATGGGAAACTCAATTTA+TGG 0.183833 2:+37612034 MsG0280008746.01.T01:CDS
ATGCAACAAAGTACTGAAAT+TGG 0.240043 2:+37611765 MsG0280008746.01.T01:CDS
GTTGGTCCCCTTCCATGTTC+TGG 0.261192 2:-37611671 None:intergenic
TCTTTCACATCAAAGATCTT+TGG 0.287719 2:-37611552 None:intergenic
CACAATCTCTTTGTGCACTT+TGG 0.338528 2:-37611616 None:intergenic
TCCTGACCAGGTTTAGCAAC+TGG 0.388453 2:-37612014 None:intergenic
GTGATTACAAGCTTGAATCT+TGG 0.389216 2:-37611721 None:intergenic
CCTTCCATGTTCTGGAAACA+TGG 0.398902 2:-37611663 None:intergenic
TCATGGATATGTTGCATTTG+AGG 0.410645 2:-37611879 None:intergenic
GCTTTGCCAGAAACAATAGA+TGG 0.415718 2:+37612065 MsG0280008746.01.T01:CDS
ACTTGGTGAAGTTGAAGAAT+TGG 0.421405 2:+37611935 MsG0280008746.01.T01:CDS
CTATTAAACACATTCAAGAT+TGG 0.421571 2:+37611331 MsG0280008746.01.T01:CDS
TGCTAAACCTGGTCAGGAAT+GGG 0.447809 2:+37612019 MsG0280008746.01.T01:CDS
TCCAGTTGCTAAACCTGGTC+AGG 0.458685 2:+37612013 MsG0280008746.01.T01:CDS
ATGTTGTCTCCTCACATTCA+AGG 0.462305 2:+37611832 MsG0280008746.01.T01:CDS
CACTACTCAGACGCAAAATA+CGG 0.473414 2:+37611800 MsG0280008746.01.T01:CDS
GAATCTTGTGGCATAATCAT+TGG 0.478340 2:-37611471 None:intergenic
TGAGTTTCCCATTCCTGACC+AGG 0.483105 2:-37612026 None:intergenic
TGGAAACATGGGTGCCAAGT+TGG 0.485421 2:-37611651 None:intergenic
GCACCCATGTTTCCAGAACA+TGG 0.507852 2:+37611659 MsG0280008746.01.T01:CDS
CAATCAAAGAAGCAATGGAT+TGG 0.512118 2:+37611374 MsG0280008746.01.T01:CDS
TTGCTAAACCTGGTCAGGAA+TGG 0.512431 2:+37612018 MsG0280008746.01.T01:CDS
TACGAGCAACAAAAGATTGA+GGG 0.530722 2:+37611522 MsG0280008746.01.T01:CDS
CTTCCATGTTCTGGAAACAT+GGG 0.531657 2:-37611662 None:intergenic
GTGGCTTCAAATGATCATCA+TGG 0.534306 2:-37611896 None:intergenic
GCTTGCTTAATTGTGTATGA+TGG 0.534651 2:+37611438 MsG0280008746.01.T01:CDS
CCATGTTTCCAGAACATGGA+AGG 0.542103 2:+37611663 MsG0280008746.01.T01:CDS
ATACGAGCAACAAAAGATTG+AGG 0.544317 2:+37611521 MsG0280008746.01.T01:CDS
ACATTCAAGATTGGAGAGCT+CGG 0.553672 2:+37611340 MsG0280008746.01.T01:CDS
ACTTTCAATCAAAGAAGCAA+TGG 0.559273 2:+37611369 MsG0280008746.01.T01:CDS
GATTGGGCTAGTCAAGTACT+TGG 0.562422 2:+37611969 MsG0280008746.01.T01:CDS
TAGTTAATTTCCCACGAGCA+CGG 0.567005 2:-37611311 None:intergenic
TAGAAATGGGCCGTGCTCGT+GGG 0.584542 2:+37611301 None:intergenic
GATGATCCAGTTGCTAAACC+TGG 0.589750 2:+37612008 MsG0280008746.01.T01:CDS
ATCAAGCTTCCTTGAATGTG+AGG 0.590592 2:-37611841 None:intergenic
CTTAGTGATACTAATCGACT+TGG 0.592888 2:+37611918 MsG0280008746.01.T01:CDS
CACAAGATTCGACAATTGTA+CGG 0.605972 2:+37611484 MsG0280008746.01.T01:CDS
TTAATTGTGTATGATGGTGA+TGG 0.608708 2:+37611444 MsG0280008746.01.T01:CDS
CGTACAATTGTCGAATCTTG+TGG 0.612214 2:-37611483 None:intergenic
ATGTTTCCAGAACATGGAAG+GGG 0.616673 2:+37611665 MsG0280008746.01.T01:CDS
TGTGAGGAGACAACATTACT+CGG 0.616856 2:-37611825 None:intergenic
TGATGAAAATGTATCCAACT+TGG 0.619935 2:+37611637 MsG0280008746.01.T01:CDS
CATGTTTCCAGAACATGGAA+GGG 0.620335 2:+37611664 MsG0280008746.01.T01:CDS
AGTCGATTAGTATCACTAAG+TGG 0.621773 2:-37611915 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CTATTAAACACATTCAAGAT+TGG + Chr2:37611331-37611350 MsG0280008746.01.T01:CDS 25.0%
! TAAAATCCATCTATTGTTTC+TGG - Chr2:37612074-37612093 None:intergenic 25.0%
!! AATTGGATGATTTTATGGAT+TGG + Chr2:37611952-37611971 MsG0280008746.01.T01:CDS 25.0%
!! ATTGGATGATTTTATGGATT+GGG + Chr2:37611953-37611972 MsG0280008746.01.T01:CDS 25.0%
!! TGAAGAATTGGATGATTTTA+TGG + Chr2:37611947-37611966 MsG0280008746.01.T01:CDS 25.0%
ACTTTCAATCAAAGAAGCAA+TGG + Chr2:37611369-37611388 MsG0280008746.01.T01:CDS 30.0%
TCTTTCACATCAAAGATCTT+TGG - Chr2:37611555-37611574 None:intergenic 30.0%
TGATGAAAATGTATCCAACT+TGG + Chr2:37611637-37611656 MsG0280008746.01.T01:CDS 30.0%
! TTAATTGTGTATGATGGTGA+TGG + Chr2:37611444-37611463 MsG0280008746.01.T01:CDS 30.0%
!! ACTTGGTAATGTTGCATATT+TGG + Chr2:37611986-37612005 MsG0280008746.01.T01:CDS 30.0%
!! ATGCAACAAAGTACTGAAAT+TGG + Chr2:37611765-37611784 MsG0280008746.01.T01:CDS 30.0%
!! TCTGAATTTTCTAGCAAGTT+TGG + Chr2:37611408-37611427 MsG0280008746.01.T01:CDS 30.0%
!!! TCGCAATAAAAGTTTTGAGT+TGG - Chr2:37611692-37611711 None:intergenic 30.0%
AGTCGATTAGTATCACTAAG+TGG - Chr2:37611918-37611937 None:intergenic 35.0%
ATACGAGCAACAAAAGATTG+AGG + Chr2:37611521-37611540 MsG0280008746.01.T01:CDS 35.0%
CAATCAAAGAAGCAATGGAT+TGG + Chr2:37611374-37611393 MsG0280008746.01.T01:CDS 35.0%
CACAAGATTCGACAATTGTA+CGG + Chr2:37611484-37611503 MsG0280008746.01.T01:CDS 35.0%
CTTAGTGATACTAATCGACT+TGG + Chr2:37611918-37611937 MsG0280008746.01.T01:CDS 35.0%
GAATCTTGTGGCATAATCAT+TGG - Chr2:37611474-37611493 None:intergenic 35.0%
GCTTGCTTAATTGTGTATGA+TGG + Chr2:37611438-37611457 MsG0280008746.01.T01:CDS 35.0%
GGAATGGGAAACTCAATTTA+TGG + Chr2:37612034-37612053 MsG0280008746.01.T01:CDS 35.0%
GTGATTACAAGCTTGAATCT+TGG - Chr2:37611724-37611743 None:intergenic 35.0%
TACGAGCAACAAAAGATTGA+GGG + Chr2:37611522-37611541 MsG0280008746.01.T01:CDS 35.0%
TCATGGATATGTTGCATTTG+AGG - Chr2:37611882-37611901 None:intergenic 35.0%
! ACTTGGTGAAGTTGAAGAAT+TGG + Chr2:37611935-37611954 MsG0280008746.01.T01:CDS 35.0%
!!! TTGCTCGTATTTTTCAAGCA+TGG - Chr2:37611511-37611530 None:intergenic 35.0%
ACATTCAAGATTGGAGAGCT+CGG + Chr2:37611340-37611359 MsG0280008746.01.T01:CDS 40.0%
ATCAAGCTTCCTTGAATGTG+AGG - Chr2:37611844-37611863 None:intergenic 40.0%
ATGTTGTCTCCTCACATTCA+AGG + Chr2:37611832-37611851 MsG0280008746.01.T01:CDS 40.0%
ATGTTTCCAGAACATGGAAG+GGG + Chr2:37611665-37611684 MsG0280008746.01.T01:CDS 40.0%
CACAATCTCTTTGTGCACTT+TGG - Chr2:37611619-37611638 None:intergenic 40.0%
CACTACTCAGACGCAAAATA+CGG + Chr2:37611800-37611819 MsG0280008746.01.T01:CDS 40.0%
CATGTTTCCAGAACATGGAA+GGG + Chr2:37611664-37611683 MsG0280008746.01.T01:CDS 40.0%
CGTACAATTGTCGAATCTTG+TGG - Chr2:37611486-37611505 None:intergenic 40.0%
GCTTTGCCAGAAACAATAGA+TGG + Chr2:37612065-37612084 MsG0280008746.01.T01:CDS 40.0%
GTGGCTTCAAATGATCATCA+TGG - Chr2:37611899-37611918 None:intergenic 40.0%
TAGTTAATTTCCCACGAGCA+CGG - Chr2:37611314-37611333 None:intergenic 40.0%
TGTGAGGAGACAACATTACT+CGG - Chr2:37611828-37611847 None:intergenic 40.0%
!! CTTCCATGTTCTGGAAACAT+GGG - Chr2:37611665-37611684 None:intergenic 40.0%
CCATGTTTCCAGAACATGGA+AGG + Chr2:37611663-37611682 MsG0280008746.01.T01:CDS 45.0%
GATGATCCAGTTGCTAAACC+TGG + Chr2:37612008-37612027 MsG0280008746.01.T01:CDS 45.0%
TGCTAAACCTGGTCAGGAAT+GGG + Chr2:37612019-37612038 MsG0280008746.01.T01:CDS 45.0%
TTGCTAAACCTGGTCAGGAA+TGG + Chr2:37612018-37612037 MsG0280008746.01.T01:CDS 45.0%
!! CCTTCCATGTTCTGGAAACA+TGG - Chr2:37611666-37611685 None:intergenic 45.0%
!! GATTGGGCTAGTCAAGTACT+TGG + Chr2:37611969-37611988 MsG0280008746.01.T01:CDS 45.0%
GCACCCATGTTTCCAGAACA+TGG + Chr2:37611659-37611678 MsG0280008746.01.T01:CDS 50.0%
TCCAGTTGCTAAACCTGGTC+AGG + Chr2:37612013-37612032 MsG0280008746.01.T01:CDS 50.0%
TCCTGACCAGGTTTAGCAAC+TGG - Chr2:37612017-37612036 None:intergenic 50.0%
TGAGTTTCCCATTCCTGACC+AGG - Chr2:37612029-37612048 None:intergenic 50.0%
TGGAAACATGGGTGCCAAGT+TGG - Chr2:37611654-37611673 None:intergenic 50.0%
GTTGGTCCCCTTCCATGTTC+TGG - Chr2:37611674-37611693 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 37611306 37612094 37611306 ID=MsG0280008746.01;Name=MsG0280008746.01
Chr2 mRNA 37611306 37612094 37611306 ID=MsG0280008746.01.T01;Parent=MsG0280008746.01;Name=MsG0280008746.01.T01;_AED=0.33;_eAED=0.33;_QI=0|-1|0|1|-1|1|1|0|262
Chr2 exon 37611306 37612094 37611306 ID=MsG0280008746.01.T01:exon:1439;Parent=MsG0280008746.01.T01
Chr2 CDS 37611306 37612094 37611306 ID=MsG0280008746.01.T01:cds;Parent=MsG0280008746.01.T01
Gene Sequence

>MsG0280008746.01.T01

ATGGGCCGTGCTCGTGGGAAATTAACTATTAAACACATTCAAGATTGGAGAGCTCGGAAATCAACTTTCAATCAAAGAAGCAATGGATTGGCAAAAAAAGTTTCTGAATTTTCTAGCAAGTTTGGAGTTGAAGCTTGCTTAATTGTGTATGATGGTGATGGTAGACCAATGATTATGCCACAAGATTCGACAATTGTACGGTCCATGCTTGAAAAATACGAGCAACAAAAGATTGAGGGTACAACTCCAAAGATCTTTGATGTGAAAGACTATTTTGCAAATAAGAAGAATAAGATTGAAGCTGATATTTCCAAAGTGCACAAAGAGATTGTGATGAAAATGTATCCAACTTGGCACCCATGTTTCCAGAACATGGAAGGGGACCAACTCAAAACTTTTATTGCGATTGTAGATGCCAAGATTCAAGCTTGTAATCACAAAATTAACATGCTAAAGAAAATGCAACAAAGTACTGAAATTGGTTTCATGCTAAACACTACTCAGACGCAAAATACGGCTCCGAGTAATGTTGTCTCCTCACATTCAAGGAAGCTTGATGTCACTGATAGATTTCCTCAAATGCAACATATCCATGATGATCATTTGAAGCCACTTAGTGATACTAATCGACTTGGTGAAGTTGAAGAATTGGATGATTTTATGGATTGGGCTAGTCAAGTACTTGGTAATGTTGCATATTTGGATGATCCAGTTGCTAAACCTGGTCAGGAATGGGAAACTCAATTTATGGATTTTGATGCTTTGCCAGAAACAATAGATGGATTTTAA
Protein sequence

>MsG0280008746.01.T01

MGRARGKLTIKHIQDWRARKSTFNQRSNGLAKKVSEFSSKFGVEACLIVYDGDGRPMIMPQDSTIVRSMLEKYEQQKIEGTTPKIFDVKDYFANKKNKIEADISKVHKEIVMKMYPTWHPCFQNMEGDQLKTFIAIVDAKIQACNHKINMLKKMQQSTEIGFMLNTTQTQNTAPSNVVSSHSRKLDVTDRFPQMQHIHDDHLKPLSDTNRLGEVEELDDFMDWASQVLGNVAYLDDPVAKPGQEWETQFMDFDALPETIDGF*