AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene049615


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049615.t1 MTR_3g062930 98.438 128 2 0 8 135 87 214 1.61e-89 259
MS.gene049615.t1 MTR_3g095900 44.144 111 62 0 25 135 3 113 6.76e-29 103
MS.gene049615.t1 MTR_8g103900 44.444 108 60 0 28 135 6 113 1.91e-28 102
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049615.t1 AT3G54210 91.406 128 11 0 8 135 84 211 3.45e-85 248
MS.gene049615.t1 AT5G09770 46.296 108 58 0 28 135 6 113 2.10e-29 104
MS.gene049615.t1 AT5G64650 45.370 108 59 0 28 135 6 113 1.02e-28 103

Find 41 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTGATGCGGCCATATTTA+AGG 0.201236 3.2:+59091009 None:intergenic
CATTATCACCCCGCCTTGGC+AGG 0.297173 3.2:+59090793 None:intergenic
GGGCAAGAGCCAGTGCTATT+AGG 0.311839 3.2:-59090980 MS.gene049615:CDS
AAGATGGTTCTCTACATAAA+AGG 0.312212 3.2:-59090926 MS.gene049615:CDS
ACGACACAGCTCCTTAAATA+TGG 0.358835 3.2:-59091020 MS.gene049615:CDS
TTTCTTTCACCATAACGTTC+TGG 0.374391 3.2:+59090843 None:intergenic
ATGAGTGCCTTACGCTGATC+AGG 0.383798 3.2:+59091053 None:intergenic
CCGACCACCATTGTCAATAA+TGG 0.400202 3.2:+59091124 None:intergenic
GGAAAGTGCCGAAACTCAAC+AGG 0.454471 3.2:-59091079 MS.gene049615:CDS
TATAAGAACCCTGCCAAGGC+GGG 0.455244 3.2:-59090802 MS.gene049615:CDS
GAACGTTATGGTGAAAGAAA+TGG 0.457288 3.2:-59090840 MS.gene049615:CDS
AATAGCACTGGCTCTTGCCC+TGG 0.463988 3.2:+59090983 None:intergenic
GCAGAGGTTCCAGAACGTTA+TGG 0.467953 3.2:-59090852 MS.gene049615:CDS
ATTTAAGGAGCTGTGTCGTT+AGG 0.475405 3.2:+59091024 None:intergenic
ATGATCACTCTTGCAAAAGA+TGG 0.491383 3.2:-59090942 MS.gene049615:CDS
TGAGTGCCTTACGCTGATCA+GGG 0.494134 3.2:+59091054 None:intergenic
GCGGGGTGATAATGCACCTA+TGG 0.509687 3.2:-59090784 MS.gene049615:CDS
CATTATTGACAATGGTGGTC+GGG 0.510866 3.2:-59091123 MS.gene049615:CDS
CCATTATTGACAATGGTGGT+CGG 0.536928 3.2:-59091124 MS.gene049615:CDS
CGGGTCTATGCTATGAGACA+TGG 0.537503 3.2:-59091104 MS.gene049615:CDS
CATAAAAGGAGACAAGCTCT+TGG 0.549777 3.2:-59090912 MS.gene049615:CDS
CGTTATGGTGAAAGAAATGG+TGG 0.549875 3.2:-59090837 MS.gene049615:CDS
AACATACTTCCTAATAGCAC+TGG 0.557258 3.2:+59090971 None:intergenic
AGCACTGGCTCTTGCCCTGG+TGG 0.560135 3.2:+59090986 None:intergenic
AGTTTCACCATTATTGACAA+TGG 0.570374 3.2:-59091131 MS.gene049615:CDS
ATTATCACCCCGCCTTGGCA+GGG 0.577352 3.2:+59090794 None:intergenic
ACAAGTTCAATGTATGCCAT+AGG 0.593731 3.2:+59090768 None:intergenic
GGAGCTGTGTCGTTAGGCCA+CGG 0.596746 3.2:+59091030 None:intergenic
GAGTGCCTTACGCTGATCAG+GGG 0.597909 3.2:+59091055 None:intergenic
TTCACCATTATTGACAATGG+TGG 0.599206 3.2:-59091128 MS.gene049615:CDS
GGTGCATTATCACCCCGCCT+TGG 0.602095 3.2:+59090789 None:intergenic
ATGGCCGCATCAAGACCACC+AGG 0.604923 3.2:-59091001 MS.gene049615:CDS
TGTTCATGCTTTATTCGCAG+AGG 0.608557 3.2:-59090868 MS.gene049615:CDS
ATAAGAACCCTGCCAAGGCG+GGG 0.620664 3.2:-59090801 MS.gene049615:CDS
TTGCCCTGGTGGTCTTGATG+CGG 0.630759 3.2:+59090997 None:intergenic
GAATTATAAGAACCCTGCCA+AGG 0.635478 3.2:-59090806 MS.gene049615:CDS
CAGCGTAAGGCACTCATCCG+TGG 0.643797 3.2:-59091047 MS.gene049615:CDS
AGTGCCTTACGCTGATCAGG+GGG 0.654716 3.2:+59091056 None:intergenic
TTATAAGAACCCTGCCAAGG+CGG 0.688965 3.2:-59090803 MS.gene049615:CDS
TCTATGCTATGAGACATGGA+AGG 0.735339 3.2:-59091100 MS.gene049615:CDS
TGGCCGCATCAAGACCACCA+GGG 0.750384 3.2:-59091000 MS.gene049615:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGCTGAATTTCAAAAGATAA+TGG + chr3.2:59090791-59090810 None:intergenic 25.0%
!!! CAAAAGATAATGGATACTAT+GGG + chr3.2:59090781-59090800 None:intergenic 25.0%
!!! TCAAAAGATAATGGATACTA+TGG + chr3.2:59090782-59090801 None:intergenic 25.0%
AAGATGGTTCTCTACATAAA+AGG - chr3.2:59091063-59091082 MS.gene049615:CDS 30.0%
AGTTTCACCATTATTGACAA+TGG - chr3.2:59090858-59090877 MS.gene049615:CDS 30.0%
AACATACTTCCTAATAGCAC+TGG + chr3.2:59091021-59091040 None:intergenic 35.0%
ACAAGTTCAATGTATGCCAT+AGG + chr3.2:59091224-59091243 None:intergenic 35.0%
ATGATCACTCTTGCAAAAGA+TGG - chr3.2:59091047-59091066 MS.gene049615:CDS 35.0%
GAACGTTATGGTGAAAGAAA+TGG - chr3.2:59091149-59091168 MS.gene049615:intron 35.0%
TTCACCATTATTGACAATGG+TGG - chr3.2:59090861-59090880 MS.gene049615:CDS 35.0%
TTTCTTTCACCATAACGTTC+TGG + chr3.2:59091149-59091168 None:intergenic 35.0%
ACGACACAGCTCCTTAAATA+TGG - chr3.2:59090969-59090988 MS.gene049615:CDS 40.0%
CATAAAAGGAGACAAGCTCT+TGG - chr3.2:59091077-59091096 MS.gene049615:CDS 40.0%
CATTATTGACAATGGTGGTC+GGG - chr3.2:59090866-59090885 MS.gene049615:CDS 40.0%
CCATTATTGACAATGGTGGT+CGG - chr3.2:59090865-59090884 MS.gene049615:CDS 40.0%
CGTTATGGTGAAAGAAATGG+TGG - chr3.2:59091152-59091171 MS.gene049615:intron 40.0%
GAATTATAAGAACCCTGCCA+AGG - chr3.2:59091183-59091202 MS.gene049615:intron 40.0%
TCTATGCTATGAGACATGGA+AGG - chr3.2:59090889-59090908 MS.gene049615:CDS 40.0%
TCTTGATGCGGCCATATTTA+AGG + chr3.2:59090983-59091002 None:intergenic 40.0%
! ATTTAAGGAGCTGTGTCGTT+AGG + chr3.2:59090968-59090987 None:intergenic 40.0%
! TGTTCATGCTTTATTCGCAG+AGG - chr3.2:59091121-59091140 MS.gene049615:CDS 40.0%
CCGACCACCATTGTCAATAA+TGG + chr3.2:59090868-59090887 None:intergenic 45.0%
TTATAAGAACCCTGCCAAGG+CGG - chr3.2:59091186-59091205 MS.gene049615:intron 45.0%
ATGAGTGCCTTACGCTGATC+AGG + chr3.2:59090939-59090958 None:intergenic 50.0%
CGGGTCTATGCTATGAGACA+TGG - chr3.2:59090885-59090904 MS.gene049615:CDS 50.0%
GCAGAGGTTCCAGAACGTTA+TGG - chr3.2:59091137-59091156 MS.gene049615:intron 50.0%
TATAAGAACCCTGCCAAGGC+GGG - chr3.2:59091187-59091206 MS.gene049615:intron 50.0%
TGAGTGCCTTACGCTGATCA+GGG + chr3.2:59090938-59090957 None:intergenic 50.0%
!! GGAAAGTGCCGAAACTCAAC+AGG - chr3.2:59090910-59090929 MS.gene049615:CDS 50.0%
AGTGCCTTACGCTGATCAGG+GGG + chr3.2:59090936-59090955 None:intergenic 55.0%
ATAAGAACCCTGCCAAGGCG+GGG - chr3.2:59091188-59091207 MS.gene049615:intron 55.0%
ATTATCACCCCGCCTTGGCA+GGG + chr3.2:59091198-59091217 None:intergenic 55.0%
GAGTGCCTTACGCTGATCAG+GGG + chr3.2:59090937-59090956 None:intergenic 55.0%
TCAGGGGGCCTGTTGAGTTT+CGG + chr3.2:59090921-59090940 None:intergenic 55.0%
! GCGGGGTGATAATGCACCTA+TGG - chr3.2:59091205-59091224 MS.gene049615:intron 55.0%
! GGGCAAGAGCCAGTGCTATT+AGG - chr3.2:59091009-59091028 MS.gene049615:CDS 55.0%
! TTGCCCTGGTGGTCTTGATG+CGG + chr3.2:59090995-59091014 None:intergenic 55.0%
!! AATAGCACTGGCTCTTGCCC+TGG + chr3.2:59091009-59091028 None:intergenic 55.0%
ATGGCCGCATCAAGACCACC+AGG - chr3.2:59090988-59091007 MS.gene049615:CDS 60.0%
CATTATCACCCCGCCTTGGC+AGG + chr3.2:59091199-59091218 None:intergenic 60.0%
GGTGCATTATCACCCCGCCT+TGG + chr3.2:59091203-59091222 None:intergenic 60.0%
TGGCCGCATCAAGACCACCA+GGG - chr3.2:59090989-59091008 MS.gene049615:CDS 60.0%
! CAGCGTAAGGCACTCATCCG+TGG - chr3.2:59090942-59090961 MS.gene049615:CDS 60.0%
! GGAGCTGTGTCGTTAGGCCA+CGG + chr3.2:59090962-59090981 None:intergenic 60.0%
CAGGCCCCCTGATCAGCGTA+AGG - chr3.2:59090929-59090948 MS.gene049615:CDS 65.0%
!! AGCACTGGCTCTTGCCCTGG+TGG + chr3.2:59091006-59091025 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 59090764 59091247 59090764 ID=MS.gene049615
chr3.2 mRNA 59090764 59091247 59090764 ID=MS.gene049615.t1;Parent=MS.gene049615
chr3.2 exon 59091228 59091247 59091228 ID=MS.gene049615.t1.exon1;Parent=MS.gene049615.t1
chr3.2 CDS 59091228 59091247 59091228 ID=cds.MS.gene049615.t1;Parent=MS.gene049615.t1
chr3.2 exon 59090764 59091151 59090764 ID=MS.gene049615.t1.exon2;Parent=MS.gene049615.t1
chr3.2 CDS 59090764 59091151 59090764 ID=cds.MS.gene049615.t1;Parent=MS.gene049615.t1
Gene Sequence

>MS.gene049615

ATGAAATCTGCTTTCCCATAGTATCCATTATCTTTTGAAATTCAGCATTGAATTCACTATGATAACTTAACTTCTTCGAGCAGAATTTGATCACAGTTTCACCATTATTGACAATGGTGGTCGGGTCTATGCTATGAGACATGGAAGGAAAGTGCCGAAACTCAACAGGCCCCCTGATCAGCGTAAGGCACTCATCCGTGGCCTAACGACACAGCTCCTTAAATATGGCCGCATCAAGACCACCAGGGCAAGAGCCAGTGCTATTAGGAAGTATGTTGATAAAATGATCACTCTTGCAAAAGATGGTTCTCTACATAAAAGGAGACAAGCTCTTGGCTTCATCTATGAGAAGCAGATTGTTCATGCTTTATTCGCAGAGGTTCCAGAACGTTATGGTGAAAGAAATGGTGGTTATACAAGAATTATAAGAACCCTGCCAAGGCGGGGTGATAATGCACCTATGGCATACATTGAACTTGTGTAA

Protein sequence

>MS.gene049615.t1

MKSAFPYFTIIDNGGRVYAMRHGRKVPKLNRPPDQRKALIRGLTTQLLKYGRIKTTRARASAIRKYVDKMITLAKDGSLHKRRQALGFIYEKQIVHALFAEVPERYGERNGGYTRIIRTLPRRGDNAPMAYIELV