AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780040338.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040338.01.T01 MTR_7g088680 87.500 88 4 1 1 81 1 88 1.71e-44 144
MsG0780040338.01.T01 MTR_7g088680 100.000 55 0 0 78 132 149 203 1.27e-31 111
MsG0780040338.01.T01 MTR_3g092970 65.000 60 19 1 75 132 168 227 7.49e-16 71.2
MsG0780040338.01.T01 MTR_3g093720 78.571 42 9 0 90 131 215 256 1.66e-14 68.6
MsG0780040338.01.T01 MTR_1g006975 93.939 33 2 0 44 76 1898 1930 1.30e-12 63.9
MsG0780040338.01.T01 MTR_3g093750 64.444 45 16 0 88 132 483 527 1.37e-12 63.5
MsG0780040338.01.T01 MTR_3g092980 77.778 36 8 0 97 132 183 218 2.33e-11 58.9
MsG0780040338.01.T01 MTR_3g092980 77.778 36 8 0 97 132 185 220 2.56e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040338.01.T01 AT5G13850 81.579 38 7 0 95 132 167 204 1.07e-13 65.1
MsG0780040338.01.T01 AT5G13850 60.256 78 28 2 1 76 1 77 1.17e-13 65.1
MsG0780040338.01.T01 AT3G12390 58.442 77 26 1 6 76 5 81 2.70e-13 64.3
MsG0780040338.01.T01 AT3G12390 81.579 38 7 0 95 132 166 203 4.28e-13 63.5
MsG0780040338.01.T01 AT4G10480 74.419 43 11 0 90 132 169 211 4.45e-13 63.5
MsG0780040338.01.T01 AT4G10480 74.419 43 11 0 90 132 170 212 4.65e-13 63.5
MsG0780040338.01.T01 AT3G49470 71.429 42 12 0 91 132 176 217 1.87e-12 62.0
MsG0780040338.01.T01 AT1G33040 66.667 42 14 0 91 132 168 209 4.86e-11 58.2

Find 30 sgRNAs with CRISPR-Local

Find 100 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAGAAGCTCTTCTTGGGTT+TGG 0.250426 7:+76115825 None:intergenic
TCGTCTACATCCTCATCTTC+TGG 0.324398 7:+76114082 None:intergenic
GAGCAGCAAGAAGCTCTTCT+TGG 0.330866 7:+76115819 None:intergenic
AAGAAGCTCTTCTTGGGTTT+GGG 0.331123 7:+76115826 None:intergenic
GCTTTAACAGCTCTTGATCT+TGG 0.356165 7:+76114007 None:intergenic
AGACATTGTTGCTGCCATTA+TGG 0.359211 7:-76113966 MsG0780040338.01.T01:CDS
CTTGGAATGAAAGCTGTTAC+TGG 0.368859 7:-76114414 MsG0780040338.01.T01:CDS
TTCTTGGGTTTGGGCAGTCA+TGG 0.386669 7:+76115835 None:intergenic
CGCAAGGCAATGCTTAAACT+TGG 0.418058 7:-76114432 MsG0780040338.01.T01:CDS
TTAATTTGTTAGCTCCATAA+TGG 0.425574 7:+76113952 None:intergenic
CACCACCAACTCAATATCCT+TGG 0.437037 7:+76114045 None:intergenic
AGCAGCAAGAAGCTCTTCTT+GGG 0.446621 7:+76115820 None:intergenic
TCCCAAGGATATTGAGTTGG+TGG 0.515624 7:-76114047 MsG0780040338.01.T01:CDS
ACCACCAACTCAATATCCTT+GGG 0.531886 7:+76114046 None:intergenic
GATGAGGATGTAGACGAGAC+TGG 0.538671 7:-76114076 MsG0780040338.01.T01:CDS
GGATTTGAAGGTGATGCATC+TGG 0.544074 7:-76114489 MsG0780040338.01.T01:CDS
GGCAGCAACAATGTCTCCAT+TGG 0.548006 7:+76113973 None:intergenic
GAGTTGGTGGTGACTCAAGC+TGG 0.556994 7:-76114034 MsG0780040338.01.T01:CDS
GGTGCGAAACCAGAATCCTC+TGG 0.584251 7:-76114112 MsG0780040338.01.T01:intron
TGACGAAGACGACGATGATG+AGG 0.584480 7:-76115168 MsG0780040338.01.T01:CDS
AAAGCTCTCAAAGCTGCCAA+TGG 0.592851 7:-76113989 MsG0780040338.01.T01:CDS
CGAGACTGGTGTAGATCCCA+AGG 0.607645 7:-76114062 MsG0780040338.01.T01:CDS
TGGTATTGCTCCAGAAGATG+AGG 0.607813 7:-76114092 MsG0780040338.01.T01:CDS
AGATCCCAAGGATATTGAGT+TGG 0.629225 7:-76114050 MsG0780040338.01.T01:CDS
TTGAAGGTGATGCATCTGGT+AGG 0.643359 7:-76114485 MsG0780040338.01.T01:CDS
AAGTGAAAAGAAGAGTCGCA+AGG 0.645070 7:-76114448 MsG0780040338.01.T01:CDS
ATCTTCTGGAGCAATACCAG+AGG 0.670950 7:+76114096 None:intergenic
TGACGATGATGAGGACGATG+AGG 0.719627 7:-76115192 MsG0780040338.01.T01:CDS
AGTTGAGGATGACGATGATG+AGG 0.722265 7:-76115201 MsG0780040338.01.T01:intron
GAGGACGATGACAATGCTGA+AGG 0.723088 7:-76115149 MsG0780040338.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAAAAATAATAATTGG+AGG + Chr7:76114107-76114126 None:intergenic 10.0%
!! GTTACAATGAAAAAAAAAAA+TGG - Chr7:76114376-76114395 MsG0780040338.01.T01:intron 15.0%
!!! TGATTTTATGATAAATTGAA+TGG - Chr7:76114337-76114356 MsG0780040338.01.T01:intron 15.0%
!!! TTTTTTTTTAGTTCAGTTTT+TGG - Chr7:76114118-76114137 MsG0780040338.01.T01:intron 15.0%
!! AAAAAAATAATAATTGGAGG+AGG + Chr7:76114104-76114123 None:intergenic 20.0%
!! CTTTATGTATGAAATGTTTA+GGG - Chr7:76114199-76114218 MsG0780040338.01.T01:intron 20.0%
!! TCTTTATGTATGAAATGTTT+AGG - Chr7:76114198-76114217 MsG0780040338.01.T01:intron 20.0%
!! TGTTCTACAAAATTTCAAAT+GGG - Chr7:76114883-76114902 MsG0780040338.01.T01:intron 20.0%
!! TTCATTTAAAAGTTCATCAT+TGG - Chr7:76114971-76114990 MsG0780040338.01.T01:intron 20.0%
!! TTCTTGTAGTAAATTGTAAT+TGG - Chr7:76114465-76114484 MsG0780040338.01.T01:CDS 20.0%
!! TTGTTCTACAAAATTTCAAA+TGG - Chr7:76114882-76114901 MsG0780040338.01.T01:intron 20.0%
!! TTTATCATAAAATCATGACA+TGG + Chr7:76114332-76114351 None:intergenic 20.0%
!!! AAAAAGAGAAGTTGATTTTT+GGG + Chr7:76113993-76114012 None:intergenic 20.0%
!!! ATTTACATGTTTTTGAAATC+AGG - Chr7:76114288-76114307 MsG0780040338.01.T01:intron 20.0%
!!! TTTACATGTTTTTGAAATCA+GGG - Chr7:76114289-76114308 MsG0780040338.01.T01:intron 20.0%
!!! TTTTTCTGTTGTATCAATAT+TGG - Chr7:76115531-76115550 MsG0780040338.01.T01:intron 20.0%
!!! TTTTTTTCTTTTTCTATTGC+AGG - Chr7:76115346-76115365 MsG0780040338.01.T01:intron 20.0%
! ATAGCATTCATTGAGTAATT+TGG - Chr7:76114800-76114819 MsG0780040338.01.T01:intron 25.0%
! CAAAAACTAAACCAATTACT+TGG + Chr7:76114162-76114181 None:intergenic 25.0%
! CAACAAAGTGAATTAATGTA+CGG - Chr7:76114835-76114854 MsG0780040338.01.T01:intron 25.0%
! TACTGTGTATGAAATGATTA+GGG - Chr7:76114231-76114250 MsG0780040338.01.T01:intron 25.0%
! TTACAGATGAATTGTTCTTA+TGG - Chr7:76114519-76114538 MsG0780040338.01.T01:intron 25.0%
! TTACTGTGTATGAAATGATT+AGG - Chr7:76114230-76114249 MsG0780040338.01.T01:intron 25.0%
! TTGTAAACTTATAAGTGTAG+TGG - Chr7:76114556-76114575 MsG0780040338.01.T01:intron 25.0%
! TTGTATTTAGTGTATGTTGA+GGG - Chr7:76115111-76115130 MsG0780040338.01.T01:intron 25.0%
! TTTGTATTTAGTGTATGTTG+AGG - Chr7:76115110-76115129 MsG0780040338.01.T01:intron 25.0%
!! TAGTTTGATTTCCAAGTAAT+TGG - Chr7:76114148-76114167 MsG0780040338.01.T01:intron 25.0%
!!! AAAAGAGAAGTTGATTTTTG+GGG + Chr7:76113992-76114011 None:intergenic 25.0%
!!! GAAAAAGAGAAGTTGATTTT+TGG + Chr7:76113994-76114013 None:intergenic 25.0%
!!! GGTTTAGTTTTTGATGTTTT+TGG - Chr7:76114169-76114188 MsG0780040338.01.T01:intron 25.0%
!!! TTAATTTGTTAGCTCCATAA+TGG + Chr7:76115907-76115926 None:intergenic 25.0%
!!! TTGTTTTTTTGCATGAACTA+AGG - Chr7:76115300-76115319 MsG0780040338.01.T01:intron 25.0%
!!! TTTTTTTTGTGTGTTGTGTT+TGG - Chr7:76113953-76113972 MsG0780040338.01.T01:CDS 25.0%
ACATGTATTTGGTTGTATTC+TGG + Chr7:76115236-76115255 None:intergenic 30.0%
ACTGTCATAAATATTGTGTG+TGG - Chr7:76115185-76115204 MsG0780040338.01.T01:CDS 30.0%
ATGTATCTGTGTATCTATAG+AGG - Chr7:76114429-76114448 MsG0780040338.01.T01:CDS 30.0%
CATTCATTGAGTAATTTGGT+AGG - Chr7:76114804-76114823 MsG0780040338.01.T01:intron 30.0%
TCTGACACCTACATTATATT+CGG - Chr7:76115640-76115659 MsG0780040338.01.T01:intron 30.0%
TTGAGGGTTTAACAAAATCA+CGG - Chr7:76115127-76115146 MsG0780040338.01.T01:intron 30.0%
! TTTTCTATTGCAGGATTTGA+AGG - Chr7:76115355-76115374 MsG0780040338.01.T01:intron 30.0%
!!! GTTTTTGAAATCAGGGTTTT+TGG - Chr7:76114296-76114315 MsG0780040338.01.T01:intron 30.0%
ATAATGTAGGTGTCAGAAGT+TGG + Chr7:76115637-76115656 None:intergenic 35.0%
ATGAACTAAGGCTACAATGA+TGG - Chr7:76115312-76115331 MsG0780040338.01.T01:intron 35.0%
CCAAATACATGTACAATGTC+AGG - Chr7:76115244-76115263 MsG0780040338.01.T01:intron 35.0%
CCTGACATTGTACATGTATT+TGG + Chr7:76115247-76115266 None:intergenic 35.0%
CTGACACCTACATTATATTC+GGG - Chr7:76115641-76115660 MsG0780040338.01.T01:intron 35.0%
TATTCTGGTACAGACTAATC+TGG + Chr7:76115221-76115240 None:intergenic 35.0%
TGACACCTACATTATATTCG+GGG - Chr7:76115642-76115661 MsG0780040338.01.T01:intron 35.0%
TGAGGGTTTAACAAAATCAC+GGG - Chr7:76115128-76115147 MsG0780040338.01.T01:intron 35.0%
! AACTTGCCTCATTTTGCATT+TGG - Chr7:76114765-76114784 MsG0780040338.01.T01:intron 35.0%
AAGAAGCTCTTCTTGGGTTT+GGG + Chr7:76114033-76114052 None:intergenic 40.0%
AAGTGAAAAGAAGAGTCGCA+AGG - Chr7:76115408-76115427 MsG0780040338.01.T01:intron 40.0%
ACCACCAACTCAATATCCTT+GGG + Chr7:76115813-76115832 None:intergenic 40.0%
ACGAACAAGATCTGATGAAC+AGG + Chr7:76115586-76115605 None:intergenic 40.0%
AGACATTGTTGCTGCCATTA+TGG - Chr7:76115890-76115909 MsG0780040338.01.T01:five_prime_UTR 40.0%
AGATCCCAAGGATATTGAGT+TGG - Chr7:76115806-76115825 MsG0780040338.01.T01:CDS 40.0%
AGCTTCCCCGAATATAATGT+AGG + Chr7:76115650-76115669 None:intergenic 40.0%
CCTTCACCAAATGCAAAATG+AGG + Chr7:76114774-76114793 None:intergenic 40.0%
CTTGGAATGAAAGCTGTTAC+TGG - Chr7:76115442-76115461 MsG0780040338.01.T01:intron 40.0%
GCTTTAACAGCTCTTGATCT+TGG + Chr7:76115852-76115871 None:intergenic 40.0%
GTTGGACTCTTGAAAACATC+TGG + Chr7:76115619-76115638 None:intergenic 40.0%
TTCAAATGGGTGTTCATCTG+AGG - Chr7:76114896-76114915 MsG0780040338.01.T01:intron 40.0%
TTGAAAGTCATGCAGAACAG+TGG + Chr7:76115272-76115291 None:intergenic 40.0%
! CTTTTCACTTCTGGTCTGTT+TGG + Chr7:76115398-76115417 None:intergenic 40.0%
!! AGAAGTTGATTTTTGGGGAG+CGG + Chr7:76113987-76114006 None:intergenic 40.0%
!! CCTCATTTTGCATTTGGTGA+AGG - Chr7:76114771-76114790 MsG0780040338.01.T01:intron 40.0%
AAACCCACTGCGACAAATTG+TGG - Chr7:76115161-76115180 MsG0780040338.01.T01:CDS 45.0%
AAAGCTCTCAAAGCTGCCAA+TGG - Chr7:76115867-76115886 MsG0780040338.01.T01:five_prime_UTR 45.0%
AGCAGCAAGAAGCTCTTCTT+GGG + Chr7:76114039-76114058 None:intergenic 45.0%
AGCATGATGAGCTGTAGTTG+AGG - Chr7:76114640-76114659 MsG0780040338.01.T01:intron 45.0%
AGTACCACAATTTGTCGCAG+TGG + Chr7:76115168-76115187 None:intergenic 45.0%
AGTTGAGGATGACGATGATG+AGG - Chr7:76114655-76114674 MsG0780040338.01.T01:intron 45.0%
CAAGAAGCTCTTCTTGGGTT+TGG + Chr7:76114034-76114053 None:intergenic 45.0%
CACCACCAACTCAATATCCT+TGG + Chr7:76115814-76115833 None:intergenic 45.0%
CGCAAGGCAATGCTTAAACT+TGG - Chr7:76115424-76115443 MsG0780040338.01.T01:intron 45.0%
GGATTTGAAGGTGATGCATC+TGG - Chr7:76115367-76115386 MsG0780040338.01.T01:intron 45.0%
GGCTCCTAATTTGACCAATG+CGG - Chr7:76115723-76115742 MsG0780040338.01.T01:intron 45.0%
GTACCACAATTTGTCGCAGT+GGG + Chr7:76115167-76115186 None:intergenic 45.0%
TCGTCTACATCCTCATCTTC+TGG + Chr7:76115777-76115796 None:intergenic 45.0%
TGGTATTGCTCCAGAAGATG+AGG - Chr7:76115764-76115783 MsG0780040338.01.T01:intron 45.0%
TTGAAGGTGATGCATCTGGT+AGG - Chr7:76115371-76115390 MsG0780040338.01.T01:intron 45.0%
! GCGACTCTTCTTTTCACTTC+TGG + Chr7:76115407-76115426 None:intergenic 45.0%
!! ATCTTCTGGAGCAATACCAG+AGG + Chr7:76115763-76115782 None:intergenic 45.0%
!! TCCCAAGGATATTGAGTTGG+TGG - Chr7:76115809-76115828 MsG0780040338.01.T01:CDS 45.0%
!! ACTAAAAAAAAAATAATAAT+TGG + Chr7:76114110-76114129 None:intergenic 5.0%
GAGCAGCAAGAAGCTCTTCT+TGG + Chr7:76114040-76114059 None:intergenic 50.0%
GAGCTCACAGCTACAAACTC+AGG - Chr7:76115684-76115703 MsG0780040338.01.T01:intron 50.0%
GAGGACGATGACAATGCTGA+AGG - Chr7:76114707-76114726 MsG0780040338.01.T01:intron 50.0%
GATGAGGATGTAGACGAGAC+TGG - Chr7:76115780-76115799 MsG0780040338.01.T01:intron 50.0%
GGAGCAATACCAGAGGATTC+TGG + Chr7:76115756-76115775 None:intergenic 50.0%
GGCAGCAACAATGTCTCCAT+TGG + Chr7:76115886-76115905 None:intergenic 50.0%
TGACGAAGACGACGATGATG+AGG - Chr7:76114688-76114707 MsG0780040338.01.T01:intron 50.0%
TGACGATGATGAGGACGATG+AGG - Chr7:76114664-76114683 MsG0780040338.01.T01:intron 50.0%
TTCTTGGGTTTGGGCAGTCA+TGG + Chr7:76114024-76114043 None:intergenic 50.0%
! CGCACCGCATTGGTCAAATT+AGG + Chr7:76115730-76115749 None:intergenic 50.0%
!! ATTCTGGTTTCGCACCGCAT+TGG + Chr7:76115740-76115759 None:intergenic 50.0%
CGAGACTGGTGTAGATCCCA+AGG - Chr7:76115794-76115813 MsG0780040338.01.T01:intron 55.0%
GGTGCGAAACCAGAATCCTC+TGG - Chr7:76115744-76115763 MsG0780040338.01.T01:intron 55.0%
TCAGGCTGCAGAGCAGTTCA+AGG - Chr7:76115702-76115721 MsG0780040338.01.T01:intron 55.0%
!! GAGTTGGTGGTGACTCAAGC+TGG - Chr7:76115822-76115841 MsG0780040338.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 76113952 76115926 76113952 ID=MsG0780040338.01;Name=MsG0780040338.01
Chr7 mRNA 76113952 76115926 76113952 ID=MsG0780040338.01.T01;Parent=MsG0780040338.01;Name=MsG0780040338.01.T01;_AED=0.40;_eAED=0.40;_QI=71|0.33|0.25|1|1|1|4|0|132
Chr7 exon 76113952 76114121 76113952 ID=MsG0780040338.01.T01:exon:15036;Parent=MsG0780040338.01.T01
Chr7 exon 76114409 76114510 76114409 ID=MsG0780040338.01.T01:exon:15035;Parent=MsG0780040338.01.T01
Chr7 exon 76115150 76115216 76115150 ID=MsG0780040338.01.T01:exon:15034;Parent=MsG0780040338.01.T01
Chr7 exon 76115796 76115926 76115796 ID=MsG0780040338.01.T01:exon:15033;Parent=MsG0780040338.01.T01
Chr7 five_prime_UTR 76115856 76115926 76115856 ID=MsG0780040338.01.T01:five_prime_utr;Parent=MsG0780040338.01.T01
Chr7 CDS 76115796 76115855 76115796 ID=MsG0780040338.01.T01:cds;Parent=MsG0780040338.01.T01
Chr7 CDS 76115150 76115216 76115150 ID=MsG0780040338.01.T01:cds;Parent=MsG0780040338.01.T01
Chr7 CDS 76114409 76114510 76114409 ID=MsG0780040338.01.T01:cds;Parent=MsG0780040338.01.T01
Chr7 CDS 76113952 76114121 76113952 ID=MsG0780040338.01.T01:cds;Parent=MsG0780040338.01.T01
Gene Sequence

>MsG0780040338.01.T01

ATGACTGCCCAAACCCAAGAAGAGCTTCTTGCTGCTCATCTCGAACAACAGAAGATTCATGATGACGATGATGAGGACGATGAGGATGACGAAGACGACGATGATGAGGACGATGACAATGCTGAAGGATTTGAAGGTGATGCATCTGGTAGGTCCAAACAGACCAGAAGTGAAAAGAAGAGTCGCAAGGCAATGCTTAAACTTGGAATGAAAGCTGTTACTGGCGTCAAATCCTCTGGTATTGCTCCAGAAGATGAGGATGTAGACGAGACTGGTGTAGATCCCAAGGATATTGAGTTGGTGGTGACTCAAGCTGGTGTGCCAAGATCAAGAGCTGTTAAAGCTCTCAAAGCTGCCAATGGAGACATTGTTGCTGCCATTATGGAGCTAACAAATTAA

Protein sequence

>MsG0780040338.01.T01

MTAQTQEELLAAHLEQQKIHDDDDEDDEDDEDDDDEDDDNAEGFEGDASGRSKQTRSEKKSRKAMLKLGMKAVTGVKSSGIAPEDEDVDETGVDPKDIELVVTQAGVPRSRAVKALKAANGDIVAAIMELTN*