AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880046299.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046299.01.T01 MTR_4g105110 87.413 286 9 1 1 259 1 286 7.95e-171 484
MsG0880046299.01.T01 MTR_4g105110 87.368 285 9 1 2 259 1 285 6.18e-170 482
MsG0880046299.01.T01 MTR_5g033190 42.806 278 124 5 13 259 6 279 6.29e-63 207
MsG0880046299.01.T01 MTR_4g073830 33.088 272 144 7 17 259 5 267 3.50e-30 119
MsG0880046299.01.T01 MTR_5g022240 32.950 261 133 7 24 253 12 261 1.16e-28 114
MsG0880046299.01.T01 MTR_8g075770 34.586 266 131 8 24 257 12 266 2.06e-24 102
MsG0880046299.01.T01 MTR_1g046850 27.273 231 138 3 16 223 7 230 3.18e-16 77.4
MsG0880046299.01.T01 MTR_0064s0050 28.155 206 106 6 32 200 13 213 1.13e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046299.01.T01 AT3G26600 40.714 280 130 3 12 259 3 278 6.93e-59 197
MsG0880046299.01.T01 AT3G26600 39.535 215 98 2 12 194 3 217 2.21e-44 157
MsG0880046299.01.T01 AT5G66200 33.835 266 133 6 24 257 12 266 3.33e-34 130
MsG0880046299.01.T01 AT4G34940 30.597 268 148 7 21 259 9 267 4.37e-27 110
MsG0880046299.01.T01 AT4G36030 30.350 257 138 6 24 248 12 259 1.30e-21 94.4

Find 64 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCCCTTACTAGCATTGTTTC+TGG 0.151651 8:+71661878 MsG0880046299.01.T01:CDS
TCGTGTTTCGGTTGCTAATT+TGG 0.199868 8:+71661994 MsG0880046299.01.T01:CDS
CGCTGTTCCTGTTATTGTTC+AGG 0.223997 8:+71661946 MsG0880046299.01.T01:CDS
TCCAGTTTAGGGCTAGGGTT+AGG 0.256114 8:-71661216 None:intergenic
GCCTCTGCTGAAGGTACTTA+AGG 0.293036 8:+71661817 MsG0880046299.01.T01:CDS
GTCTATCGTTTAACGATTGA+TGG 0.330773 8:-71661410 None:intergenic
TGTTGAAGCCGCTAATGAAT+TGG 0.333012 8:+71661733 MsG0880046299.01.T01:CDS
CCCTAACCCTAGCCCTAAAC+TGG 0.339423 8:+71661215 MsG0880046299.01.T01:CDS
TCCTCTTCCAGTTTAGGGCT+AGG 0.343705 8:-71661222 None:intergenic
GCAGCTGCAACTTGAGAATC+AGG 0.346441 8:-71661851 None:intergenic
GCGGCTTCAACACGATCCTT+AGG 0.357446 8:-71661722 None:intergenic
CTTGCTCGTGACGAGTTATA+AGG 0.371612 8:+71662043 MsG0880046299.01.T01:CDS
GATAGAACCTGAACAATAAC+AGG 0.384104 8:-71661953 None:intergenic
TGCAAGTAATGATCCAATCT+TGG 0.387337 8:+71661658 MsG0880046299.01.T01:CDS
CCAGTTTAGGGCTAGGGTTA+GGG 0.390774 8:-71661215 None:intergenic
CACCAGAAACAATGCTAGTA+AGG 0.399984 8:-71661880 None:intergenic
ATTGGATCATTACTTGCAAT+AGG 0.401514 8:-71661653 None:intergenic
CCTCTTCCAGTTTAGGGCTA+GGG 0.423833 8:-71661221 None:intergenic
GTTGAAGCCGCTAATGAATT+GGG 0.429727 8:+71661734 MsG0880046299.01.T01:CDS
TGCTAATTTGGTTTCTGCTA+TGG 0.430860 8:+71662006 MsG0880046299.01.T01:CDS
AGCATTCAGAGTTCGTGTTT+CGG 0.431587 8:+71661982 MsG0880046299.01.T01:CDS
GTCCACACCCAAGCCAAGAT+TGG 0.432601 8:-71661671 None:intergenic
CGGCTTCAACACGATCCTTA+GGG 0.452569 8:-71661721 None:intergenic
GTATCAACAGCTCTTCTTCA+AGG 0.453305 8:-71661251 None:intergenic
ACTTGCTCTCCCATTAAAAT+CGG 0.459051 8:-71661273 None:intergenic
TCCCTCACCATGCGCCTGAT+TGG 0.463283 8:-71661432 None:intergenic
GGTGTCGTGCGAGTGGTGAC+AGG 0.465384 8:+71661384 MsG0880046299.01.T01:CDS
TAATGATCCAATCTTGGCTT+GGG 0.477268 8:+71661664 MsG0880046299.01.T01:CDS
TTGCTCGTGACGAGTTATAA+GGG 0.479043 8:+71662044 MsG0880046299.01.T01:CDS
TGTTATTGTTCAGGTTCTAT+CGG 0.480007 8:+71661955 MsG0880046299.01.T01:CDS
ATCCAATCTTGGCTTGGGTG+TGG 0.493488 8:+71661669 MsG0880046299.01.T01:CDS
ATGTCGCGAACTAGCGAAGA+AGG 0.499586 8:+71661335 MsG0880046299.01.T01:CDS
TCAATTTATACCCTTCAGCT+TGG 0.502811 8:+71661695 MsG0880046299.01.T01:CDS
CCCTAGCCCTAAACTGGAAG+AGG 0.503473 8:+71661221 MsG0880046299.01.T01:CDS
GAACAGCGAGGTTGCTGAGA+AGG 0.512920 8:-71661931 None:intergenic
GTGTTAACCATGAGGAGTAC+AGG 0.515764 8:+71661531 MsG0880046299.01.T01:CDS
ACCAATCAGGCGCATGGTGA+GGG 0.519994 8:+71661431 MsG0880046299.01.T01:CDS
GTAATGATCCAATCTTGGCT+TGG 0.529201 8:+71661663 MsG0880046299.01.T01:CDS
CGTTAAACGATAGACCAATC+AGG 0.535251 8:+71661418 MsG0880046299.01.T01:CDS
AAGAGAACCCAATTCATTAG+CGG 0.540482 8:-71661741 None:intergenic
AAGTTCATCATTGTGGAAGA+AGG 0.550096 8:+71661785 MsG0880046299.01.T01:CDS
AAAATCACCTGTACTCCTCA+TGG 0.564410 8:-71661538 None:intergenic
GACCAATCAGGCGCATGGTG+AGG 0.566935 8:+71661430 MsG0880046299.01.T01:CDS
TCTTCGAGGTGTCGTGCGAG+TGG 0.567394 8:+71661377 MsG0880046299.01.T01:CDS
CCTTAGGGTTACCAAGCTGA+AGG 0.578443 8:-71661706 None:intergenic
TCATGGTTAACACATTCCTC+AGG 0.579600 8:-71661521 None:intergenic
TATAACTCGTCACGAGCAAG+AGG 0.584411 8:-71662040 None:intergenic
CTCTTGCTAAAGATAATGAT+CGG 0.585505 8:+71661759 MsG0880046299.01.T01:CDS
CCTTCAGCTTGGTAACCCTA+AGG 0.586544 8:+71661706 MsG0880046299.01.T01:CDS
GTGTCGTGCGAGTGGTGACA+GGG 0.610637 8:+71661385 MsG0880046299.01.T01:CDS
TCGGAACAAGTTCATCATTG+TGG 0.611472 8:+71661778 MsG0880046299.01.T01:CDS
ACCAGAAACAATGCTAGTAA+GGG 0.614538 8:-71661879 None:intergenic
ATCAAGGTGTTGTTGTCCTG+AGG 0.615398 8:+71661505 MsG0880046299.01.T01:CDS
CGATAGACCAATCAGGCGCA+TGG 0.618127 8:+71661425 MsG0880046299.01.T01:CDS
TCCTTAAGTACCTTCAGCAG+AGG 0.622310 8:-71661818 None:intergenic
CTTAGGGTTACCAAGCTGAA+GGG 0.626255 8:-71661705 None:intergenic
TTCATCATTGTGGAAGAAGG+TGG 0.627813 8:+71661788 MsG0880046299.01.T01:CDS
AAACGCTTGCACTTGTGCGG+AGG 0.630189 8:+71661475 MsG0880046299.01.T01:CDS
GCAAGTGATAAAGCTAGCAG+AGG 0.637114 8:+71661290 MsG0880046299.01.T01:CDS
TCGCGAACTAGCGAAGAAGG+TGG 0.648238 8:+71661338 MsG0880046299.01.T01:CDS
CAGCTGCAACTTGAGAATCA+GGG 0.655473 8:-71661850 None:intergenic
CTGGTGACGATGATCAACAA+AGG 0.674986 8:+71661897 MsG0880046299.01.T01:CDS
TGAGGAATGTGTTAACCATG+AGG 0.700177 8:+71661523 MsG0880046299.01.T01:CDS
GAACAATAACAGGAACAGCG+AGG 0.759779 8:-71661943 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTGAACATATTGAGTCTAAA+GGG + Chr8:71661612-71661631 MsG0880046299.01.T01:intron 25.0%
!!! AATCTTCTAGAATCTTCTAA+CGG + Chr8:71661573-71661592 MsG0880046299.01.T01:intron 25.0%
ATTGGATCATTACTTGCAAT+AGG - Chr8:71661656-71661675 None:intergenic 30.0%
CTCTTGCTAAAGATAATGAT+CGG + Chr8:71661759-71661778 MsG0880046299.01.T01:CDS 30.0%
GTTGAACATATTGAGTCTAA+AGG + Chr8:71661611-71661630 MsG0880046299.01.T01:intron 30.0%
! TGTTATTGTTCAGGTTCTAT+CGG + Chr8:71661955-71661974 MsG0880046299.01.T01:CDS 30.0%
!!! CTGTTGATACCGATTTTAAT+GGG + Chr8:71661264-71661283 MsG0880046299.01.T01:CDS 30.0%
AAGAGAACCCAATTCATTAG+CGG - Chr8:71661744-71661763 None:intergenic 35.0%
AAGTTCATCATTGTGGAAGA+AGG + Chr8:71661785-71661804 MsG0880046299.01.T01:CDS 35.0%
ACCAGAAACAATGCTAGTAA+GGG - Chr8:71661882-71661901 None:intergenic 35.0%
ACTTGCTCTCCCATTAAAAT+CGG - Chr8:71661276-71661295 None:intergenic 35.0%
ATACTCTGCAAAAATCTTCG+AGG + Chr8:71661363-71661382 MsG0880046299.01.T01:CDS 35.0%
GATAGAACCTGAACAATAAC+AGG - Chr8:71661956-71661975 None:intergenic 35.0%
GTCTATCGTTTAACGATTGA+TGG - Chr8:71661413-71661432 None:intergenic 35.0%
TAATGATCCAATCTTGGCTT+GGG + Chr8:71661664-71661683 MsG0880046299.01.T01:CDS 35.0%
TCAATTTATACCCTTCAGCT+TGG + Chr8:71661695-71661714 MsG0880046299.01.T01:CDS 35.0%
TGCAAGTAATGATCCAATCT+TGG + Chr8:71661658-71661677 MsG0880046299.01.T01:CDS 35.0%
! CAGGTGATTTTCGAAAAGTT+TGG + Chr8:71661550-71661569 MsG0880046299.01.T01:intron 35.0%
! TCTTTTCCTCTTCCAGTTTA+GGG - Chr8:71661230-71661249 None:intergenic 35.0%
! TGCTAATTTGGTTTCTGCTA+TGG + Chr8:71662006-71662025 MsG0880046299.01.T01:CDS 35.0%
!!! GCTGTTGATACCGATTTTAA+TGG + Chr8:71661263-71661282 MsG0880046299.01.T01:CDS 35.0%
AAAAAACGCTTGCACTTGTG+CGG + Chr8:71661472-71661491 MsG0880046299.01.T01:CDS 40.0%
AAAATCACCTGTACTCCTCA+TGG - Chr8:71661541-71661560 None:intergenic 40.0%
AGCATTCAGAGTTCGTGTTT+CGG + Chr8:71661982-71662001 MsG0880046299.01.T01:CDS 40.0%
CACCAGAAACAATGCTAGTA+AGG - Chr8:71661883-71661902 None:intergenic 40.0%
CGTTAAACGATAGACCAATC+AGG + Chr8:71661418-71661437 MsG0880046299.01.T01:CDS 40.0%
CTTCTAACGGTGATATGATG+TGG + Chr8:71661586-71661605 MsG0880046299.01.T01:intron 40.0%
GTAATGATCCAATCTTGGCT+TGG + Chr8:71661663-71661682 MsG0880046299.01.T01:CDS 40.0%
GTATCAACAGCTCTTCTTCA+AGG - Chr8:71661254-71661273 None:intergenic 40.0%
GTTGAAGCCGCTAATGAATT+GGG + Chr8:71661734-71661753 MsG0880046299.01.T01:CDS 40.0%
TCATGGTTAACACATTCCTC+AGG - Chr8:71661524-71661543 None:intergenic 40.0%
TCGGAACAAGTTCATCATTG+TGG + Chr8:71661778-71661797 MsG0880046299.01.T01:CDS 40.0%
TCGTGTTTCGGTTGCTAATT+TGG + Chr8:71661994-71662013 MsG0880046299.01.T01:CDS 40.0%
TGAGGAATGTGTTAACCATG+AGG + Chr8:71661523-71661542 MsG0880046299.01.T01:CDS 40.0%
TGTTGAAGCCGCTAATGAAT+TGG + Chr8:71661733-71661752 MsG0880046299.01.T01:CDS 40.0%
TTCATCATTGTGGAAGAAGG+TGG + Chr8:71661788-71661807 MsG0880046299.01.T01:CDS 40.0%
! CTCTTTTCCTCTTCCAGTTT+AGG - Chr8:71661231-71661250 None:intergenic 40.0%
CAGCTGCAACTTGAGAATCA+GGG - Chr8:71661853-71661872 None:intergenic 45.0%
CGCTGTTCCTGTTATTGTTC+AGG + Chr8:71661946-71661965 MsG0880046299.01.T01:CDS 45.0%
CTTAGGGTTACCAAGCTGAA+GGG - Chr8:71661708-71661727 None:intergenic 45.0%
GAACAATAACAGGAACAGCG+AGG - Chr8:71661946-71661965 None:intergenic 45.0%
GCAAGTGATAAAGCTAGCAG+AGG + Chr8:71661290-71661309 MsG0880046299.01.T01:CDS 45.0%
GCCCTTACTAGCATTGTTTC+TGG + Chr8:71661878-71661897 MsG0880046299.01.T01:CDS 45.0%
TATAACTCGTCACGAGCAAG+AGG - Chr8:71662043-71662062 None:intergenic 45.0%
TCCTTAAGTACCTTCAGCAG+AGG - Chr8:71661821-71661840 None:intergenic 45.0%
! CTGGTGACGATGATCAACAA+AGG + Chr8:71661897-71661916 MsG0880046299.01.T01:CDS 45.0%
! GTGTTAACCATGAGGAGTAC+AGG + Chr8:71661531-71661550 MsG0880046299.01.T01:CDS 45.0%
!! ATCAAGGTGTTGTTGTCCTG+AGG + Chr8:71661505-71661524 MsG0880046299.01.T01:CDS 45.0%
ATGTCGCGAACTAGCGAAGA+AGG + Chr8:71661335-71661354 MsG0880046299.01.T01:CDS 50.0%
CCTTAGGGTTACCAAGCTGA+AGG - Chr8:71661709-71661728 None:intergenic 50.0%
CGGCTTCAACACGATCCTTA+GGG - Chr8:71661724-71661743 None:intergenic 50.0%
GCAGCTGCAACTTGAGAATC+AGG - Chr8:71661854-71661873 None:intergenic 50.0%
! CCAGTTTAGGGCTAGGGTTA+GGG - Chr8:71661218-71661237 None:intergenic 50.0%
! CCTCTTCCAGTTTAGGGCTA+GGG - Chr8:71661224-71661243 None:intergenic 50.0%
! CCTTCAGCTTGGTAACCCTA+AGG + Chr8:71661706-71661725 MsG0880046299.01.T01:CDS 50.0%
! GTGCGGAGGTGCAAAAATCA+AGG + Chr8:71661489-71661508 MsG0880046299.01.T01:CDS 50.0%
! TCCAGTTTAGGGCTAGGGTT+AGG - Chr8:71661219-71661238 None:intergenic 50.0%
! TCCTCTTCCAGTTTAGGGCT+AGG - Chr8:71661225-71661244 None:intergenic 50.0%
! TGGTGTTTTGCCTCTGCTGA+AGG + Chr8:71661808-71661827 MsG0880046299.01.T01:CDS 50.0%
!! ATCCAATCTTGGCTTGGGTG+TGG + Chr8:71661669-71661688 MsG0880046299.01.T01:CDS 50.0%
!! GCCTCTGCTGAAGGTACTTA+AGG + Chr8:71661817-71661836 MsG0880046299.01.T01:CDS 50.0%
AAACGCTTGCACTTGTGCGG+AGG + Chr8:71661475-71661494 MsG0880046299.01.T01:CDS 55.0%
ACCAATCAGGCGCATGGTGA+GGG + Chr8:71661431-71661450 MsG0880046299.01.T01:CDS 55.0%
CCCTAACCCTAGCCCTAAAC+TGG + Chr8:71661215-71661234 MsG0880046299.01.T01:CDS 55.0%
CCCTAGCCCTAAACTGGAAG+AGG + Chr8:71661221-71661240 MsG0880046299.01.T01:CDS 55.0%
CGATAGACCAATCAGGCGCA+TGG + Chr8:71661425-71661444 MsG0880046299.01.T01:CDS 55.0%
GAACAGCGAGGTTGCTGAGA+AGG - Chr8:71661934-71661953 None:intergenic 55.0%
GCGGCTTCAACACGATCCTT+AGG - Chr8:71661725-71661744 None:intergenic 55.0%
GTCCACACCCAAGCCAAGAT+TGG - Chr8:71661674-71661693 None:intergenic 55.0%
TCGCGAACTAGCGAAGAAGG+TGG + Chr8:71661338-71661357 MsG0880046299.01.T01:CDS 55.0%
GACCAATCAGGCGCATGGTG+AGG + Chr8:71661430-71661449 MsG0880046299.01.T01:CDS 60.0%
GTGTCGTGCGAGTGGTGACA+GGG + Chr8:71661385-71661404 MsG0880046299.01.T01:CDS 60.0%
TCCCTCACCATGCGCCTGAT+TGG - Chr8:71661435-71661454 None:intergenic 60.0%
!! TCTTCGAGGTGTCGTGCGAG+TGG + Chr8:71661377-71661396 MsG0880046299.01.T01:CDS 60.0%
! GGTGTCGTGCGAGTGGTGAC+AGG + Chr8:71661384-71661403 MsG0880046299.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr8 gene 71661204 71662063 71661204 ID=MsG0880046299.01;Name=MsG0880046299.01
Chr8 mRNA 71661204 71662063 71661204 ID=MsG0880046299.01.T01;Parent=MsG0880046299.01;Name=MsG0880046299.01.T01;_AED=0.40;_eAED=0.40;_QI=0|0|0.5|1|1|1|2|0|259
Chr8 exon 71661204 71661552 71661204 ID=MsG0880046299.01.T01:exon:27877;Parent=MsG0880046299.01.T01
Chr8 exon 71661633 71662063 71661633 ID=MsG0880046299.01.T01:exon:27878;Parent=MsG0880046299.01.T01
Chr8 CDS 71661204 71661552 71661204 ID=MsG0880046299.01.T01:cds;Parent=MsG0880046299.01.T01
Chr8 CDS 71661633 71662063 71661633 ID=MsG0880046299.01.T01:cds;Parent=MsG0880046299.01.T01
Gene Sequence

>MsG0880046299.01.T01

ATGATGAAAAGCCCTAACCCTAGCCCTAAACTGGAAGAGGAAAAGAGCCTTGAAGAAGAGCTGTTGATACCGATTTTAATGGGAGAGCAAGTGATAAAGCTAGCAGAGGAAGCAAAATCATCAAAAGTTGAATGTCGCGAACTAGCGAAGAAGGTGGAGATACTCTGCAAAAATCTTCGAGGTGTCGTGCGAGTGGTGACAGGGAGCCATCAATCGTTAAACGATAGACCAATCAGGCGCATGGTGAGGGAATTATCAAAGAATCTAGAAAAAACGCTTGCACTTGTGCGGAGGTGCAAAAATCAAGGTGTTGTTGTCCTGAGGAATGTGTTAACCATGAGGAGTACAGGGACTAATCTTTCGATATCTCCTATTGCAAGTAATGATCCAATCTTGGCTTGGGTGTGGACTTCAATTTATACCCTTCAGCTTGGTAACCCTAAGGATCGTGTTGAAGCCGCTAATGAATTGGGTTCTCTTGCTAAAGATAATGATCGGAACAAGTTCATCATTGTGGAAGAAGGTGGTGTTTTGCCTCTGCTGAAGGTACTTAAGGATTCTGCTTTCCCTGATTCTCAAGTTGCAGCTGCTAATGCCCTTACTAGCATTGTTTCTGGTGACGATGATCAACAAAGGATAGTTCAATTCCTTCTCAGCAACCTCGCTGTTCCTGTTATTGTTCAGGTTCTATCGGATGCAGCATTCAGAGTTCGTGTTTCGGTTGCTAATTTGGTTTCTGCTATGGCTGATCAAGAGCCTCTTGCTCGTGACGAGTTATAA

Protein sequence

>MsG0880046299.01.T01

MMKSPNPSPKLEEEKSLEEELLIPILMGEQVIKLAEEAKSSKVECRELAKKVEILCKNLRGVVRVVTGSHQSLNDRPIRRMVRELSKNLEKTLALVRRCKNQGVVVLRNVLTMRSTGTNLSISPIASNDPILAWVWTSIYTLQLGNPKDRVEAANELGSLAKDNDRNKFIIVEEGGVLPLLKVLKDSAFPDSQVAAANALTSIVSGDDDQQRIVQFLLSNLAVPVIVQVLSDAAFRVRVSVANLVSAMADQEPLARDEL*