AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene061159


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene061159.t1 MTR_1g100800 94.800 250 8 2 1 249 1 246 9.31e-174 478
MS.gene061159.t1 MTR_8g094540 38.889 198 117 2 53 246 34 231 9.07e-43 146
MS.gene061159.t1 MTR_3g096890 35.808 229 135 5 29 246 15 242 1.56e-37 132
MS.gene061159.t1 MTR_3g096890 36.486 222 129 5 36 246 86 306 1.80e-36 131
MS.gene061159.t1 MTR_3g096890 38.144 97 56 2 154 246 139 235 2.10e-13 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene061159.t1 AT5G52420 50.602 249 112 3 1 247 1 240 7.13e-86 256
MS.gene061159.t1 AT5G23920 37.168 226 138 3 24 247 3 226 4.99e-48 159
MS.gene061159.t1 AT1G27990 38.693 199 117 3 53 246 47 245 9.72e-40 139

Find 28 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTATGAAAACATAAAGTTTA+AGG 0.166391 1.4:+77901615 None:intergenic
TCATTCTTTAATTTACTTTC+TGG 0.188746 1.4:+77901207 None:intergenic
AGCATAGTGGTTCTTATAAA+AGG 0.221115 1.4:-77901343 MS.gene061159:CDS
TCAATTTCTTGTTCTTCTTT+TGG 0.274467 1.4:+77901899 None:intergenic
ACAGGAACAAAAGCTCTTAT+TGG 0.282027 1.4:+77901437 None:intergenic
AGCACTTGCTGTGGCTAATA+TGG 0.317291 1.4:-77901306 MS.gene061159:CDS
AGTACAAATCCAAAATCTTC+AGG 0.339370 1.4:+77901731 None:intergenic
CTCCTTGAATTATAAATAAC+AGG 0.341255 1.4:+77901419 None:intergenic
TGAGATTATCCTTAAGTGAT+TGG 0.378254 1.4:+77901858 None:intergenic
ATGGTTAGCCCTGAAGATTT+TGG 0.385009 1.4:-77901740 MS.gene061159:CDS
CAGCTAAACAATTGAGTTGT+CGG 0.396906 1.4:+77901789 None:intergenic
TTCCTGTTATTTATAATTCA+AGG 0.412603 1.4:-77901421 MS.gene061159:CDS
TGGAATATTTGAAGGTGATA+AGG 0.427078 1.4:-77901549 MS.gene061159:CDS
TCTGGTGGAGTTGGACCAAC+TGG 0.442420 1.4:-77901938 MS.gene061159:CDS
AAAACTCTAGGAAGATAAAC+AGG 0.453140 1.4:+77901248 None:intergenic
ACAACAAGACCAATCACTTA+AGG 0.462684 1.4:-77901867 MS.gene061159:CDS
CCATGTAAAATATATGCTAT+AGG 0.465903 1.4:+77901569 None:intergenic
ACTATGCTCTTCACCAACCT+TGG 0.496587 1.4:+77901358 None:intergenic
GTACAAATCCAAAATCTTCA+GGG 0.500340 1.4:+77901732 None:intergenic
TCTTATAAAAGGATTTATGC+TGG 0.505951 1.4:-77901332 MS.gene061159:CDS
AATTGAGTTGTCGGAATGAG+AGG 0.532641 1.4:+77901798 None:intergenic
AGAGATGAGATTTCCAAGGT+TGG 0.547974 1.4:-77901371 MS.gene061159:CDS
GTTTAGAGATGAGATTTCCA+AGG 0.593748 1.4:-77901375 MS.gene061159:CDS
AGGCTAATGTCACAGCCAGT+TGG 0.608232 1.4:+77901923 None:intergenic
TGCTGGAAGAGCACTTGCTG+TGG 0.614632 1.4:-77901315 MS.gene061159:CDS
ATATTTGAAGGTGATAAGGA+AGG 0.616957 1.4:-77901545 MS.gene061159:CDS
AAGGTTGGTGAAGAGCATAG+TGG 0.672560 1.4:-77901356 MS.gene061159:CDS
CTGTTATTTATAATTCAAGG+AGG 0.675275 1.4:-77901418 MS.gene061159:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CTATGAAAACATAAAGTTTA+AGG + chr1.4:77901543-77901562 None:intergenic 20.0%
!!! ATTTTACATGGAATATTTGA+AGG - chr1.4:77901598-77901617 MS.gene061159:CDS 20.0%
!!! CTTAAACTTTATGTTTTCAT+AGG - chr1.4:77901541-77901560 MS.gene061159:CDS 20.0%
!!! TTCCTGTTATTTATAATTCA+AGG - chr1.4:77901734-77901753 MS.gene061159:CDS 20.0%
! CCATGTAAAATATATGCTAT+AGG + chr1.4:77901589-77901608 None:intergenic 25.0%
! CTCCTTGAATTATAAATAAC+AGG + chr1.4:77901739-77901758 None:intergenic 25.0%
! TCTTATAAAAGGATTTATGC+TGG - chr1.4:77901823-77901842 MS.gene061159:CDS 25.0%
!! AAAATAGGTTGTTCTTTTGA+AGG + chr1.4:77901502-77901521 None:intergenic 25.0%
!! AAATAGGTTGTTCTTTTGAA+GGG + chr1.4:77901501-77901520 None:intergenic 25.0%
!! CCTATAGCATATATTTTACA+TGG - chr1.4:77901586-77901605 MS.gene061159:CDS 25.0%
!! CTGTTATTTATAATTCAAGG+AGG - chr1.4:77901737-77901756 MS.gene061159:CDS 25.0%
!! TCAATTTCTTGTTCTTCTTT+TGG + chr1.4:77901259-77901278 None:intergenic 25.0%
!!! TAATACGCTTTAAAAACTCT+AGG + chr1.4:77901922-77901941 None:intergenic 25.0%
!!! TTGTTTTGTTGAGTGAAAAT+AGG + chr1.4:77901517-77901536 None:intergenic 25.0%
!!! TTTTGGTGCTTTAATTTGTT+TGG - chr1.4:77901874-77901893 MS.gene061159:CDS 25.0%
AGCATAGTGGTTCTTATAAA+AGG - chr1.4:77901812-77901831 MS.gene061159:CDS 30.0%
AGTACAAATCCAAAATCTTC+AGG + chr1.4:77901427-77901446 None:intergenic 30.0%
ATATTTGAAGGTGATAAGGA+AGG - chr1.4:77901610-77901629 MS.gene061159:CDS 30.0%
GTACAAATCCAAAATCTTCA+GGG + chr1.4:77901426-77901445 None:intergenic 30.0%
TGAGATTATCCTTAAGTGAT+TGG + chr1.4:77901300-77901319 None:intergenic 30.0%
TGGAATATTTGAAGGTGATA+AGG - chr1.4:77901606-77901625 MS.gene061159:CDS 30.0%
! AAAACTCTAGGAAGATAAAC+AGG + chr1.4:77901910-77901929 None:intergenic 30.0%
! TACACCACATGTTTTTCTTT+TGG - chr1.4:77901645-77901664 MS.gene061159:CDS 30.0%
! TTTCTTGTTCTTCTTTTGGT+AGG + chr1.4:77901255-77901274 None:intergenic 30.0%
!! TTTGGCTAGTCAAGTTTTTA+TGG - chr1.4:77901663-77901682 MS.gene061159:CDS 30.0%
!!! AGGAAACTAGTTTTTCTTTG+TGG + chr1.4:77901340-77901359 None:intergenic 30.0%
ACAACAAGACCAATCACTTA+AGG - chr1.4:77901288-77901307 MS.gene061159:CDS 35.0%
ACAGGAACAAAAGCTCTTAT+TGG + chr1.4:77901721-77901740 None:intergenic 35.0%
CTAGCCAAAAGAAAAACATG+TGG + chr1.4:77901652-77901671 None:intergenic 35.0%
GTTTAGAGATGAGATTTCCA+AGG - chr1.4:77901780-77901799 MS.gene061159:CDS 35.0%
! AAGGAGGATTTTCACTATTG+TGG - chr1.4:77901753-77901772 MS.gene061159:CDS 35.0%
! CAGCTAAACAATTGAGTTGT+CGG + chr1.4:77901369-77901388 None:intergenic 35.0%
! GCTAGTCAAGTTTTTATGGA+AGG - chr1.4:77901667-77901686 MS.gene061159:CDS 35.0%
! GGATTTTCACTATTGTGGAT+TGG - chr1.4:77901758-77901777 MS.gene061159:CDS 35.0%
! GTTTTCATAGGAGCAATCAT+TGG - chr1.4:77901553-77901572 MS.gene061159:CDS 35.0%
!!! ACTAGTTTTTCTTTGTGGTG+TGG + chr1.4:77901335-77901354 None:intergenic 35.0%
!!! GAAGGTGTTGCATTTTCAAA+TGG - chr1.4:77901685-77901704 MS.gene061159:CDS 35.0%
!!! GTTGTTGTTTTATCAGCTAG+TGG - chr1.4:77901391-77901410 MS.gene061159:CDS 35.0%
AGAGATGAGATTTCCAAGGT+TGG - chr1.4:77901784-77901803 MS.gene061159:CDS 40.0%
! AATTGAGTTGTCGGAATGAG+AGG + chr1.4:77901360-77901379 None:intergenic 40.0%
! CTGTGGCTAATATGGCTTTT+TGG - chr1.4:77901857-77901876 MS.gene061159:CDS 40.0%
! TGTTTTATCAGCTAGTGGCA+TGG - chr1.4:77901396-77901415 MS.gene061159:CDS 40.0%
!! ATGGTTAGCCCTGAAGATTT+TGG - chr1.4:77901415-77901434 MS.gene061159:CDS 40.0%
!! TGTTCTTTTGAAGGGTGAGA+TGG + chr1.4:77901493-77901512 None:intergenic 40.0%
ACTATGCTCTTCACCAACCT+TGG + chr1.4:77901800-77901819 None:intergenic 45.0%
!! AAGGTTGGTGAAGAGCATAG+TGG - chr1.4:77901799-77901818 MS.gene061159:CDS 45.0%
!! AGCACTTGCTGTGGCTAATA+TGG - chr1.4:77901849-77901868 MS.gene061159:CDS 45.0%
AGGCTAATGTCACAGCCAGT+TGG + chr1.4:77901235-77901254 None:intergenic 50.0%
TCTGGTGGAGTTGGACCAAC+TGG - chr1.4:77901217-77901236 MS.gene061159:CDS 55.0%
!! TGCTGGAAGAGCACTTGCTG+TGG - chr1.4:77901840-77901859 MS.gene061159:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 77901214 77901963 77901214 ID=MS.gene061159
chr1.4 mRNA 77901214 77901963 77901214 ID=MS.gene061159.t1;Parent=MS.gene061159
chr1.4 exon 77901214 77901963 77901214 ID=MS.gene061159.t1.exon1;Parent=MS.gene061159.t1
chr1.4 CDS 77901214 77901963 77901214 ID=cds.MS.gene061159.t1;Parent=MS.gene061159.t1
Gene Sequence

>MS.gene061159

ATGTCTGGTGGAGTTGGACCAACTGGCTGTGACATTAGCCTACCAAAAGAAGAACAAGAAATTGAACACAAAGAACAACAAGACCAATCACTTAAGGATAATCTCAACAAATCAACAACCACACCACAAAGAAAAACTAGTTTCCTCTCATTCCGACAACTCAATTGTTTAGCTGTTGTTGTTGTTTTATCAGCTAGTGGCATGGTTAGCCCTGAAGATTTTGGATTTGTACTCTTTTCAGTACTCTACATGTACTTCATTTCAAAAGTTGCTTTTCCATCTCACCCTTCAAAAGAACAACCTATTTTCACTCAACAAAACAAGATCCTTAAACTTTATGTTTTCATAGGAGCAATCATTGGACTATATGCTCCTATAGCATATATTTTACATGGAATATTTGAAGGTGATAAGGAAGGTATTAAAGCAGCTACACCACATGTTTTTCTTTTGGCTAGTCAAGTTTTTATGGAAGGTGTTGCATTTTCAAATGGATTTTCTTCTCCAATAAGAGCTTTTGTTCCTGTTATTTATAATTCAAGGAGGATTTTCACTATTGTGGATTGGTTTAGAGATGAGATTTCCAAGGTTGGTGAAGAGCATAGTGGTTCTTATAAAAGGATTTATGCTGGAAGAGCACTTGCTGTGGCTAATATGGCTTTTTGGTGCTTTAATTTGTTTGGATTTTTAATACCTGTTTATCTTCCTAGAGTTTTTAAAGCGTATTATTCAAGCCAGAAAGTAAATTAA

Protein sequence

>MS.gene061159.t1

MSGGVGPTGCDISLPKEEQEIEHKEQQDQSLKDNLNKSTTTPQRKTSFLSFRQLNCLAVVVVLSASGMVSPEDFGFVLFSVLYMYFISKVAFPSHPSKEQPIFTQQNKILKLYVFIGAIIGLYAPIAYILHGIFEGDKEGIKAATPHVFLLASQVFMEGVAFSNGFSSPIRAFVPVIYNSRRIFTIVDWFRDEISKVGEEHSGSYKRIYAGRALAVANMAFWCFNLFGFLIPVYLPRVFKAYYSSQKVN