AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780038648.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038648.01.T01 MTR_7g059260 96.629 89 3 0 1 89 1 89 6.46e-56 167
MsG0780038648.01.T01 MTR_3g438070 50.794 63 31 0 12 74 17 79 5.79e-16 67.0
MsG0780038648.01.T01 MTR_5g039180 46.970 66 35 0 11 76 16 81 7.23e-16 66.6
MsG0780038648.01.T01 MTR_6g011670 49.206 63 32 0 12 74 15 77 2.20e-14 62.8
MsG0780038648.01.T01 MTR_7g010120 43.836 73 41 0 2 74 6 78 2.77e-14 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038648.01.T01 AT1G26945 47.297 74 39 0 16 89 21 94 1.60e-17 70.9
MsG0780038648.01.T01 AT3G47710 53.521 71 32 1 5 74 9 79 6.29e-17 69.3
MsG0780038648.01.T01 AT3G28857 47.436 78 37 2 1 74 1 78 1.19e-15 66.2
MsG0780038648.01.T01 AT5G39860 50.769 65 31 1 11 74 14 78 6.18e-15 64.3
MsG0780038648.01.T01 AT5G15160 53.226 62 28 1 16 76 20 81 1.10e-13 61.2
MsG0780038648.01.T01 AT1G74500 48.438 64 32 1 12 74 17 80 1.14e-13 61.2

Find 17 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAAACATTGGATCATATT+AGG 0.284722 7:-50455278 MsG0780038648.01.T01:CDS
ATACCCTTGAGTTGTTTCTT+TGG 0.331022 7:+50457050 None:intergenic
CAATGTTTCCTGCAAGATCT+TGG 0.360132 7:+50455290 None:intergenic
TTGAATCTCTTGAGTTTCTC+TGG 0.365643 7:+50457137 None:intergenic
TGAGAGGCTAACACAATTGA+TGG 0.413964 7:-50455226 MsG0780038648.01.T01:CDS
ATCAGCCTCCAAGATCTTGC+AGG 0.440449 7:-50455298 MsG0780038648.01.T01:CDS
CAAGATCTTGCAGGAAACAT+TGG 0.497669 7:-50455289 MsG0780038648.01.T01:CDS
TGTTTCCTGCAAGATCTTGG+AGG 0.509912 7:+50455293 None:intergenic
TAAGAAAAGAGAGTCATGTC+TGG 0.537278 7:-50457160 None:intergenic
TATTAGGAGGCTTCAGAAAG+AGG 0.545892 7:-50455262 MsG0780038648.01.T01:CDS
TTGTTTCTTTGGTTCAGCTG+AGG 0.545919 7:+50457061 None:intergenic
AAACATTGGATCATATTAGG+AGG 0.601405 7:-50455275 MsG0780038648.01.T01:CDS
TAGGAGGCTTCAGAAAGAGG+TGG 0.622036 7:-50455259 MsG0780038648.01.T01:CDS
TGAACCAAAGAAACAACTCA+AGG 0.632348 7:-50457054 MsG0780038648.01.T01:CDS
AGGTGGAAGATCTCAGTGAG+AGG 0.651028 7:-50455242 MsG0780038648.01.T01:CDS
AGATTAATGATCTTGTGTCA+AGG 0.656005 7:-50457099 MsG0780038648.01.T01:CDS
GAACCAAAGAAACAACTCAA+GGG 0.668866 7:-50457053 MsG0780038648.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATAATAATATATATATAT+AGG - Chr7:50455621-50455640 MsG0780038648.01.T01:intron 0.0%
!! TATAATAATATATATATATA+GGG - Chr7:50455622-50455641 MsG0780038648.01.T01:intron 0.0%
!! TATATATATATATATAATAT+GGG + Chr7:50455850-50455831 None:intergenic 0.0%
!! TTATATATATATATATAATA+TGG + Chr7:50455849-50455830 None:intergenic 0.0%
!! AAATCATATTATAGTAACAT+AGG + Chr7:50455528-50455547 None:intergenic 15.0%
!! ATGAAAAATAAACTTTAAGT+TGG + Chr7:50455505-50455524 None:intergenic 15.0%
!! GCTATATATACAAAATAAAT+TGG + Chr7:50455402-50455421 None:intergenic 15.0%
!! TATATGAATCATACAATTTA+TGG + Chr7:50456032-50456051 None:intergenic 15.0%
!! TCTATGTTTAGATTAAAATT+TGG + Chr7:50456915-50456934 None:intergenic 15.0%
!!! TAAGAAAATAATTTTACCTT+TGG - Chr7:50455919-50455938 MsG0780038648.01.T01:intron 15.0%
!! CAGAAAAAGATATATAGTAT+AGG + Chr7:50456817-50456836 None:intergenic 20.0%
!! TTAATTATGACACAATTCAA+AGG + Chr7:50456100-50456119 None:intergenic 20.0%
!!! AGTATATAACTCTAGAAAAA+AGG + Chr7:50456946-50456965 None:intergenic 20.0%
!!! ATGTTTTTGTGTTTTTTTGA+AGG + Chr7:50456583-50456602 None:intergenic 20.0%
!!! CATTTTAATAAATCTATGTG+TGG - Chr7:50456448-50456467 MsG0780038648.01.T01:intron 20.0%
!!! GTATATAACTCTAGAAAAAA+GGG + Chr7:50456945-50456964 None:intergenic 20.0%
!!! TAGATAAAGTGCTATTATAT+AGG + Chr7:50456863-50456882 None:intergenic 20.0%
!!! TTCGAAACATATCTTTTTAT+TGG + Chr7:50456509-50456528 None:intergenic 20.0%
! ATACAAGTTTAGATTGCAAT+TGG - Chr7:50456120-50456139 MsG0780038648.01.T01:intron 25.0%
! TCTCAAAGTAAAATTGGTAA+TGG + Chr7:50455376-50455395 None:intergenic 25.0%
! TGATAAAGACACATTCATAA+AGG - Chr7:50455786-50455805 MsG0780038648.01.T01:intron 25.0%
!! ATATGAATTCACTAGTTTCT+TGG + Chr7:50455305-50455324 None:intergenic 25.0%
!! GTCACACTAACAATTTTAAA+GGG + Chr7:50456795-50456814 None:intergenic 25.0%
!! TGGTTTTCTCAAAGTAAAAT+TGG + Chr7:50455382-50455401 None:intergenic 25.0%
!! TGTCATTTAATACAAACCAA+AGG + Chr7:50455938-50455957 None:intergenic 25.0%
!! TTTTCTGTCAAAGATATAGT+AGG - Chr7:50456830-50456849 MsG0780038648.01.T01:intron 25.0%
!!! TTATGGTTTTGTAACATTCA+TGG + Chr7:50456015-50456034 None:intergenic 25.0%
!!! TTGTTTCTACAAACTGATTT+TGG - Chr7:50456192-50456211 MsG0780038648.01.T01:intron 25.0%
!!! TTTGTGTTTTTTTGAAGGAA+AGG + Chr7:50456578-50456597 None:intergenic 25.0%
AAACATTGGATCATATTAGG+AGG - Chr7:50457037-50457056 MsG0780038648.01.T01:intron 30.0%
AAAGTGAAAATCACACCTTA+AGG + Chr7:50455693-50455712 None:intergenic 30.0%
AGATTAATGATCTTGTGTCA+AGG - Chr7:50455213-50455232 MsG0780038648.01.T01:CDS 30.0%
AGGAAACATTGGATCATATT+AGG - Chr7:50457034-50457053 MsG0780038648.01.T01:intron 30.0%
ATAGCTAGATAGACATATGA+TGG - Chr7:50455417-50455436 MsG0780038648.01.T01:intron 30.0%
GTAAGTAAAAGACGACAATT+TGG - Chr7:50455963-50455982 MsG0780038648.01.T01:intron 30.0%
! GGTCACACTAACAATTTTAA+AGG + Chr7:50456796-50456815 None:intergenic 30.0%
! TTTTATCAAGTCACACCTTA+AGG - Chr7:50455675-50455694 MsG0780038648.01.T01:intron 30.0%
!! GAAAGACATCAACTACTTTT+AGG + Chr7:50455744-50455763 None:intergenic 30.0%
AGTCGTATAAGCCAAACAAT+TGG + Chr7:50456258-50456277 None:intergenic 35.0%
AGTTACTCTATGAGCATTTG+CGG + Chr7:50455766-50455785 None:intergenic 35.0%
CTCAGTACCCTTTATACTTT+CGG + Chr7:50456610-50456629 None:intergenic 35.0%
GAACCAAAGAAACAACTCAA+GGG - Chr7:50455259-50455278 MsG0780038648.01.T01:CDS 35.0%
GGCAGCATTGTGAAAAAAAT+TGG + Chr7:50456237-50456256 None:intergenic 35.0%
TCAGTACCCTTTATACTTTC+GGG + Chr7:50456609-50456628 None:intergenic 35.0%
TGAACCAAAGAAACAACTCA+AGG - Chr7:50455258-50455277 MsG0780038648.01.T01:CDS 35.0%
TGATAAAAGACACCACCAAA+GGG + Chr7:50455663-50455682 None:intergenic 35.0%
TTGAATCTCTTGAGTTTCTC+TGG + Chr7:50455178-50455197 None:intergenic 35.0%
TTGATAAAAGACACCACCAA+AGG + Chr7:50455664-50455683 None:intergenic 35.0%
! ACATAGACCCGAAAGTATAA+AGG - Chr7:50456599-50456618 MsG0780038648.01.T01:intron 35.0%
! CATAGACCCGAAAGTATAAA+GGG - Chr7:50456600-50456619 MsG0780038648.01.T01:intron 35.0%
!! ATACCCTTGAGTTGTTTCTT+TGG + Chr7:50455265-50455284 None:intergenic 35.0%
!! GACATCAACTACTTTTAGGA+AGG + Chr7:50455740-50455759 None:intergenic 35.0%
CAAGATCTTGCAGGAAACAT+TGG - Chr7:50457023-50457042 MsG0780038648.01.T01:intron 40.0%
CAATGTTTCCTGCAAGATCT+TGG + Chr7:50457025-50457044 None:intergenic 40.0%
TATTAGGAGGCTTCAGAAAG+AGG - Chr7:50457050-50457069 MsG0780038648.01.T01:intron 40.0%
TCACAATGCTGCCAATTGTT+TGG - Chr7:50456244-50456263 MsG0780038648.01.T01:intron 40.0%
TGAGAGGCTAACACAATTGA+TGG - Chr7:50457086-50457105 MsG0780038648.01.T01:CDS 40.0%
TTATGTTACAAGCCACCCTT+TGG - Chr7:50455645-50455664 MsG0780038648.01.T01:intron 40.0%
! AAAGAAGACCTCTCTAGAGA+CGG - Chr7:50456357-50456376 MsG0780038648.01.T01:intron 40.0%
! TAATTCTTCCGTCTCTAGAG+AGG + Chr7:50456368-50456387 None:intergenic 40.0%
! TTGGACCTGCACTAAAGTTT+TGG - Chr7:50455982-50456001 MsG0780038648.01.T01:intron 40.0%
! TTGTTTCTTTGGTTCAGCTG+AGG + Chr7:50455254-50455273 None:intergenic 40.0%
CCAAGCCAAAACTTTAGTGC+AGG + Chr7:50455990-50456009 None:intergenic 45.0%
TAAAAGACACCACCAAAGGG+TGG + Chr7:50455660-50455679 None:intergenic 45.0%
TGTTTCCTGCAAGATCTTGG+AGG + Chr7:50457022-50457041 None:intergenic 45.0%
! GTCTCTAGAGAGGTCTTCTT+TGG + Chr7:50456358-50456377 None:intergenic 45.0%
!!! CCTGCACTAAAGTTTTGGCT+TGG - Chr7:50455987-50456006 MsG0780038648.01.T01:intron 45.0%
!!! TATTTTTAAAAAAAATACTT+AGG - Chr7:50455470-50455489 MsG0780038648.01.T01:intron 5.0%
AGGTGGAAGATCTCAGTGAG+AGG - Chr7:50457070-50457089 MsG0780038648.01.T01:CDS 50.0%
ATCAGCCTCCAAGATCTTGC+AGG - Chr7:50457014-50457033 MsG0780038648.01.T01:intron 50.0%
TAGGAGGCTTCAGAAAGAGG+TGG - Chr7:50457053-50457072 MsG0780038648.01.T01:intron 50.0%
TGTTACAAGCCACCCTTTGG+TGG - Chr7:50455648-50455667 MsG0780038648.01.T01:intron 50.0%
Chromosome Type Strat End Strand Name
Chr7 gene 50455167 50457167 50455167 ID=MsG0780038648.01;Name=MsG0780038648.01
Chr7 mRNA 50455167 50457167 50455167 ID=MsG0780038648.01.T01;Parent=MsG0780038648.01;Name=MsG0780038648.01.T01;_AED=0.49;_eAED=0.50;_QI=0|0|0|1|0|0|2|0|89
Chr7 exon 50457054 50457167 50457054 ID=MsG0780038648.01.T01:exon:6915;Parent=MsG0780038648.01.T01
Chr7 exon 50455167 50455322 50455167 ID=MsG0780038648.01.T01:exon:6914;Parent=MsG0780038648.01.T01
Chr7 CDS 50457054 50457167 50457054 ID=MsG0780038648.01.T01:cds;Parent=MsG0780038648.01.T01
Chr7 CDS 50455167 50455322 50455167 ID=MsG0780038648.01.T01:cds;Parent=MsG0780038648.01.T01
Gene Sequence

>MsG0780038648.01.T01

ATGTCTGGCCAGAGAAACTCAAGAGATTCAAAGTTGAAAGAGAAACAGATTAATGATCTTGTGTCAAGGTTACAACTACTATTGCCTCAGCTGAACCAAAGAAACAACTCAAGGCAATCAGCCTCCAAGATCTTGCAGGAAACATTGGATCATATTAGGAGGCTTCAGAAAGAGGTGGAAGATCTCAGTGAGAGGCTAACACAATTGATGGATTCTGCAGATATCAATGATAATGACAGAAGAACTTTAGAGAACTTTTTTCAATATTAA
Protein sequence

>MsG0780038648.01.T01

MSGQRNSRDSKLKEKQINDLVSRLQLLLPQLNQRNNSRQSASKILQETLDHIRRLQKEVEDLSERLTQLMDSADINDNDRRTLENFFQY*