AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene06970


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene06970.t1 MTR_2g014120 96.517 201 7 0 1 201 1 201 5.68e-139 388
MS.gene06970.t1 MTR_7g108540 96.517 201 7 0 1 201 1 201 1.19e-138 387
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene06970.t1 AT2G27490 74.627 201 51 0 1 201 1 201 7.71e-109 311
MS.gene06970.t1 AT2G27490 74.627 201 51 0 1 201 1 201 7.71e-109 311
MS.gene06970.t1 AT2G27490 74.627 201 51 0 1 201 1 201 7.71e-109 311
MS.gene06970.t1 AT2G27490 74.627 201 51 0 1 201 1 201 7.71e-109 311

Find 53 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTCTCTGAATCTGTGTTTC+AGG 0.221958 7.3:+6404907 None:intergenic
ATCAACCCACACAACAATTA+TGG 0.226242 7.3:+6404930 None:intergenic
ATATATCCTCGGGGATCTTT+TGG 0.227206 7.3:-6405044 MS.gene06970:CDS
TTGAGAAATTGACGCTTATC+AGG 0.303211 7.3:+6405168 None:intergenic
TGAACAATTTCAGAACGTTT+TGG 0.336190 7.3:-6404758 MS.gene06970:CDS
AGATGCCGCTGGATGGTAAA+AGG 0.351308 7.3:-6404831 MS.gene06970:CDS
TGACGTCCCTTTGTTATTTG+AGG 0.363223 7.3:-6404977 MS.gene06970:CDS
AAGATCCCCGAGGATATATA+TGG 0.384217 7.3:+6405048 None:intergenic
ATAGAATAAATGAGGATTGT+TGG 0.388584 7.3:-6405506 None:intergenic
ACTACATCAGCGTCGACAAC+AGG 0.406465 7.3:+6405419 None:intergenic
GTCGTGAGACTTGAATAAAT+TGG 0.409640 7.3:+6405445 None:intergenic
TCAACCCACACAACAATTAT+GGG 0.455800 7.3:+6404931 None:intergenic
TACTAGGATGCGTTGAAGAA+AGG 0.463219 7.3:-6405294 MS.gene06970:intron
TTGGCTCCATATATATCCTC+GGG 0.483634 7.3:-6405054 MS.gene06970:CDS
ACTAGGATGCGTTGAAGAAA+GGG 0.487032 7.3:-6405293 MS.gene06970:intron
AACACAGATTCAGAGACTAT+TGG 0.491505 7.3:-6404902 MS.gene06970:CDS
ATAAGCGTCAATTTCTCAAT+CGG 0.497613 7.3:-6405164 MS.gene06970:intron
CTCATACCATGTCAAGGGTC+CGG 0.506695 7.3:+6404726 None:intergenic
GTTGGCTCCATATATATCCT+CGG 0.510068 7.3:-6405055 MS.gene06970:CDS
ATGAGGATTGTTGGACTGAC+TGG 0.512619 7.3:-6405497 MS.gene06970:CDS
CGAAGCCCATAATTGTTGTG+TGG 0.541419 7.3:-6404936 MS.gene06970:CDS
TGAAGAAAGGGAGCGGCGGA+TGG 0.543910 7.3:-6405281 MS.gene06970:CDS
TCTTAGCCTCAAATAACAAA+GGG 0.545675 7.3:+6404971 None:intergenic
AGACTTGAATAAATTGGAAA+CGG 0.547925 7.3:+6405451 None:intergenic
AAAACGATTTGGCCAAGTCT+GGG 0.565501 7.3:+6405198 None:intergenic
GGTCAATGCTCAGATGCCGC+TGG 0.566232 7.3:-6404842 MS.gene06970:CDS
TTTGGGAAGTTGTGAAGCTG+TGG 0.578755 7.3:-6405026 MS.gene06970:CDS
CGAGGAGGATGGTCGGAACA+AGG 0.580768 7.3:-6404863 MS.gene06970:CDS
GTTGTGAAGCTGTGGTTGAA+AGG 0.585087 7.3:-6405018 MS.gene06970:CDS
ATCTTAGCCTCAAATAACAA+AGG 0.586193 7.3:+6404970 None:intergenic
AGTTGTTGCCGCATTTGGGG+AGG 0.589535 7.3:-6405253 MS.gene06970:CDS
CCAAAACTCATACCATGTCA+AGG 0.598156 7.3:+6404720 None:intergenic
AGTCTAGCGAGGAGGATGGT+CGG 0.598811 7.3:-6404870 MS.gene06970:CDS
GAAGTTAACAGACCCAGACT+TGG 0.601753 7.3:-6405210 MS.gene06970:CDS
GGGTCACCGGACCCTTGACA+TGG 0.606552 7.3:-6404732 MS.gene06970:intron
AAAAGTTGTTGCCGCATTTG+GGG 0.607962 7.3:-6405256 MS.gene06970:CDS
GAGGAAATTCTACTAGACAA+TGG 0.608332 7.3:-6405234 MS.gene06970:CDS
GATAAGTCTAGCGAGGAGGA+TGG 0.608356 7.3:-6404874 MS.gene06970:CDS
AATGCTCAGATGCCGCTGGA+TGG 0.610763 7.3:-6404838 MS.gene06970:CDS
GAAGCCCATAATTGTTGTGT+GGG 0.612377 7.3:-6404935 MS.gene06970:CDS
GCTGTGGTTGAAAGGTTACA+AGG 0.613383 7.3:-6405010 MS.gene06970:CDS
TAGAATTTCCTCCCCAAATG+CGG 0.615844 7.3:+6405245 None:intergenic
CAAAACTCATACCATGTCAA+GGG 0.641999 7.3:+6404721 None:intergenic
AGGATTGTTGGACTGACTGG+TGG 0.644760 7.3:-6405494 MS.gene06970:CDS
GATGCGTTGAAGAAAGGGAG+CGG 0.653195 7.3:-6405288 MS.gene06970:CDS
GGCAAGAGATAAGTCTAGCG+AGG 0.657006 7.3:-6404881 MS.gene06970:CDS
GATATAGTAATCGACAACAC+TGG 0.662812 7.3:-6404799 MS.gene06970:CDS
AAGAGATAAGTCTAGCGAGG+AGG 0.683714 7.3:-6404878 MS.gene06970:CDS
GCGTTGAAGAAAGGGAGCGG+CGG 0.690363 7.3:-6405285 MS.gene06970:CDS
CTACATCAGCGTCGACAACA+GGG 0.699636 7.3:+6405420 None:intergenic
TGGCTCCATATATATCCTCG+GGG 0.732858 7.3:-6405053 MS.gene06970:CDS
CTGACTGGTGGAATAGCAAG+TGG 0.743435 7.3:-6405482 MS.gene06970:CDS
AACTTCCCAAAAGATCCCCG+AGG 0.762062 7.3:+6405038 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTACTTTATTTTTGAAGTTT+CGG - chr7.3:6405044-6405063 MS.gene06970:CDS 15.0%
! AAATTATAAGCAAAGCCAAA+AGG + chr7.3:6404787-6404806 None:intergenic 25.0%
! AGACTTGAATAAATTGGAAA+CGG + chr7.3:6404695-6404714 None:intergenic 25.0%
! GGTATTCTAAATTTATGTTG+TGG - chr7.3:6405000-6405019 MS.gene06970:CDS 25.0%
! TTATTGGGATTTGAATTACT+AGG - chr7.3:6404833-6404852 MS.gene06970:CDS 25.0%
!!! TTTGGCTTTGCTTATAATTT+GGG - chr7.3:6404787-6404806 MS.gene06970:CDS 25.0%
!!! TTTTGGCTTTGCTTATAATT+TGG - chr7.3:6404786-6404805 MS.gene06970:CDS 25.0%
ATAAGCGTCAATTTCTCAAT+CGG - chr7.3:6404979-6404998 MS.gene06970:CDS 30.0%
ATCTTAGCCTCAAATAACAA+AGG + chr7.3:6405176-6405195 None:intergenic 30.0%
TCTTAGCCTCAAATAACAAA+GGG + chr7.3:6405175-6405194 None:intergenic 30.0%
! TGAACAATTTCAGAACGTTT+TGG - chr7.3:6405385-6405404 MS.gene06970:intron 30.0%
!! TTGGCTTTGCTTATAATTTG+GGG - chr7.3:6404788-6404807 MS.gene06970:CDS 30.0%
!!! AATTTCAGAACGTTTTGGTT+CGG - chr7.3:6405390-6405409 MS.gene06970:intron 30.0%
!!! TAATGGTTGTTTTAGGTTGT+TGG - chr7.3:6405070-6405089 MS.gene06970:intron 30.0%
!!! TTCGTGTTTTTTTCACCTTT+TGG - chr7.3:6404769-6404788 MS.gene06970:CDS 30.0%
!!! TTTTGAAGTTTCGGTTGTAA+TGG - chr7.3:6405053-6405072 MS.gene06970:CDS 30.0%
AAAAAAGTTGTTGCCGCATT+TGG - chr7.3:6404885-6404904 MS.gene06970:CDS 35.0%
AAAAAGTTGTTGCCGCATTT+GGG - chr7.3:6404886-6404905 MS.gene06970:CDS 35.0%
AACACAGATTCAGAGACTAT+TGG - chr7.3:6405241-6405260 MS.gene06970:CDS 35.0%
ATCAACCCACACAACAATTA+TGG + chr7.3:6405216-6405235 None:intergenic 35.0%
CAAAACTCATACCATGTCAA+GGG + chr7.3:6405425-6405444 None:intergenic 35.0%
GAGGAAATTCTACTAGACAA+TGG - chr7.3:6404909-6404928 MS.gene06970:CDS 35.0%
GATATAGTAATCGACAACAC+TGG - chr7.3:6405344-6405363 MS.gene06970:intron 35.0%
GTCGTGAGACTTGAATAAAT+TGG + chr7.3:6404701-6404720 None:intergenic 35.0%
TCAACCCACACAACAATTAT+GGG + chr7.3:6405215-6405234 None:intergenic 35.0%
TTGAGAAATTGACGCTTATC+AGG + chr7.3:6404978-6404997 None:intergenic 35.0%
!! TCGGTTGTAATGGTTGTTTT+AGG - chr7.3:6405063-6405082 MS.gene06970:intron 35.0%
!!! ATTTCAGAACGTTTTGGTTC+GGG - chr7.3:6405391-6405410 MS.gene06970:intron 35.0%
AAAAGTTGTTGCCGCATTTG+GGG - chr7.3:6404887-6404906 MS.gene06970:CDS 40.0%
AAGATCCCCGAGGATATATA+TGG + chr7.3:6405098-6405117 None:intergenic 40.0%
ACTAGGATGCGTTGAAGAAA+GGG - chr7.3:6404850-6404869 MS.gene06970:CDS 40.0%
AGTCTCTGAATCTGTGTTTC+AGG + chr7.3:6405239-6405258 None:intergenic 40.0%
ATTCTCGCTTCATTTACCTC+AGG - chr7.3:6405470-6405489 MS.gene06970:CDS 40.0%
CAGGATCAGCAAAAACGATT+TGG + chr7.3:6404959-6404978 None:intergenic 40.0%
CATACATAGAACAACACCTG+AGG + chr7.3:6405489-6405508 None:intergenic 40.0%
CCAAAACTCATACCATGTCA+AGG + chr7.3:6405426-6405445 None:intergenic 40.0%
GAAGCCCATAATTGTTGTGT+GGG - chr7.3:6405208-6405227 MS.gene06970:CDS 40.0%
TACTAGGATGCGTTGAAGAA+AGG - chr7.3:6404849-6404868 MS.gene06970:CDS 40.0%
TAGAATTTCCTCCCCAAATG+CGG + chr7.3:6404901-6404920 None:intergenic 40.0%
TTGGCTCCATATATATCCTC+GGG - chr7.3:6405089-6405108 MS.gene06970:intron 40.0%
! AAAAACGATTTGGCCAAGTC+TGG + chr7.3:6404949-6404968 None:intergenic 40.0%
! AAAACGATTTGGCCAAGTCT+GGG + chr7.3:6404948-6404967 None:intergenic 40.0%
! ATATATCCTCGGGGATCTTT+TGG - chr7.3:6405099-6405118 MS.gene06970:intron 40.0%
! CCTTGACATGGTATGAGTTT+TGG - chr7.3:6405423-6405442 MS.gene06970:CDS 40.0%
! GTTGGCTCCATATATATCCT+CGG - chr7.3:6405088-6405107 MS.gene06970:intron 40.0%
! TATATCCTCGGGGATCTTTT+GGG - chr7.3:6405100-6405119 MS.gene06970:intron 40.0%
! TTACTCCTTTTACCATCCAG+CGG + chr7.3:6405320-6405339 None:intergenic 40.0%
!! TGACGTCCCTTTGTTATTTG+AGG - chr7.3:6405166-6405185 MS.gene06970:CDS 40.0%
AAGAGATAAGTCTAGCGAGG+AGG - chr7.3:6405265-6405284 MS.gene06970:CDS 45.0%
AATAACCACCGACCATGAGA+GGG + chr7.3:6404818-6404837 None:intergenic 45.0%
ATGAGGATTGTTGGACTGAC+TGG - chr7.3:6404646-6404665 MS.gene06970:CDS 45.0%
ATTTGGGGAAAACCCTCTCA+TGG - chr7.3:6404803-6404822 MS.gene06970:CDS 45.0%
CGAAGCCCATAATTGTTGTG+TGG - chr7.3:6405207-6405226 MS.gene06970:CDS 45.0%
GAAGTTAACAGACCCAGACT+TGG - chr7.3:6404933-6404952 MS.gene06970:CDS 45.0%
GCTGTGGTTGAAAGGTTACA+AGG - chr7.3:6405133-6405152 MS.gene06970:intron 45.0%
GTTGTGAAGCTGTGGTTGAA+AGG - chr7.3:6405125-6405144 MS.gene06970:intron 45.0%
TCTCATGGTCGGTGGTTATT+GGG - chr7.3:6404818-6404837 MS.gene06970:CDS 45.0%
TGGCTCCATATATATCCTCG+GGG - chr7.3:6405090-6405109 MS.gene06970:intron 45.0%
TTTGGGAAGTTGTGAAGCTG+TGG - chr7.3:6405117-6405136 MS.gene06970:intron 45.0%
!! GGTATGAGTTTTGGCGTTCT+AGG - chr7.3:6405432-6405451 MS.gene06970:CDS 45.0%
AACTTCCCAAAAGATCCCCG+AGG + chr7.3:6405108-6405127 None:intergenic 50.0%
AGATGCCGCTGGATGGTAAA+AGG - chr7.3:6405312-6405331 MS.gene06970:intron 50.0%
AGGATTGTTGGACTGACTGG+TGG - chr7.3:6404649-6404668 MS.gene06970:CDS 50.0%
CAATAACCACCGACCATGAG+AGG + chr7.3:6404819-6404838 None:intergenic 50.0%
CTCATACCATGTCAAGGGTC+CGG + chr7.3:6405420-6405439 None:intergenic 50.0%
CTCTCATGGTCGGTGGTTAT+TGG - chr7.3:6404817-6404836 MS.gene06970:CDS 50.0%
CTGACTGGTGGAATAGCAAG+TGG - chr7.3:6404661-6404680 MS.gene06970:intron 50.0%
GATAAGTCTAGCGAGGAGGA+TGG - chr7.3:6405269-6405288 MS.gene06970:CDS 50.0%
GATGCGTTGAAGAAAGGGAG+CGG - chr7.3:6404855-6404874 MS.gene06970:CDS 50.0%
GGCAAGAGATAAGTCTAGCG+AGG - chr7.3:6405262-6405281 MS.gene06970:CDS 50.0%
!! ACTACATCAGCGTCGACAAC+AGG + chr7.3:6404727-6404746 None:intergenic 50.0%
!! CTACATCAGCGTCGACAACA+GGG + chr7.3:6404726-6404745 None:intergenic 50.0%
!! GAGTTTTGGCGTTCTAGGCA+GGG - chr7.3:6405437-6405456 MS.gene06970:CDS 50.0%
!! TGAGTTTTGGCGTTCTAGGC+AGG - chr7.3:6405436-6405455 MS.gene06970:CDS 50.0%
!!! AACGTTTTGGTTCGGGTCAC+CGG - chr7.3:6405398-6405417 MS.gene06970:intron 50.0%
AATGCTCAGATGCCGCTGGA+TGG - chr7.3:6405305-6405324 MS.gene06970:intron 55.0%
AGTCTAGCGAGGAGGATGGT+CGG - chr7.3:6405273-6405292 MS.gene06970:CDS 55.0%
AGTTGTTGCCGCATTTGGGG+AGG - chr7.3:6404890-6404909 MS.gene06970:CDS 55.0%
GAAAACCCTCTCATGGTCGG+TGG - chr7.3:6404810-6404829 MS.gene06970:CDS 55.0%
GGGGAAAACCCTCTCATGGT+CGG - chr7.3:6404807-6404826 MS.gene06970:CDS 55.0%
CGAGGAGGATGGTCGGAACA+AGG - chr7.3:6405280-6405299 MS.gene06970:CDS 60.0%
GCGTTGAAGAAAGGGAGCGG+CGG - chr7.3:6404858-6404877 MS.gene06970:CDS 60.0%
GGTCAATGCTCAGATGCCGC+TGG - chr7.3:6405301-6405320 MS.gene06970:intron 60.0%
TGAAGAAAGGGAGCGGCGGA+TGG - chr7.3:6404862-6404881 MS.gene06970:CDS 60.0%
GGGTCACCGGACCCTTGACA+TGG - chr7.3:6405411-6405430 MS.gene06970:intron 65.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 6404646 6405519 6404646 ID=MS.gene06970
chr7.3 mRNA 6404646 6405519 6404646 ID=MS.gene06970.t1;Parent=MS.gene06970
chr7.3 exon 6405412 6405519 6405412 ID=MS.gene06970.t1.exon1;Parent=MS.gene06970.t1
chr7.3 CDS 6405412 6405519 6405412 ID=cds.MS.gene06970.t1;Parent=MS.gene06970.t1
chr7.3 exon 6405165 6405310 6405165 ID=MS.gene06970.t1.exon2;Parent=MS.gene06970.t1
chr7.3 CDS 6405165 6405310 6405165 ID=cds.MS.gene06970.t1;Parent=MS.gene06970.t1
chr7.3 exon 6404733 6405080 6404733 ID=MS.gene06970.t1.exon3;Parent=MS.gene06970.t1
chr7.3 CDS 6404733 6405080 6404733 ID=cds.MS.gene06970.t1;Parent=MS.gene06970.t1
chr7.3 exon 6404646 6404673 6404646 ID=MS.gene06970.t1.exon4;Parent=MS.gene06970.t1
chr7.3 CDS 6404646 6404673 6404646 ID=cds.MS.gene06970.t1;Parent=MS.gene06970.t1
Gene Sequence

>MS.gene06970

ATGAGGATTGTTGGACTGACTGGTGGAATAGCAAGTGGCAAGAGCACCGTTTCCAATTTATTCAAGTCTCACGACATCCCTGTTGTCGACGCTGATGTAGTTGCTCGTGTATGTTTCTTTTTCTTCGTGTTTTTTTCACCTTTTGGCTTTGCTTATAATTTGGGGAAAACCCTCTCATGGTCGGTGGTTATTGGGATTTGAATTACTAGGATGCGTTGAAGAAAGGGAGCGGCGGATGGAAAAAAGTTGTTGCCGCATTTGGGGAGGAAATTCTACTAGACAATGGAGAAGTTAACAGACCCAGACTTGGCCAAATCGTTTTTGCTGATCCTGATAAGCGTCAATTTCTCAATCGGTATTCTAAATTTATGTTGTGGTAATTATATTTGATTTCAATTTTACTTTATTTTTGAAGTTTCGGTTGTAATGGTTGTTTTAGGTTGTTGGCTCCATATATATCCTCGGGGATCTTTTGGGAAGTTGTGAAGCTGTGGTTGAAAGGTTACAAGGTCATTGTTCTTGACGTCCCTTTGTTATTTGAGGCTAAGATTGACAAGTTCACGAAGCCCATAATTGTTGTGTGGGTTGATCCTGAAACACAGATTCAGAGACTATTGGCAAGAGATAAGTCTAGCGAGGAGGATGGTCGGAACAAGGTCAATGCTCAGATGCCGCTGGATGGTAAAAGGAGTAAAGCTGATATAGTAATCGACAACACTGGTTCACTAGATGACTTGAATGAACAATTTCAGAACGTTTTGGTTCGGGTCACCGGACCCTTGACATGGTATGAGTTTTGGCGTTCTAGGCAGGGAGTCTCAATCATTCTCGCTTCATTTACCTCAGGTGTTGTTCTATGTATGAAGACATTTAA

Protein sequence

>MS.gene06970.t1

MRIVGLTGGIASGKSTVSNLFKSHDIPVVDADVVARDALKKGSGGWKKVVAAFGEEILLDNGEVNRPRLGQIVFADPDKRQFLNRLLAPYISSGIFWEVVKLWLKGYKVIVLDVPLLFEAKIDKFTKPIIVVWVDPETQIQRLLARDKSSEEDGRNKVNAQMPLDGKRSKADIVIDNTGSLDDLNEQFQNVLVRVTGPLTWCCSMYEDI