AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007233.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007233.01.T01 MTR_2g023100 97.403 77 2 0 1 77 1 77 5.89e-53 159
MsG0280007233.01.T01 MTR_4g046737 49.333 75 35 2 1 74 1 73 4.70e-20 76.3
MsG0280007233.01.T01 MTR_2g088730 59.184 49 20 0 27 75 32 80 1.19e-17 70.5
MsG0280007233.01.T01 MTR_5g009460 42.647 68 36 1 7 74 20 84 9.33e-15 63.2
MsG0280007233.01.T01 MTR_3g083540 51.111 45 22 0 28 72 98 142 2.36e-12 60.5
MsG0280007233.01.T01 MTR_4g100720 37.662 77 38 1 5 71 37 113 7.43e-12 57.8
MsG0280007233.01.T01 MTR_7g117730 51.163 43 21 0 30 72 71 113 1.57e-11 57.8
MsG0280007233.01.T01 MTR_0197s0010 47.727 44 23 0 29 72 59 102 1.58e-11 57.8
MsG0280007233.01.T01 MTR_8g060940 47.727 44 23 0 29 72 65 108 2.64e-11 57.0
MsG0280007233.01.T01 MTR_0247s0040 45.455 44 24 0 28 71 64 107 2.78e-11 56.2
MsG0280007233.01.T01 MTR_5g079670 48.837 43 22 0 29 71 69 111 3.92e-11 56.2
MsG0280007233.01.T01 MTR_0001s0360 46.000 50 24 1 18 67 57 103 7.67e-11 55.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007233.01.T01 AT2G46410 63.636 44 16 0 27 70 36 79 1.70e-17 70.5
MsG0280007233.01.T01 AT4G01060 50.000 64 29 1 7 70 16 76 5.70e-16 65.9
MsG0280007233.01.T01 AT1G01380 56.818 44 19 0 27 70 32 75 1.51e-15 65.1
MsG0280007233.01.T01 AT5G53200 52.000 50 24 0 27 76 31 80 2.03e-15 65.5
MsG0280007233.01.T01 AT4G01060 60.000 45 18 0 26 70 29 73 2.10e-15 64.3
MsG0280007233.01.T01 AT4G01060 60.000 45 18 0 26 70 30 74 2.71e-15 64.3
MsG0280007233.01.T01 AT2G30420 36.111 72 43 1 1 72 15 83 1.74e-12 58.2
MsG0280007233.01.T01 AT2G30424 50.000 44 22 0 27 70 34 77 4.93e-12 56.6
MsG0280007233.01.T01 AT5G52600 45.455 44 24 0 29 72 70 113 1.09e-11 57.8
MsG0280007233.01.T01 AT5G14750 43.182 44 25 0 29 72 13 56 2.21e-11 55.8
MsG0280007233.01.T01 AT5G14750 43.182 44 25 0 29 72 13 56 2.21e-11 55.8
MsG0280007233.01.T01 AT2G30432 44.262 61 31 2 10 70 19 76 4.10e-11 53.9
MsG0280007233.01.T01 AT3G13540 52.500 40 19 0 30 69 82 121 8.07e-11 55.8

Find 27 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAACGATATCTTCCTCTTC+TGG 0.165562 2:+12344725 None:intergenic
ATATCTTCTGGGGTTCTTCC+AGG 0.255062 2:+12344509 None:intergenic
GGATCAATATAATAGGAAAA+AGG 0.355165 2:+12344204 None:intergenic
TGCATATGGATCAATATAAT+AGG 0.358516 2:+12344197 None:intergenic
CAACGATATCTTCCTCTTCT+GGG 0.371629 2:+12344726 None:intergenic
ATAATTTCAAACCATGCATA+TGG 0.386582 2:+12344183 None:intergenic
TGTAGATGGCATCTCATTGC+TGG 0.392405 2:-12344539 MsG0280007233.01.T01:intron
TTGTTATTACATCATATTTG+TGG 0.396920 2:+12344109 None:intergenic
CTCATTGCTGGGAGAATCCC+TGG 0.434907 2:-12344527 MsG0280007233.01.T01:CDS
TTAACTCAGTTTATGTGTGC+AGG 0.437915 2:+12345039 None:intergenic
CAGAAGATATTGAAAAGTAT+TGG 0.446559 2:-12344496 MsG0280007233.01.T01:CDS
TATCTTCTGGGGTTCTTCCA+GGG 0.463656 2:+12344510 None:intergenic
ATTTGCTCAGGAACTTAGAA+TGG 0.468776 2:+12344420 None:intergenic
GATGAAACGTGAGGCTGTGC+TGG 0.475255 2:-12344756 MsG0280007233.01.T01:CDS
AATGGCCAGTATGTCTCTTC+AGG 0.479277 2:-12344956 MsG0280007233.01.T01:intron
ATATTTGTGGATAAAGATGT+AGG 0.506418 2:+12344122 None:intergenic
AATTACACAATAATTTGCTC+AGG 0.510754 2:+12344408 None:intergenic
TGTTTAGATTGGTCGGAAAG+AGG 0.513739 2:-12344697 MsG0280007233.01.T01:intron
TGGTACCTGAAGAGACATAC+TGG 0.523534 2:+12344951 None:intergenic
AGGAACTTAGAATGGTACTT+AGG 0.533310 2:+12344428 None:intergenic
GTAGATGGCATCTCATTGCT+GGG 0.572643 2:-12344538 MsG0280007233.01.T01:intron
ATTATATTGATCCATATGCA+TGG 0.574143 2:-12344194 MsG0280007233.01.T01:three_prime_UTR
TATTTGTGGATAAAGATGTA+GGG 0.588008 2:+12344123 None:intergenic
AACGATATCTTCCTCTTCTG+GGG 0.611771 2:+12344727 None:intergenic
TATGCAACCACTGCAAACAA+TGG 0.637268 2:-12344974 MsG0280007233.01.T01:CDS
ATACTGGCCATTGTTTGCAG+TGG 0.645184 2:+12344967 None:intergenic
CTCAGATCAGATGAAACGTG+AGG 0.650176 2:-12344765 MsG0280007233.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATATATATATATATATAT+AGG - Chr2:12344169-12344188 MsG0280007233.01.T01:three_prime_UTR 0.0%
!! ATATACAGATTCATATGATT+TGG + Chr2:12344279-12344298 None:intergenic 20.0%
!! TATACAGATTCATATGATTT+GGG + Chr2:12344278-12344297 None:intergenic 20.0%
!! TATATGTTAATTAACTTCGT+TGG - Chr2:12344423-12344442 MsG0280007233.01.T01:three_prime_UTR 20.0%
!!! AATACTTTTCAATATCTTCT+GGG + Chr2:12344584-12344603 None:intergenic 20.0%
!!! TTGTTATTACATCATATTTG+TGG + Chr2:12344973-12344992 None:intergenic 20.0%
!!! TTTATATATGCATCTTTTGT+TGG - Chr2:12344834-12344853 MsG0280007233.01.T01:intron 20.0%
! ATAATTTCAAACCATGCATA+TGG + Chr2:12344899-12344918 None:intergenic 25.0%
! ATATTTGTGGATAAAGATGT+AGG + Chr2:12344960-12344979 None:intergenic 25.0%
! ATTATATTGATCCATATGCA+TGG - Chr2:12344885-12344904 MsG0280007233.01.T01:intron 25.0%
! GGATCAATATAATAGGAAAA+AGG + Chr2:12344878-12344897 None:intergenic 25.0%
! TATTTGTGGATAAAGATGTA+GGG + Chr2:12344959-12344978 None:intergenic 25.0%
! TGCATATGGATCAATATAAT+AGG + Chr2:12344885-12344904 None:intergenic 25.0%
! TTTATCCATCAACAAAAAGT+CGG - Chr2:12344692-12344711 MsG0280007233.01.T01:intron 25.0%
! TTTGACATGTTAATTGTAGA+TGG - Chr2:12344526-12344545 MsG0280007233.01.T01:CDS 25.0%
!! ATACTTTTCAATATCTTCTG+GGG + Chr2:12344583-12344602 None:intergenic 25.0%
!! CAATACTTTTCAATATCTTC+TGG + Chr2:12344585-12344604 None:intergenic 25.0%
!! CAGAAGATATTGAAAAGTAT+TGG - Chr2:12344583-12344602 MsG0280007233.01.T01:intron 25.0%
!!! AATTACACAATAATTTGCTC+AGG + Chr2:12344674-12344693 None:intergenic 25.0%
CGTTGCAAAAATGTTTAGAT+TGG - Chr2:12344371-12344390 MsG0280007233.01.T01:three_prime_UTR 30.0%
GCAAAAATGTTTAGATTGGT+CGG - Chr2:12344375-12344394 MsG0280007233.01.T01:three_prime_UTR 30.0%
TCATGTGTTTGTATTGTAGA+AGG - Chr2:12344488-12344507 MsG0280007233.01.T01:CDS 30.0%
! AGATTCATATGATTTGGGAA+GGG + Chr2:12344273-12344292 None:intergenic 30.0%
! ATATATGCATCTTTTGTTGG+TGG - Chr2:12344837-12344856 MsG0280007233.01.T01:intron 30.0%
AGGAACTTAGAATGGTACTT+AGG + Chr2:12344654-12344673 None:intergenic 35.0%
ATAAGATGGTCAACTTGAAG+TGG + Chr2:12344151-12344170 None:intergenic 35.0%
ATCAAGTTTGTGCAAATGCA+AGG + Chr2:12344455-12344474 None:intergenic 35.0%
ATTTGCTCAGGAACTTAGAA+TGG + Chr2:12344662-12344681 None:intergenic 35.0%
! CAGATTCATATGATTTGGGA+AGG + Chr2:12344274-12344293 None:intergenic 35.0%
! GATTCATATGATTTGGGAAG+GGG + Chr2:12344272-12344291 None:intergenic 35.0%
!!! CACTCATGATTTTTTGAGCT+GGG + Chr2:12344077-12344096 None:intergenic 35.0%
!!! TCACTCATGATTTTTTGAGC+TGG + Chr2:12344078-12344097 None:intergenic 35.0%
AACGATATCTTCCTCTTCTG+GGG + Chr2:12344355-12344374 None:intergenic 40.0%
CAACGATATCTTCCTCTTCT+GGG + Chr2:12344356-12344375 None:intergenic 40.0%
GCATTTGCACAAACTTGATG+AGG - Chr2:12344456-12344475 MsG0280007233.01.T01:exon 40.0%
TATGCAACCACTGCAAACAA+TGG - Chr2:12344105-12344124 MsG0280007233.01.T01:three_prime_UTR 40.0%
! TGTTTAGATTGGTCGGAAAG+AGG - Chr2:12344382-12344401 MsG0280007233.01.T01:three_prime_UTR 40.0%
!!! CTCTACCGACTTTTTGTTGA+TGG + Chr2:12344700-12344719 None:intergenic 40.0%
AATGGCCAGTATGTCTCTTC+AGG - Chr2:12344123-12344142 MsG0280007233.01.T01:three_prime_UTR 45.0%
ATACTGGCCATTGTTTGCAG+TGG + Chr2:12344115-12344134 None:intergenic 45.0%
CTCAGATCAGATGAAACGTG+AGG - Chr2:12344314-12344333 MsG0280007233.01.T01:three_prime_UTR 45.0%
GCAACGATATCTTCCTCTTC+TGG + Chr2:12344357-12344376 None:intergenic 45.0%
GTAGATGGCATCTCATTGCT+GGG - Chr2:12344541-12344560 MsG0280007233.01.T01:intron 45.0%
TGGTACCTGAAGAGACATAC+TGG + Chr2:12344131-12344150 None:intergenic 45.0%
TGTAGATGGCATCTCATTGC+TGG - Chr2:12344540-12344559 MsG0280007233.01.T01:intron 45.0%
!! ATATCTTCTGGGGTTCTTCC+AGG + Chr2:12344573-12344592 None:intergenic 45.0%
!! TATCTTCTGGGGTTCTTCCA+GGG + Chr2:12344572-12344591 None:intergenic 45.0%
!! ATATATATATATATATAAGA+TGG + Chr2:12344165-12344184 None:intergenic 5.0%
! GCTGGAATTTTCCCCAGAAG+AGG - Chr2:12344341-12344360 MsG0280007233.01.T01:three_prime_UTR 50.0%
CTCATTGCTGGGAGAATCCC+TGG - Chr2:12344552-12344571 MsG0280007233.01.T01:intron 55.0%
GATGAAACGTGAGGCTGTGC+TGG - Chr2:12344323-12344342 MsG0280007233.01.T01:three_prime_UTR 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 12344041 12345060 12344041 ID=MsG0280007233.01;Name=MsG0280007233.01
Chr2 mRNA 12344041 12345060 12344041 ID=MsG0280007233.01.T01;Parent=MsG0280007233.01;Name=MsG0280007233.01.T01;_AED=0.19;_eAED=0.19;_QI=49|1|1|1|0.5|0.33|3|422|77
Chr2 exon 12344041 12344556 12344041 ID=MsG0280007233.01.T01:exon:2826;Parent=MsG0280007233.01.T01
Chr2 exon 12344698 12344782 12344698 ID=MsG0280007233.01.T01:exon:2825;Parent=MsG0280007233.01.T01
Chr2 exon 12344957 12345060 12344957 ID=MsG0280007233.01.T01:exon:2824;Parent=MsG0280007233.01.T01
Chr2 five_prime_UTR 12345012 12345060 12345012 ID=MsG0280007233.01.T01:five_prime_utr;Parent=MsG0280007233.01.T01
Chr2 CDS 12344957 12345011 12344957 ID=MsG0280007233.01.T01:cds;Parent=MsG0280007233.01.T01
Chr2 CDS 12344698 12344782 12344698 ID=MsG0280007233.01.T01:cds;Parent=MsG0280007233.01.T01
Chr2 CDS 12344463 12344556 12344463 ID=MsG0280007233.01.T01:cds;Parent=MsG0280007233.01.T01
Chr2 three_prime_UTR 12344041 12344462 12344041 ID=MsG0280007233.01.T01:three_prime_utr;Parent=MsG0280007233.01.T01
Gene Sequence

>MsG0280007233.01.T01

ATGAGTGACTCAAAGTATGCAACCACTGCAAACAATGGCCAGTATGTCTCTTCAGATCAGATGAAACGTGAGGCTGTGCTGGAATTTTCCCCAGAAGAGGAAGATATCGTTGCAAAAATGTTTAGATTGGTCGGAAAGAGATGGCATCTCATTGCTGGGAGAATCCCTGGAAGAACCCCAGAAGATATTGAAAAGTATTGGACATCAAAGTTCTCATCATCAACTGCATGCTAA

Protein sequence

>MsG0280007233.01.T01

MSDSKYATTANNGQYVSSDQMKREAVLEFSPEEEDIVAKMFRLVGKRWHLIAGRIPGRTPEDIEKYWTSKFSSSTAC*