AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080049063.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080049063.01.T01 MTR_3g064070 95.480 177 8 0 1 177 1 177 4.32e-125 349
MsG0080049063.01.T01 MTR_8g005175 29.524 105 74 0 73 177 127 231 9.90e-12 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080049063.01.T01 AT2G01918 42.000 150 73 5 42 177 38 187 3.40e-29 106
MsG0080049063.01.T01 AT4G21280 31.967 122 77 1 62 177 101 222 1.31e-16 74.7
MsG0080049063.01.T01 AT4G21280 31.967 122 77 1 62 177 102 223 1.51e-16 74.7
MsG0080049063.01.T01 AT4G05180 29.508 122 80 1 62 177 108 229 2.90e-15 71.2
MsG0080049063.01.T01 AT4G05180 29.508 122 80 1 62 177 108 229 2.90e-15 71.2

Find 35 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTACATTTGATGTTGTTTA+AGG 0.085550 contig643end:+12161 MsG0080049063.01.T01:five_prime_UTR
ATTGCAAATGCATTTGATTT+TGG 0.133260 contig643end:+12374 MsG0080049063.01.T01:CDS
TTGACACAACATGTGAATTT+TGG 0.139486 contig643end:-12248 MsG0080049063.01.T01:intergenic
GAAAATCAGTAGAAGAAATT+TGG 0.169295 contig643end:+12313 MsG0080049063.01.T01:CDS
AAGTGTAGTTATCTCAATTT+TGG 0.195442 contig643end:+13002 MsG0080049063.01.T01:three_prime_UTR
AACTGTGACCTTTCACTTCC+AGG 0.232695 contig643end:-12575 MsG0080049063.01.T01:intergenic
AAAATCAGTAGAAGAAATTT+GGG 0.278260 contig643end:+12314 MsG0080049063.01.T01:CDS
TGTTGCATATATCATCAATT+TGG 0.298723 contig643end:+12899 MsG0080049063.01.T01:three_prime_UTR
GCCTCTTCAACTGTTTGATC+AGG 0.315431 contig643end:-12407 MsG0080049063.01.T01:intergenic
TCAAGAATATAATAGTGTTT+TGG 0.333968 contig643end:+12843 MsG0080049063.01.T01:exon
AAGTAGCTGAATGAAGAAAA+AGG 0.357387 contig643end:+12872 MsG0080049063.01.T01:three_prime_UTR
ACATGAATTTCTAATATGAT+TGG 0.364997 contig643end:-12127 MsG0080049063.01.T01:intergenic
AATCTTTCTGTTGAGAATGT+TGG 0.372717 contig643end:-12283 MsG0080049063.01.T01:intergenic
TCATAACGCTGCCACACTTC+AGG 0.379368 contig643end:-12789 MsG0080049063.01.T01:intergenic
AGAAAGAACATTTCAAAAGT+TGG 0.385436 contig643end:-13041 MsG0080049063.01.T01:intergenic
AAATAGGTGTGATAGTAAAA+TGG 0.397113 contig643end:+12963 MsG0080049063.01.T01:three_prime_UTR
GAACATTTCAAAAGTTGGCT+TGG 0.408553 contig643end:-13036 MsG0080049063.01.T01:intergenic
GAGTGTCTAAATGTTAAAAT+AGG 0.408697 contig643end:+12947 MsG0080049063.01.T01:three_prime_UTR
GTCATGGAAAATAGCACAAA+AGG 0.423780 contig643end:+12493 MsG0080049063.01.T01:CDS
GTGTGTCATGTTGGGTTGTA+AGG 0.459754 contig643end:-12219 MsG0080049063.01.T01:intergenic
TTAGTGGAGAGTGCATGTTT+AGG 0.480583 contig643end:+12345 MsG0080049063.01.T01:CDS
GGAAACAAGTGTGTCATGTT+GGG 0.491504 contig643end:-12227 MsG0080049063.01.T01:intergenic
ACCATAATTCAAAACAAGCC+TGG 0.511434 contig643end:+12557 MsG0080049063.01.T01:CDS
GAAGTGAAAGGTCACAGTTA+AGG 0.517020 contig643end:+12579 MsG0080049063.01.T01:CDS
CCTCTTCAACTGTTTGATCA+GGG 0.547039 contig643end:-12406 MsG0080049063.01.T01:intergenic
TGAGAATGTTGGAAATTACA+AGG 0.547178 contig643end:-12272 MsG0080049063.01.T01:intergenic
CCCTGATCAAACAGTTGAAG+AGG 0.549247 contig643end:+12406 MsG0080049063.01.T01:CDS
TGGAAACAAGTGTGTCATGT+TGG 0.566086 contig643end:-12228 MsG0080049063.01.T01:intergenic
AGGTTGAATTCAAAGAACAA+TGG 0.584627 contig643end:+12181 MsG0080049063.01.T01:exon
AAAACAAGCCTGGAAGTGAA+AGG 0.596015 contig643end:+12567 MsG0080049063.01.T01:CDS
ATTTGTTAGAGTCAAAGTCA+TGG 0.608950 contig643end:+12477 MsG0080049063.01.T01:CDS
ATCAAGATGGACCTGAAGTG+TGG 0.634230 contig643end:+12778 MsG0080049063.01.T01:CDS
GCGTTATGAGAACATTGTTG+TGG 0.635212 contig643end:+12803 MsG0080049063.01.T01:CDS
TATGCAGCAAGAGATCAAGA+TGG 0.661307 contig643end:+12765 MsG0080049063.01.T01:CDS
AAATCAGTAGAAGAAATTTG+GGG 0.677600 contig643end:+12315 MsG0080049063.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATCAGTAGAAGAAATTT+GGG + contig643end:12314-12333 MsG0080049063.01.T01:CDS 20.0%
!! ACATGAATTTCTAATATGAT+TGG - contig643end:12130-12149 MsG0080049063.01.T01:intergenic 20.0%
!!! ATTACATTTGATGTTGTTTA+AGG + contig643end:12161-12180 MsG0080049063.01.T01:five_prime_UTR 20.0%
!!! TCAAGAATATAATAGTGTTT+TGG + contig643end:12843-12862 MsG0080049063.01.T01:exon 20.0%
!!! TTTATTGTTTTTGTTGTGTA+AGG + contig643end:12683-12702 MsG0080049063.01.T01:intron 20.0%
! AAATAGGTGTGATAGTAAAA+TGG + contig643end:12963-12982 MsG0080049063.01.T01:three_prime_UTR 25.0%
! AAATCAGTAGAAGAAATTTG+GGG + contig643end:12315-12334 MsG0080049063.01.T01:CDS 25.0%
! GAAAATCAGTAGAAGAAATT+TGG + contig643end:12313-12332 MsG0080049063.01.T01:CDS 25.0%
! GAGTGTCTAAATGTTAAAAT+AGG + contig643end:12947-12966 MsG0080049063.01.T01:three_prime_UTR 25.0%
! TGTTGCATATATCATCAATT+TGG + contig643end:12899-12918 MsG0080049063.01.T01:three_prime_UTR 25.0%
!! AAGTGTAGTTATCTCAATTT+TGG + contig643end:13002-13021 MsG0080049063.01.T01:three_prime_UTR 25.0%
!!! ATTGATGTTTAGTTTTGCAT+TGG + contig643end:12721-12740 MsG0080049063.01.T01:intron 25.0%
!!! ATTGCAAATGCATTTGATTT+TGG + contig643end:12374-12393 MsG0080049063.01.T01:CDS 25.0%
AAGTAGCTGAATGAAGAAAA+AGG + contig643end:12872-12891 MsG0080049063.01.T01:three_prime_UTR 30.0%
AATCTTTCTGTTGAGAATGT+TGG - contig643end:12286-12305 MsG0080049063.01.T01:intergenic 30.0%
AGGTTGAATTCAAAGAACAA+TGG + contig643end:12181-12200 MsG0080049063.01.T01:exon 30.0%
TCAACAATGTTACTAGAGTA+AGG + contig643end:12621-12640 MsG0080049063.01.T01:intron 30.0%
TGAGAATGTTGGAAATTACA+AGG - contig643end:12275-12294 MsG0080049063.01.T01:intergenic 30.0%
! ATTTGTTAGAGTCAAAGTCA+TGG + contig643end:12477-12496 MsG0080049063.01.T01:CDS 30.0%
! TTGACACAACATGTGAATTT+TGG - contig643end:12251-12270 MsG0080049063.01.T01:intergenic 30.0%
!! AATTTGGGGTTGATTTTTAG+TGG + contig643end:12329-12348 MsG0080049063.01.T01:CDS 30.0%
ACCATAATTCAAAACAAGCC+TGG + contig643end:12557-12576 MsG0080049063.01.T01:CDS 35.0%
GTCATGGAAAATAGCACAAA+AGG + contig643end:12493-12512 MsG0080049063.01.T01:CDS 35.0%
!! AAGTTCAGCACTTTTGAAGA+AGG + contig643end:12526-12545 MsG0080049063.01.T01:CDS 35.0%
!! TGACAAAGTGTCCTAGTTTT+AGG - contig643end:12656-12675 MsG0080049063.01.T01:intergenic 35.0%
!!! TCCAGGCTTGTTTTGAATTA+TGG - contig643end:12561-12580 MsG0080049063.01.T01:intergenic 35.0%
AAAACAAGCCTGGAAGTGAA+AGG + contig643end:12567-12586 MsG0080049063.01.T01:CDS 40.0%
CCTCTTCAACTGTTTGATCA+GGG - contig643end:12409-12428 MsG0080049063.01.T01:intergenic 40.0%
GAAGTGAAAGGTCACAGTTA+AGG + contig643end:12579-12598 MsG0080049063.01.T01:CDS 40.0%
GCGTTATGAGAACATTGTTG+TGG + contig643end:12803-12822 MsG0080049063.01.T01:CDS 40.0%
GGAAACAAGTGTGTCATGTT+GGG - contig643end:12230-12249 MsG0080049063.01.T01:intergenic 40.0%
GGAGACTTTGTCCTAAAACT+AGG + contig643end:12642-12661 MsG0080049063.01.T01:intron 40.0%
TATGCAGCAAGAGATCAAGA+TGG + contig643end:12765-12784 MsG0080049063.01.T01:CDS 40.0%
TGGAAACAAGTGTGTCATGT+TGG - contig643end:12231-12250 MsG0080049063.01.T01:intergenic 40.0%
! TTAGTGGAGAGTGCATGTTT+AGG + contig643end:12345-12364 MsG0080049063.01.T01:CDS 40.0%
AACTGTGACCTTTCACTTCC+AGG - contig643end:12578-12597 MsG0080049063.01.T01:intergenic 45.0%
ATCAAGATGGACCTGAAGTG+TGG + contig643end:12778-12797 MsG0080049063.01.T01:CDS 45.0%
CCCTGATCAAACAGTTGAAG+AGG + contig643end:12406-12425 MsG0080049063.01.T01:CDS 45.0%
GCCTCTTCAACTGTTTGATC+AGG - contig643end:12410-12429 MsG0080049063.01.T01:intergenic 45.0%
! GTGTGTCATGTTGGGTTGTA+AGG - contig643end:12222-12241 MsG0080049063.01.T01:intergenic 45.0%
TCATAACGCTGCCACACTTC+AGG - contig643end:12792-12811 MsG0080049063.01.T01:intergenic 50.0%
Chromosome Type Strat End Strand Name
contig643end gene 12079 13048 12079 ID=MsG0080049063.01;Name=MsG0080049063.01
contig643end mRNA 12079 13048 12079 ID=MsG0080049063.01.T01;Parent=MsG0080049063.01;Name=MsG0080049063.01.T01;_AED=0.48;_eAED=0.48;_QI=121|1|1|1|0|0|2|194|177
contig643end exon 12079 12637 12079 ID=MsG0080049063.01.T01:exon:3211;Parent=MsG0080049063.01.T01
contig643end exon 12759 13048 12759 ID=MsG0080049063.01.T01:exon:3212;Parent=MsG0080049063.01.T01
contig643end five_prime_UTR 12079 12199 12079 ID=MsG0080049063.01.T01:five_prime_utr;Parent=MsG0080049063.01.T01
contig643end CDS 12200 12637 12200 ID=MsG0080049063.01.T01:cds;Parent=MsG0080049063.01.T01
contig643end CDS 12759 12854 12759 ID=MsG0080049063.01.T01:cds;Parent=MsG0080049063.01.T01
contig643end three_prime_UTR 12855 13048 12855 ID=MsG0080049063.01.T01:three_prime_utr;Parent=MsG0080049063.01.T01
contig643end mRNA 12496 12585 12496 ID=MsG0080049063.01.T02;Parent=MsG0080049063.01;Name=MsG0080049063.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|29
contig643end exon 12496 12585 12496 ID=MsG0080049063.01.T02:exon:3213;Parent=MsG0080049063.01.T02
contig643end CDS 12496 12585 12496 ID=MsG0080049063.01.T02:cds;Parent=MsG0080049063.01.T02
Gene Sequence

>MsG0080049063.01.T01

ATGGAGTTAAGAACATTTACCTTACAACCCAACATGACACACTTGTTTCCAAAATTCACATGTTGTGTCAAACCTTGTAATTTCCAACATTCTCAACAGAAAGATTTGTCACTGAAAATCAGTAGAAGAAATTTGGGGTTGATTTTTAGTGGAGAGTGCATGTTTAGGACAAAGATTGCAAATGCATTTGATTTTGGACTTGTTGTCCCTGATCAAACAGTTGAAGAGGCACAAAATGTAGTGAGAGTTCATGCACAAGATTTATTGCAAGTTAGAGATTTGTTAGAGTCAAAGTCATGGAAAATAGCACAAAAGGAATTGAGAAGAAGTTCAGCACTTTTGAAGAAGGATATATACACCATAATTCAAAACAAGCCTGGAAGTGAAAGGTCACAGTTAAGGAAGCTCTATTCTACTCTCTTCAACAATGTTACTAGACTAGATTATGCAGCAAGAGATCAAGATGGACCTGAAGTGTGGCAGCGTTATGAGAACATTGTTGTGGCTGTGAATGAAATTCTATCAAGAATATAA

>MsG0080049063.01.T02

ATGGAAAATAGCACAAAAGGAATTGAGAAGAAGTTCAGCACTTTTGAAGAAGGATATATACACCATAATTCAAAACAAGCCTGGAAGTGA

Protein sequence

>MsG0080049063.01.T01

MELRTFTLQPNMTHLFPKFTCCVKPCNFQHSQQKDLSLKISRRNLGLIFSGECMFRTKIANAFDFGLVVPDQTVEEAQNVVRVHAQDLLQVRDLLESKSWKIAQKELRRSSALLKKDIYTIIQNKPGSERSQLRKLYSTLFNNVTRLDYAARDQDGPEVWQRYENIVVAVNEILSRI*

>MsG0080049063.01.T02

MENSTKGIEKKFSTFEEGYIHHNSKQAWK*