AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene96193

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene96193.t1 MTR_2g020370 95.890 146 6 0 1 146 1 146 2.42e-73 216
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 37 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATTTCTGGTGACAAATTT+TGG 0.075161 2.2:-64708764 None:intergenic
ATATGGTGCAAATGCATAAA+AGG 0.180376 2.2:-64708901 None:intergenic
GGCAAAAGTGGAGCAATTTC+TGG 0.273208 2.2:-64708777 None:intergenic
GTGGGGAGTGTTGGAAGTTC+AGG 0.295068 2.2:-64708690 None:intergenic
TTTGGAGGGCTTGGATTAGA+AGG 0.302628 2.2:-64708852 None:intergenic
TCATCAGGGTTTGGAGGGCT+TGG 0.359011 2.2:-64708861 None:intergenic
AGTGTTGGAAGTTCAGGAAT+AGG 0.412702 2.2:-64708684 None:intergenic
CCTGGAGCAATCACATCATC+AGG 0.417148 2.2:-64708876 None:intergenic
TGGAAAGGAGAGATTGAAGA+TGG 0.421105 2.2:-64708744 None:intergenic
GCAATCACATCATCAGGGTT+TGG 0.456047 2.2:-64708870 None:intergenic
CCACCAGGAGAAGGCAAAAG+TGG 0.462978 2.2:-64708789 None:intergenic
TGCAGTGCTAATGATCATCA+TGG 0.495669 2.2:+64708617 MS.gene96193:CDS
GGTGCTTTACCAACTCCTAC+AGG 0.501175 2.2:+64708810 MS.gene96193:CDS
TGCACCATATGGATCAATAC+AGG 0.502932 2.2:+64708914 MS.gene96193:CDS
TTTGTTGCTGATGAAGTAGT+GGG 0.510994 2.2:-64708708 None:intergenic
GCTTGGATTAGAAGGAATAG+TGG 0.512010 2.2:-64708844 None:intergenic
AGTTACACTTCTATGACCAT+TGG 0.512749 2.2:-64708943 None:intergenic
TATGGTGCAAATGCATAAAA+GGG 0.522319 2.2:-64708900 None:intergenic
GATGAAGTAGTGGGGAGTGT+TGG 0.541029 2.2:-64708699 None:intergenic
TCACATCATCAGGGTTTGGA+GGG 0.550618 2.2:-64708866 None:intergenic
CCTGATGATGTGATTGCTCC+AGG 0.558442 2.2:+64708876 MS.gene96193:CDS
GGAGAGATTGAAGATGGAGA+AGG 0.558979 2.2:-64708738 None:intergenic
GTAGCCTGTATTGATCCATA+TGG 0.563050 2.2:-64708918 None:intergenic
ATCACATCATCAGGGTTTGG+AGG 0.576892 2.2:-64708867 None:intergenic
TCAATACAGGCTACTTCCAA+TGG 0.585113 2.2:+64708927 MS.gene96193:CDS
ATGTCAGAGCCTGTAGGAGT+TGG 0.587495 2.2:-64708819 None:intergenic
CTTGGATTAGAAGGAATAGT+GGG 0.589460 2.2:-64708843 None:intergenic
GGTAAAGCACCACCAGGAGA+AGG 0.590434 2.2:-64708798 None:intergenic
TTGTTGCTGATGAAGTAGTG+GGG 0.591429 2.2:-64708707 None:intergenic
TAAACCTGCAAAAGCAGTAG+TGG 0.596613 2.2:-64708976 None:intergenic
GCAAATGCATAAAAGGGACC+TGG 0.600170 2.2:-64708894 None:intergenic
TGTGAATATGATGAAAGGAT+AGG 0.606732 2.2:-64708654 None:intergenic
TATGATGAAAGGATAGGCGA+AGG 0.614531 2.2:-64708648 None:intergenic
GTGATTGTGAATATGATGAA+AGG 0.630882 2.2:-64708659 None:intergenic
GGAGTTGGTAAAGCACCACC+AGG 0.652199 2.2:-64708804 None:intergenic
GTGGGAATGTCAGAGCCTGT+AGG 0.652375 2.2:-64708825 None:intergenic
CTGGAGCAATCACATCATCA+GGG 0.679344 2.2:-64708875 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATATGGTGCAAATGCATAAA+AGG - chr2.2:64708904-64708923 None:intergenic 30.0%
GTGATTGTGAATATGATGAA+AGG - chr2.2:64708662-64708681 None:intergenic 30.0%
TATGGTGCAAATGCATAAAA+GGG - chr2.2:64708903-64708922 None:intergenic 30.0%
TGTGAATATGATGAAAGGAT+AGG - chr2.2:64708657-64708676 None:intergenic 30.0%
! TTTTATGCATTTGCACCATA+TGG + chr2.2:64708903-64708922 MS.gene96193:CDS 30.0%
!!! CAATTTCTGGTGACAAATTT+TGG - chr2.2:64708767-64708786 None:intergenic 30.0%
AGTTACACTTCTATGACCAT+TGG - chr2.2:64708946-64708965 None:intergenic 35.0%
TTTGTTGCTGATGAAGTAGT+GGG - chr2.2:64708711-64708730 None:intergenic 35.0%
! CTTGGATTAGAAGGAATAGT+GGG - chr2.2:64708846-64708865 None:intergenic 35.0%
! TTTTGTTGCTGATGAAGTAG+TGG - chr2.2:64708712-64708731 None:intergenic 35.0%
!! TCTGGTGACAAATTTTGGAA+AGG - chr2.2:64708762-64708781 None:intergenic 35.0%
TAAACCTGCAAAAGCAGTAG+TGG - chr2.2:64708979-64708998 None:intergenic 40.0%
TATGATGAAAGGATAGGCGA+AGG - chr2.2:64708651-64708670 None:intergenic 40.0%
TCAATACAGGCTACTTCCAA+TGG + chr2.2:64708927-64708946 MS.gene96193:CDS 40.0%
TGCACCATATGGATCAATAC+AGG + chr2.2:64708914-64708933 MS.gene96193:CDS 40.0%
TGCAGTGCTAATGATCATCA+TGG + chr2.2:64708617-64708636 MS.gene96193:CDS 40.0%
TGGAAAGGAGAGATTGAAGA+TGG - chr2.2:64708747-64708766 None:intergenic 40.0%
TTGTTGCTGATGAAGTAGTG+GGG - chr2.2:64708710-64708729 None:intergenic 40.0%
! AGTGTTGGAAGTTCAGGAAT+AGG - chr2.2:64708687-64708706 None:intergenic 40.0%
! GCTTGGATTAGAAGGAATAG+TGG - chr2.2:64708847-64708866 None:intergenic 40.0%
! GTAGCCTGTATTGATCCATA+TGG - chr2.2:64708921-64708940 None:intergenic 40.0%
ATCACATCATCAGGGTTTGG+AGG - chr2.2:64708870-64708889 None:intergenic 45.0%
CTGGAGCAATCACATCATCA+GGG - chr2.2:64708878-64708897 None:intergenic 45.0%
GCAAATGCATAAAAGGGACC+TGG - chr2.2:64708897-64708916 None:intergenic 45.0%
GCAATCACATCATCAGGGTT+TGG - chr2.2:64708873-64708892 None:intergenic 45.0%
GGAGAGATTGAAGATGGAGA+AGG - chr2.2:64708741-64708760 None:intergenic 45.0%
GGCAAAAGTGGAGCAATTTC+TGG - chr2.2:64708780-64708799 None:intergenic 45.0%
TCACATCATCAGGGTTTGGA+GGG - chr2.2:64708869-64708888 None:intergenic 45.0%
! TTTGGAGGGCTTGGATTAGA+AGG - chr2.2:64708855-64708874 None:intergenic 45.0%
!! ATAGCCACTACTGCTTTTGC+AGG + chr2.2:64708972-64708991 MS.gene96193:CDS 45.0%
ATGTCAGAGCCTGTAGGAGT+TGG - chr2.2:64708822-64708841 None:intergenic 50.0%
CCTGGAGCAATCACATCATC+AGG - chr2.2:64708879-64708898 None:intergenic 50.0%
GGTGCTTTACCAACTCCTAC+AGG + chr2.2:64708810-64708829 MS.gene96193:CDS 50.0%
! CCTGATGATGTGATTGCTCC+AGG + chr2.2:64708876-64708895 MS.gene96193:CDS 50.0%
! GATGAAGTAGTGGGGAGTGT+TGG - chr2.2:64708702-64708721 None:intergenic 50.0%
CCACCAGGAGAAGGCAAAAG+TGG - chr2.2:64708792-64708811 None:intergenic 55.0%
GTGGGAATGTCAGAGCCTGT+AGG - chr2.2:64708828-64708847 None:intergenic 55.0%
TCATCAGGGTTTGGAGGGCT+TGG - chr2.2:64708864-64708883 None:intergenic 55.0%
! GGTAAAGCACCACCAGGAGA+AGG - chr2.2:64708801-64708820 None:intergenic 55.0%
!! CCACTTTTGCCTTCTCCTGG+TGG + chr2.2:64708789-64708808 MS.gene96193:CDS 55.0%
!! GCTCCACTTTTGCCTTCTCC+TGG + chr2.2:64708786-64708805 MS.gene96193:CDS 55.0%
!! GGAGTTGGTAAAGCACCACC+AGG - chr2.2:64708807-64708826 None:intergenic 55.0%
!! GTGGGGAGTGTTGGAAGTTC+AGG - chr2.2:64708693-64708712 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 64708594 64709034 64708594 ID=MS.gene96193
chr2.2 mRNA 64708594 64709034 64708594 ID=MS.gene96193.t1;Parent=MS.gene96193
chr2.2 exon 64708594 64709034 64708594 ID=MS.gene96193.t1.exon1;Parent=MS.gene96193.t1
chr2.2 CDS 64708594 64709034 64708594 ID=cds.MS.gene96193.t1;Parent=MS.gene96193.t1
Gene Sequence

>MS.gene96193

ATGGCATCATCATTCACAGTTTATGCAGTGCTAATGATCATCATGGTTTTCATGCCTTCGCCTATCCTTTCATCATATTCACAATCACAACCTATTCCTGAACTTCCAACACTCCCCACTACTTCATCAGCAACAAAAACAGATCCTTCTCCATCTTCAATCTCTCCTTTCCAAAATTTGTCACCAGAAATTGCTCCACTTTTGCCTTCTCCTGGTGGTGCTTTACCAACTCCTACAGGCTCTGACATTCCCACTATTCCTTCTAATCCAAGCCCTCCAAACCCTGATGATGTGATTGCTCCAGGTCCCTTTTATGCATTTGCACCATATGGATCAATACAGGCTACTTCCAATGGTCATAGAAGTGTAACTTTTGACATAGCCACTACTGCTTTTGCAGGTTTAGCAGCATTATCTTCTCTGCAGTATATGAGAGTATGA
Protein sequence

>MS.gene96193.t1

MASSFTVYAVLMIIMVFMPSPILSSYSQSQPIPELPTLPTTSSATKTDPSPSSISPFQNLSPEIAPLLPSPGGALPTPTGSDIPTIPSNPSPPNPDDVIAPGPFYAFAPYGSIQATSNGHRSVTFDIATTAFAGLAALSSLQYMRV