AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene073785


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073785.t1 MTR_1g066860 100.000 136 0 0 1 136 1 136 1.11e-96 274
MS.gene073785.t1 MTR_1g066860 100.000 136 0 0 1 136 7 142 1.16e-96 274
MS.gene073785.t1 MTR_7g100720 94.118 136 8 0 1 136 7 142 1.59e-90 259
MS.gene073785.t1 MTR_7g061155 96.610 118 4 0 19 136 138 255 3.89e-80 236
MS.gene073785.t1 MTR_7g063460 60.000 55 20 1 48 102 28 80 1.78e-15 67.0
MS.gene073785.t1 MTR_8g447270 64.151 53 17 1 48 100 17 67 1.68e-14 65.5
MS.gene073785.t1 MTR_4g038400 67.347 49 13 1 50 98 103 148 1.81e-12 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073785.t1 AT5G02960 95.588 136 6 0 1 136 7 142 6.49e-91 259
MS.gene073785.t1 AT3G09680 93.382 136 9 0 1 136 7 142 1.07e-87 251

Find 37 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAAAGTTGTGAAGGTCTC+TGG 0.336661 1.1:+49281327 MS.gene073785:CDS
ACACTTACGAATAGCTGAAT+TGG 0.338181 1.1:-49281006 None:intergenic
TCTCCTTCTTCTCCTTGAAA+AGG 0.352760 1.1:-49281365 None:intergenic
ATTCCACAAATCTAAGATCT+TGG 0.379899 1.1:-49281390 None:intergenic
CATGCTGTGGGAGATATTCC+TGG 0.414411 1.1:+49281297 MS.gene073785:CDS
CAGCTATTCGTAAGTGTGCC+AGG 0.416301 1.1:+49281012 MS.gene073785:CDS
CTCCTTCTTCTCCTTGAAAA+GGG 0.418297 1.1:-49281364 None:intergenic
GTAGTTTAGACAACCATCAT+TGG 0.437937 1.1:-49281078 None:intergenic
GCTGCCTTTGTTCCCAATGA+TGG 0.449096 1.1:+49281065 MS.gene073785:CDS
TCATACAAGAAGTCTCATCT+TGG 0.473075 1.1:+49280808 MS.gene073785:CDS
CACTTACGAATAGCTGAATT+GGG 0.473089 1.1:-49281005 None:intergenic
TCAAAGTTGTGAAGGTCTCT+GGG 0.485775 1.1:+49281328 MS.gene073785:CDS
TGCTGGTTCTTCCCACGCAA+AGG 0.487634 1.1:+49280852 MS.gene073785:CDS
CTCACCGCAGGAGGCAAAGG+TGG 0.491520 1.1:+49280776 MS.gene073785:CDS
TAGTTTAGACAACCATCATT+GGG 0.495609 1.1:-49281077 None:intergenic
GCTGGTTCTTCCCACGCAAA+GGG 0.497054 1.1:+49280853 MS.gene073785:CDS
ATTGCTGGATTTGGAAGAAA+GGG 0.499669 1.1:+49281273 MS.gene073785:CDS
GCGTGGGAAGAACCAGCAAA+AGG 0.504542 1.1:-49280847 None:intergenic
CATACAAGAAGTCTCATCTT+GGG 0.508352 1.1:+49280809 MS.gene073785:CDS
GATTGCTGGATTTGGAAGAA+AGG 0.508603 1.1:+49281272 MS.gene073785:CDS
AGGGTACAACTAATCAAGAA+TGG 0.513747 1.1:+49281032 MS.gene073785:CDS
CAGCCCACCTTTGCCTCCTG+CGG 0.522174 1.1:-49280780 None:intergenic
CGAGGACAATTCCCTTTGCG+TGG 0.534957 1.1:-49280864 None:intergenic
GCAAGCTGAAGTCTCACCGC+AGG 0.557712 1.1:+49280764 MS.gene073785:CDS
AGTCTCACCGCAGGAGGCAA+AGG 0.562641 1.1:+49280773 MS.gene073785:CDS
AGCTGAAGTCTCACCGCAGG+AGG 0.569090 1.1:+49280767 MS.gene073785:CDS
AGTCTCATCTTGGGAATGAG+TGG 0.571456 1.1:+49280818 MS.gene073785:CDS
ATTCTTGATTAGTTGTACCC+TGG 0.574592 1.1:-49281030 None:intergenic
ACAACTTTGAATCTAACTCC+AGG 0.579252 1.1:-49281315 None:intergenic
TGGAAGAAAGGGTCATGCTG+TGG 0.584767 1.1:+49281284 MS.gene073785:CDS
GGAAGAAAGGGTCATGCTGT+GGG 0.588458 1.1:+49281285 MS.gene073785:CDS
TCACCGCAGGAGGCAAAGGT+GGG 0.600190 1.1:+49280777 MS.gene073785:CDS
AGTTAGATTCAAAGTTGTGA+AGG 0.600905 1.1:+49281320 MS.gene073785:CDS
ACAACCATCATTGGGAACAA+AGG 0.603558 1.1:-49281069 None:intergenic
GAGGACAATTCCCTTTGCGT+GGG 0.632164 1.1:-49280863 None:intergenic
AGCTATTCGTAAGTGTGCCA+GGG 0.637371 1.1:+49281013 MS.gene073785:CDS
CAAAGTTGTGAAGGTCTCTG+GGG 0.715188 1.1:+49281329 MS.gene073785:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCAAATAAAATTCTAGTAAA+AGG - chr1.1:49280922-49280941 None:intergenic 15.0%
!!! GATTGTTGTTTTATTTACAG+TGG + chr1.1:49280966-49280985 MS.gene073785:intron 25.0%
!!! TTTTATTTACAGTGGTATTG+AGG + chr1.1:49280974-49280993 MS.gene073785:intron 25.0%
ACCAATAGAAAATATGAGCA+AGG - chr1.1:49281122-49281141 None:intergenic 30.0%
AGTTAGATTCAAAGTTGTGA+AGG + chr1.1:49281320-49281339 MS.gene073785:CDS 30.0%
TAGTTTAGACAACCATCATT+GGG - chr1.1:49281080-49281099 None:intergenic 30.0%
TGACTTTAAACTGATATGTC+TGG + chr1.1:49281150-49281169 MS.gene073785:intron 30.0%
! TCCTTGCTCATATTTTCTAT+TGG + chr1.1:49281118-49281137 MS.gene073785:intron 30.0%
ACAACTTTGAATCTAACTCC+AGG - chr1.1:49281318-49281337 None:intergenic 35.0%
ACACTTACGAATAGCTGAAT+TGG - chr1.1:49281009-49281028 None:intergenic 35.0%
AGGGTACAACTAATCAAGAA+TGG + chr1.1:49281032-49281051 MS.gene073785:CDS 35.0%
ATTGCTGGATTTGGAAGAAA+GGG + chr1.1:49281273-49281292 MS.gene073785:CDS 35.0%
CACTTACGAATAGCTGAATT+GGG - chr1.1:49281008-49281027 None:intergenic 35.0%
CATACAAGAAGTCTCATCTT+GGG + chr1.1:49280809-49280828 MS.gene073785:CDS 35.0%
GTAGTTTAGACAACCATCAT+TGG - chr1.1:49281081-49281100 None:intergenic 35.0%
TCATACAAGAAGTCTCATCT+TGG + chr1.1:49280808-49280827 MS.gene073785:CDS 35.0%
! ATTCTTGATTAGTTGTACCC+TGG - chr1.1:49281033-49281052 None:intergenic 35.0%
!!! GAAGTTTTGATTGCTGGATT+TGG + chr1.1:49281264-49281283 MS.gene073785:CDS 35.0%
ACAACCATCATTGGGAACAA+AGG - chr1.1:49281072-49281091 None:intergenic 40.0%
ACACACAATGTCACACAAGA+TGG - chr1.1:49281226-49281245 None:intergenic 40.0%
CTCCTTCTTCTCCTTGAAAA+GGG - chr1.1:49281367-49281386 None:intergenic 40.0%
GATGTAAGAGTGGTTAAGCT+TGG + chr1.1:49280891-49280910 MS.gene073785:intron 40.0%
GATTGCTGGATTTGGAAGAA+AGG + chr1.1:49281272-49281291 MS.gene073785:CDS 40.0%
TCAAAGTTGTGAAGGTCTCT+GGG + chr1.1:49281328-49281347 MS.gene073785:CDS 40.0%
TCCTCGAAAAGATGTAAGAG+TGG + chr1.1:49280881-49280900 MS.gene073785:intron 40.0%
TCTCCTTCTTCTCCTTGAAA+AGG - chr1.1:49281368-49281387 None:intergenic 40.0%
TTCAAAGTTGTGAAGGTCTC+TGG + chr1.1:49281327-49281346 MS.gene073785:CDS 40.0%
! ACCACTCTTACATCTTTTCG+AGG - chr1.1:49280885-49280904 None:intergenic 40.0%
!!! CAGGATGAAGTTTTGATTGC+TGG + chr1.1:49281258-49281277 MS.gene073785:intron 40.0%
AGCTATTCGTAAGTGTGCCA+GGG + chr1.1:49281013-49281032 MS.gene073785:CDS 45.0%
AGTCTCATCTTGGGAATGAG+TGG + chr1.1:49280818-49280837 MS.gene073785:CDS 45.0%
CAAAGTTGTGAAGGTCTCTG+GGG + chr1.1:49281329-49281348 MS.gene073785:CDS 45.0%
GTGACATTGTGTGTGACTGA+TGG + chr1.1:49281232-49281251 MS.gene073785:intron 45.0%
! GAGTGGAAGAAACCTTTTGC+TGG + chr1.1:49280835-49280854 MS.gene073785:CDS 45.0%
! GTCTCTTCTTGCCCTTTTCA+AGG + chr1.1:49281353-49281372 MS.gene073785:CDS 45.0%
!! TGCCCTTTTCAAGGAGAAGA+AGG + chr1.1:49281362-49281381 MS.gene073785:CDS 45.0%
CAGCTATTCGTAAGTGTGCC+AGG + chr1.1:49281012-49281031 MS.gene073785:CDS 50.0%
CATGCTGTGGGAGATATTCC+TGG + chr1.1:49281297-49281316 MS.gene073785:CDS 50.0%
GAGGACAATTCCCTTTGCGT+GGG - chr1.1:49280866-49280885 None:intergenic 50.0%
GCTGCCTTTGTTCCCAATGA+TGG + chr1.1:49281065-49281084 MS.gene073785:CDS 50.0%
GGAAGAAAGGGTCATGCTGT+GGG + chr1.1:49281285-49281304 MS.gene073785:CDS 50.0%
TGGAAGAAAGGGTCATGCTG+TGG + chr1.1:49281284-49281303 MS.gene073785:CDS 50.0%
TGTGTGTGACTGATGGTTGC+AGG + chr1.1:49281239-49281258 MS.gene073785:intron 50.0%
CGAGGACAATTCCCTTTGCG+TGG - chr1.1:49280867-49280886 None:intergenic 55.0%
GCGTGGGAAGAACCAGCAAA+AGG - chr1.1:49280850-49280869 None:intergenic 55.0%
! GCTGGTTCTTCCCACGCAAA+GGG + chr1.1:49280853-49280872 MS.gene073785:CDS 55.0%
!! TGCTGGTTCTTCCCACGCAA+AGG + chr1.1:49280852-49280871 MS.gene073785:CDS 55.0%
AGCTGAAGTCTCACCGCAGG+AGG + chr1.1:49280767-49280786 MS.gene073785:CDS 60.0%
AGTCTCACCGCAGGAGGCAA+AGG + chr1.1:49280773-49280792 MS.gene073785:CDS 60.0%
GCAAGCTGAAGTCTCACCGC+AGG + chr1.1:49280764-49280783 MS.gene073785:CDS 60.0%
TCACCGCAGGAGGCAAAGGT+GGG + chr1.1:49280777-49280796 MS.gene073785:CDS 60.0%
CAGCCCACCTTTGCCTCCTG+CGG - chr1.1:49280783-49280802 None:intergenic 65.0%
CTCACCGCAGGAGGCAAAGG+TGG + chr1.1:49280776-49280795 MS.gene073785:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 49280751 49281401 49280751 ID=MS.gene073785
chr1.1 mRNA 49280751 49281401 49280751 ID=MS.gene073785.t1;Parent=MS.gene073785
chr1.1 exon 49280751 49280893 49280751 ID=MS.gene073785.t1.exon1;Parent=MS.gene073785.t1
chr1.1 CDS 49280751 49280893 49280751 ID=cds.MS.gene073785.t1;Parent=MS.gene073785.t1
chr1.1 exon 49280986 49281112 49280986 ID=MS.gene073785.t1.exon2;Parent=MS.gene073785.t1
chr1.1 CDS 49280986 49281112 49280986 ID=cds.MS.gene073785.t1;Parent=MS.gene073785.t1
chr1.1 exon 49281261 49281401 49281261 ID=MS.gene073785.t1.exon3;Parent=MS.gene073785.t1
chr1.1 CDS 49281261 49281401 49281261 ID=cds.MS.gene073785.t1;Parent=MS.gene073785.t1
Gene Sequence

>MS.gene073785

ATGGGAGCTGCTCGCAAGCTGAAGTCTCACCGCAGGAGGCAAAGGTGGGCTGACAAGTCATACAAGAAGTCTCATCTTGGGAATGAGTGGAAGAAACCTTTTGCTGGTTCTTCCCACGCAAAGGGAATTGTCCTCGAAAAGATGTAAGAGTGGTTAAGCTTGGTATTTCCTTTTACTAGAATTTTATTTGATATGAACATGTGATGCTAAGAAATGATTGTTGTTTTATTTACAGTGGTATTGAGGCTAAACAGCCCAATTCAGCTATTCGTAAGTGTGCCAGGGTACAACTAATCAAGAATGGAAAGAAAATTGCTGCCTTTGTTCCCAATGATGGTTGTCTAAACTACATCGAAGAAAATGTAAGTCCTTGCTCATATTTTCTATTGGTTTGATCAGTGACTTTAAACTGATATGTCTGGAACTGTCTTAAATTGTTTTTCATATCTTATTAGTAATTCGTTGTTTGTATCCATCTTGTGTGACATTGTGTGTGACTGATGGTTGCAGGATGAAGTTTTGATTGCTGGATTTGGAAGAAAGGGTCATGCTGTGGGAGATATTCCTGGAGTTAGATTCAAAGTTGTGAAGGTCTCTGGGGTGTCTCTTCTTGCCCTTTTCAAGGAGAAGAAGGAGAAGCCAAGATCTTAG

Protein sequence

>MS.gene073785.t1

MGAARKLKSHRRRQRWADKSYKKSHLGNEWKKPFAGSSHAKGIVLEKIGIEAKQPNSAIRKCARVQLIKNGKKIAAFVPNDGCLNYIEENDEVLIAGFGRKGHAVGDIPGVRFKVVKVSGVSLLALFKEKKEKPRS