AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene60160


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60160.t1 MTR_1g007860 77.551 98 6 1 1 98 144 225 2.11e-44 150
MS.gene60160.t1 MTR_8g093450 92.308 39 3 0 99 137 57 95 2.74e-19 77.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60160.t1 AT5G53050 61.224 98 22 1 1 98 132 213 5.06e-35 123
MS.gene60160.t1 AT5G53050 61.224 98 22 1 1 98 132 213 5.17e-35 123
MS.gene60160.t1 AT5G53050 61.224 98 22 1 1 98 132 213 1.67e-34 122
MS.gene60160.t1 AT5G53050 61.224 98 22 1 1 98 132 213 1.94e-34 123
MS.gene60160.t1 AT5G53050 61.224 98 22 1 1 98 132 213 1.94e-34 123
MS.gene60160.t1 AT5G53050 61.224 98 22 1 1 98 132 213 4.45e-34 123

Find 32 sgRNAs with CRISPR-Local

Find 102 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAACTTCAGCTCTTTGTTC+AGG 0.335642 8.4:+2699524 None:intergenic
ATGCTTAATACAAATTTAAT+CGG 0.354092 8.4:-2699742 MS.gene60160:CDS
AAGAAAAGATGAAAAGTGTA+TGG 0.395163 8.4:-2698944 MS.gene60160:CDS
GACTCTTTGCCTTCAAGAAT+CGG 0.405184 8.4:+2699546 None:intergenic
GTGAAAGATAAGAAAGATCT+TGG 0.408538 8.4:-2699029 MS.gene60160:CDS
TTGCTCAATGCAACAGGTGG+TGG 0.415046 8.4:-2700362 MS.gene60160:CDS
GAGGAGAACCATATTGTATC+AGG 0.416982 8.4:-2699120 MS.gene60160:intron
ATTAAATTTGTATTAAGCAT+TGG 0.420198 8.4:+2699745 None:intergenic
GCCATGGAGAGAACTCTATC+AGG 0.426456 8.4:+2700386 None:intergenic
GTGCTGTACCTGATACAATA+TGG 0.431715 8.4:+2699112 None:intergenic
TGTTGCTTACCGATTCTTGA+AGG 0.432235 8.4:-2699555 MS.gene60160:CDS
ATGGCCTTGCTCAATGCAAC+AGG 0.435885 8.4:-2700368 MS.gene60160:CDS
AGCTTGTAAATTTGCAGCAA+TGG 0.448455 8.4:-2700411 MS.gene60160:CDS
CGTGCTTTACTTGTGAATAG+TGG 0.457639 8.4:+2699492 None:intergenic
GTTTAACAAAGAGGAGGGAT+TGG 0.467919 8.4:-2698976 MS.gene60160:CDS
CAATATGGTTCTCCTCTTCA+CGG 0.490112 8.4:+2699127 None:intergenic
GAATATCTTGAGGAATATGT+TGG 0.532265 8.4:-2699152 MS.gene60160:CDS
TGTTGCATTGAGCAAGGCCA+TGG 0.536559 8.4:+2700370 None:intergenic
ACAAAGAGCTGAAGTTGACT+TGG 0.536899 8.4:-2699519 MS.gene60160:CDS
AGAAAAGATGAAAAGTGTAT+GGG 0.540681 8.4:-2698943 MS.gene60160:CDS
TCCTGATAGAGTTCTCTCCA+TGG 0.577551 8.4:-2700387 MS.gene60160:CDS
TATCAGTTTAACAAAGAGGA+GGG 0.577814 8.4:-2698981 MS.gene60160:CDS
GTATTATCAGTTTAACAAAG+AGG 0.579681 8.4:-2698985 MS.gene60160:CDS
GTGCTTTACTTGTGAATAGT+GGG 0.598972 8.4:+2699493 None:intergenic
TCTTGGAATCATGAAAGTCA+AGG 0.609272 8.4:-2699012 MS.gene60160:CDS
TTATCAGTTTAACAAAGAGG+AGG 0.617782 8.4:-2698982 MS.gene60160:CDS
ACCACCTGTTGCATTGAGCA+AGG 0.621860 8.4:+2700364 None:intergenic
TCACGTGCAGGAATATCTTG+AGG 0.635000 8.4:-2699162 MS.gene60160:intron
AAGATGAAAAGTGTATGGGA+AGG 0.640402 8.4:-2698939 MS.gene60160:CDS
AATATGTTGGAACCGTGAAG+AGG 0.650450 8.4:-2699139 MS.gene60160:CDS
GCCTTGCTCAATGCAACAGG+TGG 0.684486 8.4:-2700365 MS.gene60160:CDS
GTAAGCAACAGAAATTTCGT+CGG 0.696738 8.4:+2699568 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGCTTAATACAAATTTAAT+CGG - chr8.4:2699606-2699625 MS.gene60160:intron 15.0%
!! ATTAAATTTGTATTAAGCAT+TGG + chr8.4:2699606-2699625 None:intergenic 15.0%
!!! AAATGTTTCGATTTTTTTTA+CGG - chr8.4:2699062-2699081 MS.gene60160:intron 15.0%
!!! TTTTAAAATCACTACTTTAA+TGG + chr8.4:2699962-2699981 None:intergenic 15.0%
!! TGCAATTAGATATATAATGT+TGG - chr8.4:2699637-2699656 MS.gene60160:intron 20.0%
!! TTAAAAAATTGAATCACTCA+AGG - chr8.4:2699976-2699995 MS.gene60160:intron 20.0%
!!! AATTTCTTACTACTGATTTT+AGG - chr8.4:2699405-2699424 MS.gene60160:intron 20.0%
!!! TATTAACATTAAGTTGAAGA+AGG - chr8.4:2700048-2700067 MS.gene60160:intron 20.0%
! AATGGTAAGTTTAATATAGC+TGG + chr8.4:2699944-2699963 None:intergenic 25.0%
! ACATTTCACAGATTTATACA+AGG + chr8.4:2699048-2699067 None:intergenic 25.0%
! ATGGTAAGTTTAATATAGCT+GGG + chr8.4:2699943-2699962 None:intergenic 25.0%
! CATTTCACAGATTTATACAA+GGG + chr8.4:2699047-2699066 None:intergenic 25.0%
! GTATATGATATAAAAGAGTC+TGG - chr8.4:2700006-2700025 MS.gene60160:intron 25.0%
! GTATTATCAGTTTAACAAAG+AGG - chr8.4:2700363-2700382 MS.gene60160:CDS 25.0%
! TAATATAGAAGAGAAAGTCA+CGG - chr8.4:2699272-2699291 MS.gene60160:intron 25.0%
! TTCAACTAAATTTCTCCTAA+AGG + chr8.4:2699476-2699495 None:intergenic 25.0%
! TTTAATTACAAACGTAGTTC+AGG - chr8.4:2699354-2699373 MS.gene60160:intron 25.0%
!! AAATTTTATATATCACGTGC+AGG - chr8.4:2700174-2700193 MS.gene60160:intron 25.0%
!! AAGAAAAGATGAAAAGTGTA+TGG - chr8.4:2700404-2700423 MS.gene60160:CDS 25.0%
!! AGAAAAGATGAAAAGTGTAT+GGG - chr8.4:2700405-2700424 MS.gene60160:CDS 25.0%
!!! TATCTTGTTTTTTCAGTCTT+GGG - chr8.4:2700072-2700091 MS.gene60160:intron 25.0%
AACTAACTACATTGGGAATT+GGG - chr8.4:2699132-2699151 MS.gene60160:CDS 30.0%
ATCTTTCTTATCTTTCACCT+TGG + chr8.4:2700317-2700336 None:intergenic 30.0%
CTAAATTTCTCCTAAAGGTT+TGG + chr8.4:2699471-2699490 None:intergenic 30.0%
CTGAAAAGAAGCTTCAATTT+AGG - chr8.4:2700262-2700281 MS.gene60160:intron 30.0%
GAAGTTGCATACATAACAAA+TGG - chr8.4:2699382-2699401 MS.gene60160:intron 30.0%
GAATATCTTGAGGAATATGT+TGG - chr8.4:2700196-2700215 MS.gene60160:intron 30.0%
GCTAGTTAACTAACTACATT+GGG - chr8.4:2699125-2699144 MS.gene60160:CDS 30.0%
GGTTTCCTATGAACTATTAT+CGG - chr8.4:2699688-2699707 MS.gene60160:intron 30.0%
GTCACATAATATAGTACCTT+TGG + chr8.4:2699025-2699044 None:intergenic 30.0%
GTGAAAGATAAGAAAGATCT+TGG - chr8.4:2700319-2700338 MS.gene60160:intron 30.0%
TAACTAACTACATTGGGAAT+TGG - chr8.4:2699131-2699150 MS.gene60160:CDS 30.0%
TAGAACAAGAACCTCTTATA+AGG + chr8.4:2699745-2699764 None:intergenic 30.0%
TATCAGTTTAACAAAGAGGA+GGG - chr8.4:2700367-2700386 MS.gene60160:CDS 30.0%
TCTTTCTTATCTTTCACCTT+GGG + chr8.4:2700316-2700335 None:intergenic 30.0%
TGGTAAGTTTAATATAGCTG+GGG + chr8.4:2699942-2699961 None:intergenic 30.0%
TGTGTTAATGTGCTATCTTT+AGG - chr8.4:2700136-2700155 MS.gene60160:intron 30.0%
TTATCAGTTTAACAAAGAGG+AGG - chr8.4:2700366-2700385 MS.gene60160:CDS 30.0%
! TGGTTTTCAATGTTTTCCAA+AGG - chr8.4:2699006-2699025 MS.gene60160:CDS 30.0%
!!! CTATCTTGTTTTTTCAGTCT+TGG - chr8.4:2700071-2700090 MS.gene60160:intron 30.0%
AAAACTCCAAACTAGTGCAA+AGG + chr8.4:2699714-2699733 None:intergenic 35.0%
AAAGGCCGATAATAGTTCAT+AGG + chr8.4:2699696-2699715 None:intergenic 35.0%
AGCTTGTAAATTTGCAGCAA+TGG - chr8.4:2698937-2698956 MS.gene60160:CDS 35.0%
AGGTTTGGATGATCGATAAT+TGG + chr8.4:2699456-2699475 None:intergenic 35.0%
ATCTGTTTGACACATGTACA+TGG - chr8.4:2699667-2699686 MS.gene60160:intron 35.0%
CAAGAACCTCTTATAAGGAT+CGG + chr8.4:2699740-2699759 None:intergenic 35.0%
CGCTAGTTAACTAACTACAT+TGG - chr8.4:2699124-2699143 MS.gene60160:CDS 35.0%
GCACATTAACACAGATTTCT+AGG + chr8.4:2700129-2700148 None:intergenic 35.0%
GTAAGCAACAGAAATTTCGT+CGG + chr8.4:2699783-2699802 None:intergenic 35.0%
GTGCTTTACTTGTGAATAGT+GGG + chr8.4:2699858-2699877 None:intergenic 35.0%
TATCGATCATCCAAACCTTT+AGG - chr8.4:2699458-2699477 MS.gene60160:intron 35.0%
TCTTGGAATCATGAAAGTCA+AGG - chr8.4:2700336-2700355 MS.gene60160:intron 35.0%
! AAGATGAAAAGTGTATGGGA+AGG - chr8.4:2700409-2700428 MS.gene60160:CDS 35.0%
! CGTTATGTGATTAGAAGCAT+TGG - chr8.4:2699085-2699104 MS.gene60160:intron 35.0%
!! TGATTTTAGGTGATCCTTGA+GGG - chr8.4:2699418-2699437 MS.gene60160:intron 35.0%
AATATGTTGGAACCGTGAAG+AGG - chr8.4:2700209-2700228 MS.gene60160:intron 40.0%
ACAAAGAGCTGAAGTTGACT+TGG - chr8.4:2699829-2699848 MS.gene60160:intron 40.0%
ACTACATTGGGAATTGGGAT+TGG - chr8.4:2699137-2699156 MS.gene60160:CDS 40.0%
AGAGATAAGTGACAGAGAAG+TGG - chr8.4:2699218-2699237 MS.gene60160:intron 40.0%
AGTTTAATATAGCTGGGGAG+AGG + chr8.4:2699937-2699956 None:intergenic 40.0%
CAATATGGTTCTCCTCTTCA+CGG + chr8.4:2700224-2700243 None:intergenic 40.0%
CGTGCTTTACTTGTGAATAG+TGG + chr8.4:2699859-2699878 None:intergenic 40.0%
CTACATTGGGAATTGGGATT+GGG - chr8.4:2699138-2699157 MS.gene60160:CDS 40.0%
GACTCTTTGCCTTCAAGAAT+CGG + chr8.4:2699805-2699824 None:intergenic 40.0%
GAGGAGAACCATATTGTATC+AGG - chr8.4:2700228-2700247 MS.gene60160:intron 40.0%
GTCATGACTTGATATACCCA+AGG - chr8.4:2700297-2700316 MS.gene60160:intron 40.0%
GTGCTGTACCTGATACAATA+TGG + chr8.4:2700239-2700258 None:intergenic 40.0%
GTTTAACAAAGAGGAGGGAT+TGG - chr8.4:2700372-2700391 MS.gene60160:CDS 40.0%
GTTTAATATAGCTGGGGAGA+GGG + chr8.4:2699936-2699955 None:intergenic 40.0%
TCAACTTCAGCTCTTTGTTC+AGG + chr8.4:2699827-2699846 None:intergenic 40.0%
TCACAAGTAAAGCACGTTCT+TGG - chr8.4:2699863-2699882 MS.gene60160:intron 40.0%
TTTAATATAGCTGGGGAGAG+GGG + chr8.4:2699935-2699954 None:intergenic 40.0%
TTTCCTCCGATCCTTATAAG+AGG - chr8.4:2699731-2699750 MS.gene60160:intron 40.0%
!! CTGATTTTAGGTGATCCTTG+AGG - chr8.4:2699417-2699436 MS.gene60160:intron 40.0%
!! TGTTGCTTACCGATTCTTGA+AGG - chr8.4:2699793-2699812 MS.gene60160:intron 40.0%
AGTGACAGAGAAGTGGTAGT+TGG - chr8.4:2699225-2699244 MS.gene60160:intron 45.0%
ATTGGGATTGGGTGTCTTTG+TGG - chr8.4:2699149-2699168 MS.gene60160:CDS 45.0%
GAACCTCTTATAAGGATCGG+AGG + chr8.4:2699737-2699756 None:intergenic 45.0%
GTGACAGAGAAGTGGTAGTT+GGG - chr8.4:2699226-2699245 MS.gene60160:intron 45.0%
TATCGGCCTTTGCACTAGTT+TGG - chr8.4:2699705-2699724 MS.gene60160:intron 45.0%
TCACGTGCAGGAATATCTTG+AGG - chr8.4:2700186-2700205 MS.gene60160:intron 45.0%
TCCTGATAGAGTTCTCTCCA+TGG - chr8.4:2698961-2698980 MS.gene60160:CDS 45.0%
TTCGTCGGTCAAACTGCAAA+AGG + chr8.4:2699768-2699787 None:intergenic 45.0%
!! TTTTAGGTGATCCTTGAGGG+TGG - chr8.4:2699421-2699440 MS.gene60160:intron 45.0%
AAAGTCACGAATCGCGATCC+GGG - chr8.4:2699310-2699329 MS.gene60160:intron 50.0%
ACCACCTGTTGCATTGAGCA+AGG + chr8.4:2698987-2699006 None:intergenic 50.0%
CAAAGTCACGAATCGCGATC+CGG - chr8.4:2699309-2699328 MS.gene60160:intron 50.0%
GATCGCGATTCGTGACTTTG+TGG + chr8.4:2699309-2699328 None:intergenic 50.0%
GCCATGGAGAGAACTCTATC+AGG + chr8.4:2698965-2698984 None:intergenic 50.0%
GCGATTCGTGACTTTGTGGA+GGG + chr8.4:2699305-2699324 None:intergenic 50.0%
GGATTGGGTGTCTTTGTGGA+GGG - chr8.4:2699153-2699172 MS.gene60160:CDS 50.0%
TGTTGCATTGAGCAAGGCCA+TGG + chr8.4:2698981-2699000 None:intergenic 50.0%
TTGCTCAATGCAACAGGTGG+TGG - chr8.4:2698986-2699005 MS.gene60160:CDS 50.0%
! ATGGCCTTGCTCAATGCAAC+AGG - chr8.4:2698980-2698999 MS.gene60160:CDS 50.0%
ATAGCTGGGGAGAGGGGTTA+GGG + chr8.4:2699929-2699948 None:intergenic 55.0%
CGCGATTCGTGACTTTGTGG+AGG + chr8.4:2699306-2699325 None:intergenic 55.0%
GCCTTGCTCAATGCAACAGG+TGG - chr8.4:2698983-2699002 MS.gene60160:CDS 55.0%
GGACTCAATTGCCACCCTCA+AGG + chr8.4:2699435-2699454 None:intergenic 55.0%
GGGATTGGGTGTCTTTGTGG+AGG - chr8.4:2699152-2699171 MS.gene60160:CDS 55.0%
TATAGCTGGGGAGAGGGGTT+AGG + chr8.4:2699930-2699949 None:intergenic 55.0%
TGTGACTAGCAAGCACCACC+CGG + chr8.4:2699331-2699350 None:intergenic 55.0%
GTCACGAATCGCGATCCGGG+TGG - chr8.4:2699313-2699332 MS.gene60160:intron 65.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 2698932 2700438 2698932 ID=MS.gene60160
chr8.4 mRNA 2698932 2700438 2698932 ID=MS.gene60160.t1;Parent=MS.gene60160
chr8.4 exon 2700343 2700438 2700343 ID=MS.gene60160.t1.exon1;Parent=MS.gene60160.t1
chr8.4 CDS 2700343 2700438 2700343 ID=cds.MS.gene60160.t1;Parent=MS.gene60160.t1
chr8.4 exon 2699739 2699788 2699739 ID=MS.gene60160.t1.exon2;Parent=MS.gene60160.t1
chr8.4 CDS 2699739 2699788 2699739 ID=cds.MS.gene60160.t1;Parent=MS.gene60160.t1
chr8.4 exon 2699502 2699595 2699502 ID=MS.gene60160.t1.exon3;Parent=MS.gene60160.t1
chr8.4 CDS 2699502 2699595 2699502 ID=cds.MS.gene60160.t1;Parent=MS.gene60160.t1
chr8.4 exon 2699121 2699174 2699121 ID=MS.gene60160.t1.exon4;Parent=MS.gene60160.t1
chr8.4 CDS 2699121 2699174 2699121 ID=cds.MS.gene60160.t1;Parent=MS.gene60160.t1
chr8.4 exon 2698932 2699051 2698932 ID=MS.gene60160.t1.exon5;Parent=MS.gene60160.t1
chr8.4 CDS 2698932 2699051 2698932 ID=cds.MS.gene60160.t1;Parent=MS.gene60160.t1
Gene Sequence

>MS.gene60160

ATGATAGCTTGTAAATTTGCAGCAATGGTTCCTGATAGAGTTCTCTCCATGGCCTTGCTCAATGCAACAGGTGGTGGTTTTCAATGTTTTCCAAAGGTACTATATTATGTGACCCTTGTATAAATCTGTGAAATGTTTCGATTTTTTTTACGGCGTTATGTGATTAGAAGCATTGGTGATGCAACTTTGTAGCGCTAGTTAACTAACTACATTGGGAATTGGGATTGGGTGTCTTTGTGGAGGGAAATGTATGATGACTTTAGTGTATTTTACATTGTTTTATGAGAGAGATAAGTGACAGAGAAGTGGTAGTTGGGATTAGAGAGAGAGAGAGAGAGAGTAATATAGAAGAGAAAGTCACGGTGACTTTCCCTCCACAAAGTCACGAATCGCGATCCGGGTGGTGCTTGCTAGTCACACTTTTTAATTACAAACGTAGTTCAGGATAGTGAAGTTGCATACATAACAAATGGAATTTCTTACTACTGATTTTAGGTGATCCTTGAGGGTGGCAATTGAGTCCAATTATCGATCATCCAAACCTTTAGGAGAAATTTAGTTGAAAATTTATTTTTCTATGCTTTTGAGTGAGAATTTCGTAGTACTGAAATTTAGATGTTTGAGTGATTAAATGTATAAATAATATCTAGATTCAGCTGTTTGCAGTTTTTCCAATGCTTAATACAAATTTAATCGGAATGTATCTGCAATTAGATATATAATGTTGGAGTTATGATCTGTTTGACACATGTACATGGTTTCCTATGAACTATTATCGGCCTTTGCACTAGTTTGGAGTTTTCCTCCGATCCTTATAAGAGGTTCTTGTTCTACCTTTTGCAGTTTGACCGACGAAATTTCTGTTGCTTACCGATTCTTGAAGGCAAAGAGTCCTGAACAAAGAGCTGAAGTTGACTTGGACACCCACTATTCACAAGTAAAGCACGTTCTTGGTTTTATTTATTATTTACAATCAACATATAACAAATTGTCTCCCTAACCCCTCTCCCCAGCTATATTAAACTTACCATTAAAGTAGTGATTTTAAAAAATTGAATCACTCAAGGTGTATTCGTATATGATATAAAAGAGTCTGGATTATCATTTTGTAATGAATATTAACATTAAGTTGAAGAAGGCTATCTTGTTTTTTCAGTCTTGGGTCTACTCTGAAGTCTGAATTACTGTTAACAGCCTAGAAATCTGTGTTAATGTGCTATCTTTAGGATGAATATCAAAAACAAATTTTATATATCACGTGCAGGAATATCTTGAGGAATATGTTGGAACCGTGAAGAGGAGAACCATATTGTATCAGGTACAGCACAAACTGAAAAGAAGCTTCAATTTAGGTTGTTGTCAATTGTCATGACTTGATATACCCAAGGTGAAAGATAAGAAAGATCTTGGAATCATGAAAGTCAAGGTCTTGTATTATCAGTTTAACAAAGAGGAGGGATTGGTTGTACTAGAAGAAAAGATGAAAAGTGTATGGGAAGGACCATAA

Protein sequence

>MS.gene60160.t1

MIACKFAAMVPDRVLSMALLNATGGGFQCFPKIQLFAVFPMLNTNLIGILTDEISVAYRFLKAKSPEQRAEVDLDTHYSQEYLEEYVGTVKRRTILYQVKDKKDLGIMKVKVLYYQFNKEEGLVVLEEKMKSVWEGP