AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene82756

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene82756.t1 MTR_3g052330 97.273 110 2 1 1 109 1 110 5.81e-74 219
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene82756.t1 AT4G26950 35.762 151 57 6 10 133 7 144 7.36e-18 74.7
MS.gene82756.t1 AT4G26950 35.762 151 57 6 10 133 7 144 7.36e-18 74.7
MS.gene82756.t1 AT4G21970 37.615 109 21 2 65 134 46 146 1.01e-12 61.6

Find 24 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTGATTGGTCAAAGATTTA+TGG 0.141396 3.1:+38884738 MS.gene82756:CDS
TGAACTTCAGATATGTAATT+TGG 0.244628 3.1:-38884567 None:intergenic
GATAGTTCCTTCTTCTCCTT+TGG 0.307953 3.1:-38884594 None:intergenic
AGGATAAATATAGTCTAATT+AGG 0.329079 3.1:+38884466 MS.gene82756:CDS
CCACTATTAGTCCTTGGAAT+TGG 0.340392 3.1:-38884651 None:intergenic
CCATAAATCTTTGACCAATC+AGG 0.345179 3.1:-38884738 None:intergenic
ATTCTTGCAGCTGTTGGAAT+TGG 0.357285 3.1:-38884624 None:intergenic
GACCAATCAGGAATGTTAAC+TGG 0.371584 3.1:-38884726 None:intergenic
CCCTTGATCACAATGATTCA+AGG 0.409615 3.1:-38885040 None:intergenic
GGTGTTGGGAGGACACTTAA+AGG 0.420120 3.1:+38884969 MS.gene82756:intron
GGAATCATTCTTGCAGCTGT+TGG 0.438949 3.1:-38884630 None:intergenic
CTACTTCCACTATTAGTCCT+TGG 0.468495 3.1:-38884657 None:intergenic
CCAATTCCAAGGACTAATAG+TGG 0.477316 3.1:+38884651 MS.gene82756:CDS
CACCAGTTAACATTCCTGAT+TGG 0.491163 3.1:+38884724 MS.gene82756:CDS
TCACAAGCCAAAGGAGAAGA+AGG 0.514182 3.1:+38884587 MS.gene82756:CDS
TTAGGAAGCATAGTGAGCTA+TGG 0.542528 3.1:+38884484 MS.gene82756:CDS
TGCTGATTGTTGAAAAGCCA+TGG 0.557964 3.1:-38884703 None:intergenic
CAAGAATGATTCCAATTCCA+AGG 0.572753 3.1:+38884640 MS.gene82756:CDS
TTGGGAGGACACTTAAAGGT+AGG 0.583242 3.1:+38884973 MS.gene82756:CDS
GTAGGGATCTTAGCAAAATG+AGG 0.584011 3.1:+38884991 MS.gene82756:CDS
TAATTTATCTCATGAAACCA+TGG 0.591728 3.1:+38884686 MS.gene82756:CDS
GGAAGCATAGTGAGCTATGG+AGG 0.596588 3.1:+38884487 MS.gene82756:CDS
TGGGAGGACACTTAAAGGTA+GGG 0.611531 3.1:+38884974 MS.gene82756:CDS
ATCTGAAGTTCACAAGCCAA+AGG 0.623312 3.1:+38884578 MS.gene82756:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGGATAAATATAGTCTAATT+AGG + chr3.1:38884466-38884485 MS.gene82756:CDS 20.0%
!!! ATTTTGAAGAAGAAGAAATT+TGG + chr3.1:38884526-38884545 MS.gene82756:CDS 20.0%
!!! TTTTGAAGAAGAAGAAATTT+GGG + chr3.1:38884527-38884546 MS.gene82756:CDS 20.0%
! AATGAATATGGTTACTATGA+AGG + chr3.1:38884807-38884826 MS.gene82756:intron 25.0%
! CACATGAAATTATTTCAAGA+AGG + chr3.1:38884907-38884926 MS.gene82756:intron 25.0%
! CTTCTTGAAATAATTTCATG+TGG - chr3.1:38884909-38884928 None:intergenic 25.0%
! TAATTTATCTCATGAAACCA+TGG + chr3.1:38884686-38884705 MS.gene82756:CDS 25.0%
! TGAACTTCAGATATGTAATT+TGG - chr3.1:38884570-38884589 None:intergenic 25.0%
!! GTTTCTAGGTATAATGAATA+TGG + chr3.1:38884795-38884814 MS.gene82756:intron 25.0%
!!! TCTTCATTTTCTGTTTTTGA+AGG + chr3.1:38884948-38884967 MS.gene82756:intron 25.0%
AATTCTGTCCTCATAAAAAC+TGG + chr3.1:38885014-38885033 MS.gene82756:CDS 30.0%
CTTGAAATAATTTCATGTGG+TGG - chr3.1:38884906-38884925 None:intergenic 30.0%
GATGATGAAGATGTTTATCA+TGG + chr3.1:38884831-38884850 MS.gene82756:intron 30.0%
TGAAATTATTTCAAGAAGGC+TGG + chr3.1:38884911-38884930 MS.gene82756:intron 30.0%
! ATGATGATGAGTATAGTACT+AGG + chr3.1:38884877-38884896 MS.gene82756:intron 30.0%
! TGATGATGAGTATAGTACTA+GGG + chr3.1:38884878-38884897 MS.gene82756:intron 30.0%
!! ACAAAACAAGAGTACTAAGA+AGG + chr3.1:38884773-38884792 MS.gene82756:intron 30.0%
!!! TTTCTGTTTTTGAAGGTGTT+GGG + chr3.1:38884955-38884974 MS.gene82756:intron 30.0%
!!! TTTTCTGTTTTTGAAGGTGT+TGG + chr3.1:38884954-38884973 MS.gene82756:intron 30.0%
CAAGAATGATTCCAATTCCA+AGG + chr3.1:38884640-38884659 MS.gene82756:CDS 35.0%
CCATAAATCTTTGACCAATC+AGG - chr3.1:38884741-38884760 None:intergenic 35.0%
GATGAAGATGTTTATCATGG+TGG + chr3.1:38884834-38884853 MS.gene82756:intron 35.0%
! AGAGTACTAAGAAGGTTTCT+AGG + chr3.1:38884781-38884800 MS.gene82756:intron 35.0%
! CAAGGAAACCAGTTTTTATG+AGG - chr3.1:38885025-38885044 None:intergenic 35.0%
! CCTGATTGGTCAAAGATTTA+TGG + chr3.1:38884738-38884757 MS.gene82756:CDS 35.0%
ATTCTTGCAGCTGTTGGAAT+TGG - chr3.1:38884627-38884646 None:intergenic 40.0%
CACCAGTTAACATTCCTGAT+TGG + chr3.1:38884724-38884743 MS.gene82756:CDS 40.0%
CCAATTCCAAGGACTAATAG+TGG + chr3.1:38884651-38884670 MS.gene82756:CDS 40.0%
CCACTATTAGTCCTTGGAAT+TGG - chr3.1:38884654-38884673 None:intergenic 40.0%
CTACTTCCACTATTAGTCCT+TGG - chr3.1:38884660-38884679 None:intergenic 40.0%
GACCAATCAGGAATGTTAAC+TGG - chr3.1:38884729-38884748 None:intergenic 40.0%
GATAGTTCCTTCTTCTCCTT+TGG - chr3.1:38884597-38884616 None:intergenic 40.0%
GTAGGGATCTTAGCAAAATG+AGG + chr3.1:38884991-38885010 MS.gene82756:CDS 40.0%
TTATTTCAAGAAGGCTGGCA+AGG + chr3.1:38884916-38884935 MS.gene82756:intron 40.0%
! AGATGTTTATCATGGTGGTG+AGG + chr3.1:38884839-38884858 MS.gene82756:intron 40.0%
! ATCTGAAGTTCACAAGCCAA+AGG + chr3.1:38884578-38884597 MS.gene82756:CDS 40.0%
! TGCTGATTGTTGAAAAGCCA+TGG - chr3.1:38884706-38884725 None:intergenic 40.0%
! TTAGGAAGCATAGTGAGCTA+TGG + chr3.1:38884484-38884503 MS.gene82756:CDS 40.0%
GGAATCATTCTTGCAGCTGT+TGG - chr3.1:38884633-38884652 None:intergenic 45.0%
TCACAAGCCAAAGGAGAAGA+AGG + chr3.1:38884587-38884606 MS.gene82756:CDS 45.0%
TGGGAGGACACTTAAAGGTA+GGG + chr3.1:38884974-38884993 MS.gene82756:CDS 45.0%
TTGGGAGGACACTTAAAGGT+AGG + chr3.1:38884973-38884992 MS.gene82756:CDS 45.0%
!!! CTGTTTTTGAAGGTGTTGGG+AGG + chr3.1:38884958-38884977 MS.gene82756:intron 45.0%
! GGAAGCATAGTGAGCTATGG+AGG + chr3.1:38884487-38884506 MS.gene82756:CDS 50.0%
! GGTGTTGGGAGGACACTTAA+AGG + chr3.1:38884969-38884988 MS.gene82756:intron 50.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 38884462 38885055 38884462 ID=MS.gene82756
chr3.1 mRNA 38884462 38885055 38884462 ID=MS.gene82756.t1;Parent=MS.gene82756
chr3.1 exon 38884462 38884783 38884462 ID=MS.gene82756.t1.exon1;Parent=MS.gene82756.t1
chr3.1 CDS 38884462 38884783 38884462 ID=cds.MS.gene82756.t1;Parent=MS.gene82756.t1
chr3.1 exon 38884970 38885055 38884970 ID=MS.gene82756.t1.exon2;Parent=MS.gene82756.t1
chr3.1 CDS 38884970 38885055 38884970 ID=cds.MS.gene82756.t1;Parent=MS.gene82756.t1
Gene Sequence

>MS.gene82756

ATGGAGGATAAATATAGTCTAATTAGGAAGCATAGTGAGCTATGGAGGACATTGAGAGATGAAGATTTTGAAGAAGAAGAAATTTGGGATGTAGTGAAAGAAAGACCAAATTACATATCTGAAGTTCACAAGCCAAAGGAGAAGAAGGAACTATCTTCTCTTCCAATTCCAACAGCTGCAAGAATGATTCCAATTCCAAGGACTAATAGTGGAAGTAGTAGTGCTAATTTATCTCATGAAACCATGGCTTTTCAACAATCAGCACCAGTTAACATTCCTGATTGGTCAAAGATTTATGGCAATAATAATAAACAAAACAAGAGTACTAAGAAGGTTTCTAGGTATAATGAATATGGTTACTATGAAGGTGATGATGAAGATGTTTATCATGGTGGTGAGGATGAAGAAGATGATGATGATGATGAGTATAGTACTAGGGTTCCACCACATGAAATTATTTCAAGAAGGCTGGCAAGGAGTCAAATATCTTCATTTTCTGTTTTTGAAGGTGTTGGGAGGACACTTAAAGGTAGGGATCTTAGCAAAATGAGGAATTCTGTCCTCATAAAAACTGGTTTCCTTGAATCATTGTGA
Protein sequence

>MS.gene82756.t1

MEDKYSLIRKHSELWRTLRDEDFEEEEIWDVVKERPNYISEVHKPKEKKELSSLPIPTAARMIPIPRTNSGSSSANLSHETMAFQQSAPVNIPDWSKIYGNNNKQNKSVGRTLKGRDLSKMRNSVLIKTGFLESL