AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene002484


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene002484.t1 MTR_3g078653 100.000 204 0 0 1 204 1 204 8.57e-150 414
MS.gene002484.t1 MTR_2g014220 99.510 204 1 0 1 204 49 252 2.38e-149 415
MS.gene002484.t1 MTR_7g026915 94.915 59 3 0 1 59 1 59 3.81e-33 125
MS.gene002484.t1 MTR_7g026915 87.500 64 8 0 1 64 1 64 1.52e-31 120
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene002484.t1 AT4G16720 88.235 204 24 0 1 204 1 204 8.64e-122 343
MS.gene002484.t1 AT4G17390 87.745 204 25 0 1 204 1 204 1.80e-121 342

Find 73 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGGAAGCTTGGTGGCCTT+AGG 0.282780 2.1:-70772174 MS.gene002484:CDS
GTTTCCAAGGGTATTGTATA+CGG 0.297546 2.1:-70772271 MS.gene002484:CDS
TTGGTAAGCCAGTTGATTCT+TGG 0.325346 2.1:+70772058 None:intergenic
TCCTGACAAAGCTCGCCGTT+TGG 0.353079 2.1:-70772599 MS.gene002484:CDS
ACAAGTATGTTTCTGAGTTA+TGG 0.369598 2.1:-70772720 MS.gene002484:CDS
TTAGGGTTCTCAATTCCTAC+TGG 0.369741 2.1:-70772156 MS.gene002484:CDS
CCTGACAAAGCTCGCCGTTT+GGG 0.382164 2.1:-70772598 MS.gene002484:CDS
GTCCATCTCGCAGGGCAAAC+TGG 0.382984 2.1:-70771940 MS.gene002484:CDS
TGCGAGATGGACGGGCTTTG+TGG 0.391277 2.1:+70771951 None:intergenic
GAGGAAGCTTGGTGGCCTTA+GGG 0.392690 2.1:-70772173 MS.gene002484:CDS
AATGACCTCAAAATACTTGA+AGG 0.426532 2.1:+70772117 None:intergenic
AGCTCGCCGTTTGGGTTACA+AGG 0.427870 2.1:-70772590 MS.gene002484:CDS
TCTGTTGCCGAGGAGCGTGC+TGG 0.428375 2.1:-70772196 MS.gene002484:CDS
CCCAAACGGCGAGCTTTGTC+AGG 0.428600 2.1:+70772598 None:intergenic
GTTTGCCCTGCGAGATGGAC+GGG 0.443094 2.1:+70771943 None:intergenic
TTTGTCAGGACGAGTGGGTC+TGG 0.461552 2.1:+70772612 None:intergenic
TATACAATACCCTTGGAAAC+CGG 0.467374 2.1:+70772274 None:intergenic
CTGTTGCCGAGGAGCGTGCT+GGG 0.471029 2.1:-70772195 MS.gene002484:CDS
GAGCGTGCTGGGAGGAAGCT+TGG 0.477629 2.1:-70772184 MS.gene002484:CDS
CCAATCCTGTCCACAAGCAT+AGG 0.488032 2.1:-70772039 MS.gene002484:CDS
TTCCAGTTTGCCCTGCGAGA+TGG 0.489110 2.1:+70771938 None:intergenic
TTACTCAACTTAAGTTTCAA+AGG 0.490055 2.1:-70772228 MS.gene002484:CDS
TACGTAGAGGTGGGAGAAAG+AGG 0.490900 2.1:-70772297 MS.gene002484:CDS
ACAAAGCCCGTCCATCTCGC+AGG 0.495488 2.1:-70771949 MS.gene002484:CDS
CTTCGTGGTCTCACTTCTGC+TGG 0.495517 2.1:-70772013 MS.gene002484:CDS
TTGAGTAACTCCCTGGTTAG+TGG 0.499501 2.1:+70772243 None:intergenic
TCATGCAGCGTGTGAGGTGT+TGG 0.501162 2.1:-70772669 MS.gene002484:CDS
CATGCAGCGTGTGAGGTGTT+GGG 0.510206 2.1:-70772668 MS.gene002484:CDS
AGTTTGCCCTGCGAGATGGA+CGG 0.510514 2.1:+70771942 None:intergenic
GAGAAAGAGGCCGGTTTCCA+AGG 0.516642 2.1:-70772284 MS.gene002484:CDS
TGAGTAACTCCCTGGTTAGT+GGG 0.518159 2.1:+70772244 None:intergenic
CCTATGCTTGTGGACAGGAT+TGG 0.520921 2.1:+70772039 None:intergenic
CACGAAGTTCCCTATGCTTG+TGG 0.529755 2.1:+70772029 None:intergenic
GAAATGATCCAAGAATCAAC+TGG 0.530060 2.1:-70772066 MS.gene002484:CDS
AACAGAGGTTTGAGTGGCAA+AGG 0.530737 2.1:-70771983 MS.gene002484:CDS
TTTCCAAGGGTATTGTATAC+GGG 0.532253 2.1:-70772270 MS.gene002484:CDS
TTTGGGTTACAAGGCCAAGC+AGG 0.540516 2.1:-70772581 MS.gene002484:intron
AGTTCCCTATGCTTGTGGAC+AGG 0.542094 2.1:+70772034 None:intergenic
CGTGCTGGGAGGAAGCTTGG+TGG 0.543008 2.1:-70772181 MS.gene002484:CDS
ATACGGGAAGCCCACTAACC+AGG 0.546286 2.1:-70772254 MS.gene002484:CDS
GCGAGCTTTGTCAGGACGAG+TGG 0.547527 2.1:+70772606 None:intergenic
TAGGGTTCTCAATTCCTACT+GGG 0.548434 2.1:-70772155 MS.gene002484:CDS
CTTCCTCCCAGCACGCTCCT+CGG 0.550992 2.1:+70772189 None:intergenic
CACCTCTACGTACCCTCACT+CGG 0.553002 2.1:+70772308 None:intergenic
AAGAATAGATGATACCTGCT+TGG 0.559188 2.1:+70772567 None:intergenic
CAATCCTGTCCACAAGCATA+GGG 0.561253 2.1:-70772038 MS.gene002484:CDS
ACTTAAGTTGAGTAACTCCC+TGG 0.562594 2.1:+70772236 None:intergenic
CTTCCCGTATACAATACCCT+TGG 0.574843 2.1:+70772267 None:intergenic
CAATTCCTACTGGGTCAATG+AGG 0.583661 2.1:-70772146 MS.gene002484:CDS
AGAAAGAGGCCGGTTTCCAA+GGG 0.585417 2.1:-70772283 MS.gene002484:CDS
CGAGTGAGGGTACGTAGAGG+TGG 0.590318 2.1:-70772307 MS.gene002484:CDS
ACAGAGGTTTGAGTGGCAAA+GGG 0.593708 2.1:-70771982 MS.gene002484:CDS
GCTTGGCCTTGTAACCCAAA+CGG 0.594502 2.1:+70772584 None:intergenic
TAGAGGTGGGAGAAAGAGGC+CGG 0.597426 2.1:-70772293 MS.gene002484:CDS
CAAAGCCCGTCCATCTCGCA+GGG 0.599732 2.1:-70771948 MS.gene002484:CDS
CACAAGCATAGGGAACTTCG+TGG 0.602517 2.1:-70772028 MS.gene002484:CDS
GAGTAAGAGATCTGTTGCCG+AGG 0.608981 2.1:-70772206 MS.gene002484:CDS
TACGGGAAGCCCACTAACCA+GGG 0.619308 2.1:-70772253 MS.gene002484:CDS
GTTATGTTGTGTACCGAGTG+AGG 0.619671 2.1:-70772321 MS.gene002484:CDS
AGAATCCTCATTGACCCAGT+AGG 0.619890 2.1:+70772141 None:intergenic
CGAGCTTTGTCAGGACGAGT+GGG 0.623786 2.1:+70772607 None:intergenic
GGGTCTGGTGAGACGAACAA+TGG 0.629081 2.1:+70772627 None:intergenic
TGAGATTCATGCAGCGTGTG+AGG 0.638236 2.1:-70772675 MS.gene002484:CDS
AAAGAAAACAGAGGTTTGAG+TGG 0.638472 2.1:-70771989 MS.gene002484:CDS
AGTATGTTTCTGAGTTATGG+CGG 0.642445 2.1:-70772717 MS.gene002484:CDS
AGTAGGAATTGAGAACCCTA+AGG 0.644888 2.1:+70772158 None:intergenic
TTATGTTGTGTACCGAGTGA+GGG 0.645103 2.1:-70772320 MS.gene002484:CDS
TTGCCGAGGAGCGTGCTGGG+AGG 0.662735 2.1:-70772192 MS.gene002484:CDS
GTTATGGCGGAAGAAGCAAT+CGG 0.676275 2.1:-70772704 MS.gene002484:CDS
TCTGCTGGTAAAGAAAACAG+AGG 0.678817 2.1:-70771998 MS.gene002484:CDS
GAGTGAGGGTACGTAGAGGT+GGG 0.682033 2.1:-70772306 MS.gene002484:CDS
AGTAAAATCAACGATAACGA+CGG 0.699472 2.1:+70771894 None:intergenic
TACCGAGTGAGGGTACGTAG+AGG 0.717794 2.1:-70772310 MS.gene002484:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACAAGCTTATTATTGATA+AGG + chr2.1:70772201-70772220 None:intergenic 20.0%
!! CATCAATATAAGTTCTATTA+AGG + chr2.1:70772336-70772355 None:intergenic 20.0%
!!! ATTTGAACTTCATTGATTTT+AGG - chr2.1:70772381-70772400 MS.gene002484:intron 20.0%
!!! GTTATTTGTGAATTTTGAAT+AGG - chr2.1:70771977-70771996 MS.gene002484:CDS 20.0%
!!! TTTGAACTTCATTGATTTTA+GGG - chr2.1:70772382-70772401 MS.gene002484:intron 20.0%
! AGAAAGAATTAAAGCATGTT+TGG + chr2.1:70772266-70772285 None:intergenic 25.0%
! TTACTCAACTTAAGTTTCAA+AGG - chr2.1:70772497-70772516 MS.gene002484:intron 25.0%
AATGACCTCAAAATACTTGA+AGG + chr2.1:70772611-70772630 None:intergenic 30.0%
GAATTAAAGCATGTTTGGAT+TGG + chr2.1:70772261-70772280 None:intergenic 30.0%
! ACAAGTATGTTTCTGAGTTA+TGG - chr2.1:70772005-70772024 MS.gene002484:CDS 30.0%
! TTCTACCTTCAAGTATTTTG+AGG - chr2.1:70772603-70772622 MS.gene002484:CDS 30.0%
!!! CAAGTATTTTGAGGTCATTT+TGG - chr2.1:70772612-70772631 MS.gene002484:CDS 30.0%
AAAGAAAACAGAGGTTTGAG+TGG - chr2.1:70772736-70772755 MS.gene002484:intron 35.0%
AAGAATAGATGATACCTGCT+TGG + chr2.1:70772161-70772180 None:intergenic 35.0%
GAAATGATCCAAGAATCAAC+TGG - chr2.1:70772659-70772678 MS.gene002484:CDS 35.0%
TATACAATACCCTTGGAAAC+CGG + chr2.1:70772454-70772473 None:intergenic 35.0%
! AGTATGTTTCTGAGTTATGG+CGG - chr2.1:70772008-70772027 MS.gene002484:CDS 35.0%
!! CTGTTTCTATTCATTCTCTC+AGG - chr2.1:70771929-70771948 MS.gene002484:CDS 35.0%
!! GTTTCCAAGGGTATTGTATA+CGG - chr2.1:70772454-70772473 MS.gene002484:intron 35.0%
!! TTTCCAAGGGTATTGTATAC+GGG - chr2.1:70772455-70772474 MS.gene002484:intron 35.0%
AGTAGGAATTGAGAACCCTA+AGG + chr2.1:70772570-70772589 None:intergenic 40.0%
TAGGGTTCTCAATTCCTACT+GGG - chr2.1:70772570-70772589 MS.gene002484:intron 40.0%
TCTGCTGGTAAAGAAAACAG+AGG - chr2.1:70772727-70772746 MS.gene002484:CDS 40.0%
TTAGGGTTCTCAATTCCTAC+TGG - chr2.1:70772569-70772588 MS.gene002484:intron 40.0%
TTATGTTGTGTACCGAGTGA+GGG - chr2.1:70772405-70772424 MS.gene002484:intron 40.0%
! TTGGTAAGCCAGTTGATTCT+TGG + chr2.1:70772670-70772689 None:intergenic 40.0%
!! ACTTAAGTTGAGTAACTCCC+TGG + chr2.1:70772492-70772511 None:intergenic 40.0%
AACAGAGGTTTGAGTGGCAA+AGG - chr2.1:70772742-70772761 MS.gene002484:intron 45.0%
ACAGAGGTTTGAGTGGCAAA+GGG - chr2.1:70772743-70772762 MS.gene002484:intron 45.0%
AGAATCCTCATTGACCCAGT+AGG + chr2.1:70772587-70772606 None:intergenic 45.0%
CAATCCTGTCCACAAGCATA+GGG - chr2.1:70772687-70772706 MS.gene002484:CDS 45.0%
CAATTCCTACTGGGTCAATG+AGG - chr2.1:70772579-70772598 MS.gene002484:intron 45.0%
CTTCCCGTATACAATACCCT+TGG + chr2.1:70772461-70772480 None:intergenic 45.0%
GAAACAGCAGCTGCAATAGA+TGG + chr2.1:70771916-70771935 None:intergenic 45.0%
GTTATGTTGTGTACCGAGTG+AGG - chr2.1:70772404-70772423 MS.gene002484:intron 45.0%
TGAGTAACTCCCTGGTTAGT+GGG + chr2.1:70772484-70772503 None:intergenic 45.0%
TTGAGTAACTCCCTGGTTAG+TGG + chr2.1:70772485-70772504 None:intergenic 45.0%
! GTTATGGCGGAAGAAGCAAT+CGG - chr2.1:70772021-70772040 MS.gene002484:CDS 45.0%
AGTTCCCTATGCTTGTGGAC+AGG + chr2.1:70772694-70772713 None:intergenic 50.0%
CACAAGCATAGGGAACTTCG+TGG - chr2.1:70772697-70772716 MS.gene002484:CDS 50.0%
CACGAAGTTCCCTATGCTTG+TGG + chr2.1:70772699-70772718 None:intergenic 50.0%
CCAATCCTGTCCACAAGCAT+AGG - chr2.1:70772686-70772705 MS.gene002484:CDS 50.0%
CCTATGCTTGTGGACAGGAT+TGG + chr2.1:70772689-70772708 None:intergenic 50.0%
GAGTAAGAGATCTGTTGCCG+AGG - chr2.1:70772519-70772538 MS.gene002484:intron 50.0%
TACGTAGAGGTGGGAGAAAG+AGG - chr2.1:70772428-70772447 MS.gene002484:intron 50.0%
TGAGATTCATGCAGCGTGTG+AGG - chr2.1:70772050-70772069 MS.gene002484:CDS 50.0%
! AGAAAGAGGCCGGTTTCCAA+GGG - chr2.1:70772442-70772461 MS.gene002484:intron 50.0%
! TTTGGGTTACAAGGCCAAGC+AGG - chr2.1:70772144-70772163 MS.gene002484:CDS 50.0%
!! GCTTGGCCTTGTAACCCAAA+CGG + chr2.1:70772144-70772163 None:intergenic 50.0%
AGTTTGCCCTGCGAGATGGA+CGG + chr2.1:70772786-70772805 None:intergenic 55.0%
ATACGGGAAGCCCACTAACC+AGG - chr2.1:70772471-70772490 MS.gene002484:intron 55.0%
CACCTCTACGTACCCTCACT+CGG + chr2.1:70772420-70772439 None:intergenic 55.0%
CCTGACAAAGCTCGCCGTTT+GGG - chr2.1:70772127-70772146 MS.gene002484:CDS 55.0%
CTTCGTGGTCTCACTTCTGC+TGG - chr2.1:70772712-70772731 MS.gene002484:CDS 55.0%
GGGTCTGGTGAGACGAACAA+TGG + chr2.1:70772101-70772120 None:intergenic 55.0%
TACGGGAAGCCCACTAACCA+GGG - chr2.1:70772472-70772491 MS.gene002484:intron 55.0%
TAGAGGTGGGAGAAAGAGGC+CGG - chr2.1:70772432-70772451 MS.gene002484:intron 55.0%
TCATGCAGCGTGTGAGGTGT+TGG - chr2.1:70772056-70772075 MS.gene002484:CDS 55.0%
TCCTGACAAAGCTCGCCGTT+TGG - chr2.1:70772126-70772145 MS.gene002484:CDS 55.0%
TTCCAGTTTGCCCTGCGAGA+TGG + chr2.1:70772790-70772809 None:intergenic 55.0%
TTTGTCAGGACGAGTGGGTC+TGG + chr2.1:70772116-70772135 None:intergenic 55.0%
! AGCTCGCCGTTTGGGTTACA+AGG - chr2.1:70772135-70772154 MS.gene002484:CDS 55.0%
! CATGCAGCGTGTGAGGTGTT+GGG - chr2.1:70772057-70772076 MS.gene002484:CDS 55.0%
! CGAGCTTTGTCAGGACGAGT+GGG + chr2.1:70772121-70772140 None:intergenic 55.0%
! GAGAAAGAGGCCGGTTTCCA+AGG - chr2.1:70772441-70772460 MS.gene002484:intron 55.0%
! GAGGAAGCTTGGTGGCCTTA+GGG - chr2.1:70772552-70772571 MS.gene002484:intron 55.0%
! GAGTGAGGGTACGTAGAGGT+GGG - chr2.1:70772419-70772438 MS.gene002484:intron 55.0%
! TACCGAGTGAGGGTACGTAG+AGG - chr2.1:70772415-70772434 MS.gene002484:intron 55.0%
ACAAAGCCCGTCCATCTCGC+AGG - chr2.1:70772776-70772795 MS.gene002484:intron 60.0%
CAAAGCCCGTCCATCTCGCA+GGG - chr2.1:70772777-70772796 MS.gene002484:intron 60.0%
GTCCATCTCGCAGGGCAAAC+TGG - chr2.1:70772785-70772804 MS.gene002484:intron 60.0%
GTTTGCCCTGCGAGATGGAC+GGG + chr2.1:70772785-70772804 None:intergenic 60.0%
! CCCAAACGGCGAGCTTTGTC+AGG + chr2.1:70772130-70772149 None:intergenic 60.0%
! CGAGTGAGGGTACGTAGAGG+TGG - chr2.1:70772418-70772437 MS.gene002484:intron 60.0%
! GCGAGCTTTGTCAGGACGAG+TGG + chr2.1:70772122-70772141 None:intergenic 60.0%
! GGAGGAAGCTTGGTGGCCTT+AGG - chr2.1:70772551-70772570 MS.gene002484:intron 60.0%
! TGCGAGATGGACGGGCTTTG+TGG + chr2.1:70772777-70772796 None:intergenic 60.0%
CGTGCTGGGAGGAAGCTTGG+TGG - chr2.1:70772544-70772563 MS.gene002484:intron 65.0%
CTTCCTCCCAGCACGCTCCT+CGG + chr2.1:70772539-70772558 None:intergenic 65.0%
GAGCGTGCTGGGAGGAAGCT+TGG - chr2.1:70772541-70772560 MS.gene002484:intron 65.0%
! CTGTTGCCGAGGAGCGTGCT+GGG - chr2.1:70772530-70772549 MS.gene002484:intron 65.0%
! TCTGTTGCCGAGGAGCGTGC+TGG - chr2.1:70772529-70772548 MS.gene002484:intron 65.0%
! TTGCCGAGGAGCGTGCTGGG+AGG - chr2.1:70772533-70772552 MS.gene002484:intron 70.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 70771901 70772846 70771901 ID=MS.gene002484
chr2.1 mRNA 70771901 70772846 70771901 ID=MS.gene002484.t1;Parent=MS.gene002484
chr2.1 exon 70772843 70772846 70772843 ID=MS.gene002484.t1.exon1;Parent=MS.gene002484.t1
chr2.1 CDS 70772843 70772846 70772843 ID=cds.MS.gene002484.t1;Parent=MS.gene002484.t1
chr2.1 exon 70772582 70772748 70772582 ID=MS.gene002484.t1.exon2;Parent=MS.gene002484.t1
chr2.1 CDS 70772582 70772748 70772582 ID=cds.MS.gene002484.t1;Parent=MS.gene002484.t1
chr2.1 exon 70771901 70772344 70771901 ID=MS.gene002484.t1.exon3;Parent=MS.gene002484.t1
chr2.1 CDS 70771901 70772344 70771901 ID=cds.MS.gene002484.t1;Parent=MS.gene002484.t1
Gene Sequence

>MS.gene002484

ATGGGTATGCATCCATCTATTGCAGCTGCTGTTTCTATTCATTCTCTCAGGATCGAAATGTGATGTAATTGTTGTTGTTATTTGTGAATTTTGAATAGGTGCATACAAGTATGTTTCTGAGTTATGGCGGAAGAAGCAATCGGATGTGATGAGATTCATGCAGCGTGTGAGGTGTTGGGAGTATCGTCAACAATCTTCCATTGTTCGTCTCACCAGACCCACTCGTCCTGACAAAGCTCGCCGTTTGGGTTACAAGGCCAAGCAGGTATCATCTATTCTTCATTCATTATTACAACACCTTATCAATAATAAGCTTGTTTATTTGCATAAGTTGTTTTGCATAAGCTTAAATATAAGCCAATCCAAACATGCTTTAATTCTTTCTTGATATATGCTATGTAGATTGTTTGTTTATTTACTTGTGCTTTTGTTCCTTAATAGAACTTATATTGATGATGATACACTGCATTATTTGTTAAGATTTGAACTTCATTGATTTTAGGGTTATGTTGTGTACCGAGTGAGGGTACGTAGAGGTGGGAGAAAGAGGCCGGTTTCCAAGGGTATTGTATACGGGAAGCCCACTAACCAGGGAGTTACTCAACTTAAGTTTCAAAGGAGTAAGAGATCTGTTGCCGAGGAGCGTGCTGGGAGGAAGCTTGGTGGCCTTAGGGTTCTCAATTCCTACTGGGTCAATGAGGATTCTACCTTCAAGTATTTTGAGGTCATTTTGGTTGATGTTGCTCATAGTGCTATAAGAAATGATCCAAGAATCAACTGGCTTACCAATCCTGTCCACAAGCATAGGGAACTTCGTGGTCTCACTTCTGCTGGTAAAGAAAACAGAGGTTTGAGTGGCAAAGGGCATCGTTACCACAAAGCCCGTCCATCTCGCAGGGCAAACTGGAAGAGAAACAACACTCTGTCTCTCCGTCGTTATCGTTGA

Protein sequence

>MS.gene002484.t1

MGAYKYVSELWRKKQSDVMRFMQRVRCWEYRQQSSIVRLTRPTRPDKARRLGYKAKQGYVVYRVRVRRGGRKRPVSKGIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYWVNEDSTFKYFEVILVDVAHSAIRNDPRINWLTNPVHKHRELRGLTSAGKENRGLSGKGHRYHKARPSRRANWKRNNTLSLRRYR