AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene031547

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene031547.t1 MTR_4g081200 92.952 227 11 3 1 225 1 224 4.81e-151 419
MS.gene031547.t1 MTR_2g082990 49.738 191 86 3 11 197 8 192 1.14e-58 184
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene031547.t1 AT3G20600 41.451 193 86 6 11 190 13 191 1.34e-41 141
MS.gene031547.t1 AT3G20590 39.899 198 97 6 4 190 6 192 2.36e-34 123
MS.gene031547.t1 AT3G20610 37.838 185 92 7 25 197 26 199 3.02e-28 106

Find 62 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGTTCTGGGTTGCTCTTTC+TGG 0.060042 4.2:+28473881 MS.gene031547:CDS
CTGCCCCGTTTCGCGGGTTC+TGG 0.069782 4.2:+28473867 MS.gene031547:CDS
CAACCCAGAACCCGCGAAAC+GGG 0.291265 4.2:-28473871 None:intergenic
TTACCAAGCCTGATCCCTTT+AGG 0.299297 4.2:-28473818 None:intergenic
AGTGATTGAATGAAGCATTT+TGG 0.304303 4.2:-28473380 None:intergenic
TGCCCCGTTTCGCGGGTTCT+GGG 0.318361 4.2:+28473868 MS.gene031547:CDS
GTTGTTAGAGTGTTTGTGAT+TGG 0.357570 4.2:-28473438 None:intergenic
ATACACCTTTGTCTTCGTTT+TGG 0.358022 4.2:-28473499 None:intergenic
GCTTCAGACCCGACCCGAAC+TGG 0.379399 4.2:-28473845 None:intergenic
TCTGAAGCTGCCCCGTTTCG+CGG 0.386385 4.2:+28473860 MS.gene031547:CDS
GCAGGTGCAGCAGTTGATGC+GGG 0.394326 4.2:-28473288 None:intergenic
GGCTTGGTAATGCTCCAGTT+CGG 0.396045 4.2:+28473831 MS.gene031547:CDS
GCTTGGTAATGCTCCAGTTC+GGG 0.402093 4.2:+28473832 MS.gene031547:CDS
GTGGAAGTTAATGTCAGTTC+AGG 0.418827 4.2:+28473782 MS.gene031547:CDS
ACTAAACGACACCGTTTGTC+TGG 0.423254 4.2:+28473749 MS.gene031547:CDS
TCTGCCGAGGCACGTGGTGG+TGG 0.430137 4.2:+28473644 MS.gene031547:CDS
TTGATGCGGGGTTCCTGCGC+GGG 0.451168 4.2:-28473275 None:intergenic
CTGAAGCTGCCCCGTTTCGC+GGG 0.451197 4.2:+28473861 MS.gene031547:CDS
CACTCCACCACCACGTGCCT+CGG 0.465177 4.2:-28473648 None:intergenic
GCAACCCAGAACCCGCGAAA+CGG 0.474820 4.2:-28473872 None:intergenic
GTAATGCTCCAGTTCGGGTC+GGG 0.485181 4.2:+28473837 MS.gene031547:CDS
GAGTTCGGAGTGTGAGCCAC+AGG 0.493976 4.2:-28473352 None:intergenic
AGGTGAATCCTAAAGGGATC+AGG 0.497883 4.2:+28473810 MS.gene031547:CDS
GGTCAGAAGGTGAATCCTAA+AGG 0.505752 4.2:+28473803 MS.gene031547:CDS
GTCAGAAGGTGAATCCTAAA+GGG 0.505982 4.2:+28473804 MS.gene031547:CDS
AGCAGGTGCAGCAGTTGATG+CGG 0.513768 4.2:-28473289 None:intergenic
CGTCAACACCACGCGTCCAC+TGG 0.520956 4.2:+28473562 MS.gene031547:CDS
GGTGATGAAGCTAGTGCAGC+AGG 0.524004 4.2:-28473306 None:intergenic
GGTAATGCTCCAGTTCGGGT+CGG 0.527404 4.2:+28473836 MS.gene031547:CDS
AACGACACCGTTTGTCTGGA+GGG 0.528137 4.2:+28473753 MS.gene031547:CDS
GTAGATGGCGCGGCCCGCGC+AGG 0.530494 4.2:+28473262 None:intergenic
GGAGTGTGAGCCACAGGAAG+AGG 0.532200 4.2:-28473346 None:intergenic
GAGGATGGTGAGGCCTGTGC+TGG 0.544681 4.2:-28473327 None:intergenic
CATTTGCCCCTCCAGACAAA+CGG 0.547066 4.2:-28473760 None:intergenic
GAAACCGTTGAGAGTGGAGT+TGG 0.558246 4.2:-28473585 None:intergenic
GCCTCACCATCCTCTTCCTG+TGG 0.560087 4.2:+28473336 MS.gene031547:CDS
TAATGTCAGTTCAGGTCAGA+AGG 0.561149 4.2:+28473790 MS.gene031547:CDS
AACCCAGAACCCGCGAAACG+GGG 0.561738 4.2:-28473870 None:intergenic
TTTGTCTGGAGGGGCAAATG+TGG 0.565626 4.2:+28473763 MS.gene031547:CDS
AATCCTAAAGGGATCAGGCT+TGG 0.567380 4.2:+28473815 MS.gene031547:CDS
AAACACTTCCTTGCACTGTA+CGG 0.569559 4.2:-28473673 None:intergenic
TGGGGTTCTGCCGAGGCACG+TGG 0.580720 4.2:+28473638 MS.gene031547:CDS
GGAGTGAACCGTACAGTGCA+AGG 0.581559 4.2:+28473665 MS.gene031547:CDS
ACTAGCTTCATCACCAGCAC+AGG 0.582415 4.2:+28473314 MS.gene031547:CDS
CTGGCCAACTCCACTCTCAA+CGG 0.583272 4.2:+28473581 MS.gene031547:CDS
TGAGAAATGGGGTTCTGCCG+AGG 0.598645 4.2:+28473631 MS.gene031547:CDS
CAGGTGCAGCAGTTGATGCG+GGG 0.599703 4.2:-28473287 None:intergenic
TTGGTAGAAACCGTTGAGAG+TGG 0.602681 4.2:-28473591 None:intergenic
GACGCGTGGTGTTGACGTCG+AGG 0.608775 4.2:-28473556 None:intergenic
AAACGACACCGTTTGTCTGG+AGG 0.617610 4.2:+28473752 MS.gene031547:CDS
GGAGTTGGCCAGTGGACGCG+TGG 0.622642 4.2:-28473570 None:intergenic
TTGAGAGTGGAGTTGGCCAG+TGG 0.624134 4.2:-28473578 None:intergenic
GGTTCTGCCGAGGCACGTGG+TGG 0.625771 4.2:+28473641 MS.gene031547:CDS
TGTGAGCCACAGGAAGAGGA+TGG 0.629132 4.2:-28473342 None:intergenic
ACTCTCAACGGTTTCTACCA+AGG 0.629477 4.2:+28473593 MS.gene031547:CDS
GTTGATGCGGGGTTCCTGCG+CGG 0.633498 4.2:-28473276 None:intergenic
ATCAACCACCGTAGATGGCG+CGG 0.634709 4.2:+28473252 None:intergenic
GAGAGCGAATGTAAGACGAA+TGG 0.637810 4.2:-28473531 None:intergenic
GCCACAGGAAGAGGATGGTG+AGG 0.648443 4.2:-28473337 None:intergenic
ACGACACCGTTTGTCTGGAG+GGG 0.667289 4.2:+28473754 MS.gene031547:CDS
AACGGTTTCTACCAAGGACA+TGG 0.669035 4.2:+28473599 MS.gene031547:CDS
GCAAACCAAAACGAAGACAA+AGG 0.693444 4.2:+28473494 MS.gene031547:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGTGATTGAATGAAGCATTT+TGG - chr4.2:28473383-28473402 None:intergenic 30.0%
ATGGTAAAAACGCTGAGAAA+TGG + chr4.2:28473618-28473637 MS.gene031547:CDS 35.0%
TGGTAAAAACGCTGAGAAAT+GGG + chr4.2:28473619-28473638 MS.gene031547:CDS 35.0%
! ATACACCTTTGTCTTCGTTT+TGG - chr4.2:28473502-28473521 None:intergenic 35.0%
! GTTGTTAGAGTGTTTGTGAT+TGG - chr4.2:28473441-28473460 None:intergenic 35.0%
!! TGGAACTTTTGTTTCTCTCT+TGG + chr4.2:28473901-28473920 MS.gene031547:CDS 35.0%
!!! AGCATTTTGGTTGTTGAGTT+CGG - chr4.2:28473370-28473389 None:intergenic 35.0%
!!! GCAAGGAAGTGTTTTCTTAA+GGG + chr4.2:28473682-28473701 MS.gene031547:CDS 35.0%
!!! TGCAAGGAAGTGTTTTCTTA+AGG + chr4.2:28473681-28473700 MS.gene031547:CDS 35.0%
AAACACTTCCTTGCACTGTA+CGG - chr4.2:28473676-28473695 None:intergenic 40.0%
GCAAACCAAAACGAAGACAA+AGG + chr4.2:28473494-28473513 MS.gene031547:CDS 40.0%
GGTAAAAACGCTGAGAAATG+GGG + chr4.2:28473620-28473639 MS.gene031547:CDS 40.0%
GTCAGAAGGTGAATCCTAAA+GGG + chr4.2:28473804-28473823 MS.gene031547:CDS 40.0%
GTGGAAGTTAATGTCAGTTC+AGG + chr4.2:28473782-28473801 MS.gene031547:CDS 40.0%
TAATGTCAGTTCAGGTCAGA+AGG + chr4.2:28473790-28473809 MS.gene031547:CDS 40.0%
!! GTGAGTGTTTTGTTGAGAGA+AGG - chr4.2:28473413-28473432 None:intergenic 40.0%
!! GTGTTTTGTTGAGAGAAGGA+AGG - chr4.2:28473409-28473428 None:intergenic 40.0%
!!! AGGAAGTGTTTTCTTAAGGG+TGG + chr4.2:28473685-28473704 MS.gene031547:CDS 40.0%
AACGGTTTCTACCAAGGACA+TGG + chr4.2:28473599-28473618 MS.gene031547:CDS 45.0%
AATCCTAAAGGGATCAGGCT+TGG + chr4.2:28473815-28473834 MS.gene031547:CDS 45.0%
ACTAAACGACACCGTTTGTC+TGG + chr4.2:28473749-28473768 MS.gene031547:CDS 45.0%
ACTCTCAACGGTTTCTACCA+AGG + chr4.2:28473593-28473612 MS.gene031547:CDS 45.0%
AGGTGAATCCTAAAGGGATC+AGG + chr4.2:28473810-28473829 MS.gene031547:CDS 45.0%
GAGAGCGAATGTAAGACGAA+TGG - chr4.2:28473534-28473553 None:intergenic 45.0%
GGTCAGAAGGTGAATCCTAA+AGG + chr4.2:28473803-28473822 MS.gene031547:CDS 45.0%
TTACCAAGCCTGATCCCTTT+AGG - chr4.2:28473821-28473840 None:intergenic 45.0%
TTGGTAGAAACCGTTGAGAG+TGG - chr4.2:28473594-28473613 None:intergenic 45.0%
! CAGCGTTTTTACCATGTCCT+TGG - chr4.2:28473613-28473632 None:intergenic 45.0%
!!! CGTTTTGGTTTGCGAGTTTG+AGG - chr4.2:28473487-28473506 None:intergenic 45.0%
AAACGACACCGTTTGTCTGG+AGG + chr4.2:28473752-28473771 MS.gene031547:CDS 50.0%
AACGACACCGTTTGTCTGGA+GGG + chr4.2:28473753-28473772 MS.gene031547:CDS 50.0%
CATTTGCCCCTCCAGACAAA+CGG - chr4.2:28473763-28473782 None:intergenic 50.0%
GAAACCGTTGAGAGTGGAGT+TGG - chr4.2:28473588-28473607 None:intergenic 50.0%
TTTGTCTGGAGGGGCAAATG+TGG + chr4.2:28473763-28473782 MS.gene031547:CDS 50.0%
! ACTAGCTTCATCACCAGCAC+AGG + chr4.2:28473314-28473333 MS.gene031547:CDS 50.0%
!! GCTTGGTAATGCTCCAGTTC+GGG + chr4.2:28473832-28473851 MS.gene031547:CDS 50.0%
!! GGCTTGGTAATGCTCCAGTT+CGG + chr4.2:28473831-28473850 MS.gene031547:CDS 50.0%
ACGACACCGTTTGTCTGGAG+GGG + chr4.2:28473754-28473773 MS.gene031547:CDS 55.0%
CTGGCCAACTCCACTCTCAA+CGG + chr4.2:28473581-28473600 MS.gene031547:CDS 55.0%
GGAGTGAACCGTACAGTGCA+AGG + chr4.2:28473665-28473684 MS.gene031547:CDS 55.0%
GGTAATGCTCCAGTTCGGGT+CGG + chr4.2:28473836-28473855 MS.gene031547:CDS 55.0%
GGTGATGAAGCTAGTGCAGC+AGG - chr4.2:28473309-28473328 None:intergenic 55.0%
GTAATGCTCCAGTTCGGGTC+GGG + chr4.2:28473837-28473856 MS.gene031547:CDS 55.0%
TGAGAAATGGGGTTCTGCCG+AGG + chr4.2:28473631-28473650 MS.gene031547:CDS 55.0%
TGTGAGCCACAGGAAGAGGA+TGG - chr4.2:28473345-28473364 None:intergenic 55.0%
TTGAGAGTGGAGTTGGCCAG+TGG - chr4.2:28473581-28473600 None:intergenic 55.0%
! AGCAGGTGCAGCAGTTGATG+CGG - chr4.2:28473292-28473311 None:intergenic 55.0%
!! GGGTTCTGGGTTGCTCTTTC+TGG + chr4.2:28473881-28473900 MS.gene031547:CDS 55.0%
AACCCAGAACCCGCGAAACG+GGG - chr4.2:28473873-28473892 None:intergenic 60.0%
CAACCCAGAACCCGCGAAAC+GGG - chr4.2:28473874-28473893 None:intergenic 60.0%
GAGTTCGGAGTGTGAGCCAC+AGG - chr4.2:28473355-28473374 None:intergenic 60.0%
GCAACCCAGAACCCGCGAAA+CGG - chr4.2:28473875-28473894 None:intergenic 60.0%
GCCACAGGAAGAGGATGGTG+AGG - chr4.2:28473340-28473359 None:intergenic 60.0%
GCCTCACCATCCTCTTCCTG+TGG + chr4.2:28473336-28473355 MS.gene031547:CDS 60.0%
GGAGTGTGAGCCACAGGAAG+AGG - chr4.2:28473349-28473368 None:intergenic 60.0%
! CAGGTGCAGCAGTTGATGCG+GGG - chr4.2:28473290-28473309 None:intergenic 60.0%
! GCAGGTGCAGCAGTTGATGC+GGG - chr4.2:28473291-28473310 None:intergenic 60.0%
! TCTGAAGCTGCCCCGTTTCG+CGG + chr4.2:28473860-28473879 MS.gene031547:CDS 60.0%
CACTCCACCACCACGTGCCT+CGG - chr4.2:28473651-28473670 None:intergenic 65.0%
CGTCAACACCACGCGTCCAC+TGG + chr4.2:28473562-28473581 MS.gene031547:CDS 65.0%
CTGAAGCTGCCCCGTTTCGC+GGG + chr4.2:28473861-28473880 MS.gene031547:CDS 65.0%
GAGGATGGTGAGGCCTGTGC+TGG - chr4.2:28473330-28473349 None:intergenic 65.0%
GCTTCAGACCCGACCCGAAC+TGG - chr4.2:28473848-28473867 None:intergenic 65.0%
GTTGATGCGGGGTTCCTGCG+CGG - chr4.2:28473279-28473298 None:intergenic 65.0%
TGCCCCGTTTCGCGGGTTCT+GGG + chr4.2:28473868-28473887 MS.gene031547:CDS 65.0%
TTGATGCGGGGTTCCTGCGC+GGG - chr4.2:28473278-28473297 None:intergenic 65.0%
!! GACGCGTGGTGTTGACGTCG+AGG - chr4.2:28473559-28473578 None:intergenic 65.0%
CTGCCCCGTTTCGCGGGTTC+TGG + chr4.2:28473867-28473886 MS.gene031547:CDS 70.0%
GGAGTTGGCCAGTGGACGCG+TGG - chr4.2:28473573-28473592 None:intergenic 70.0%
GGTTCTGCCGAGGCACGTGG+TGG + chr4.2:28473641-28473660 MS.gene031547:CDS 70.0%
TCTGCCGAGGCACGTGGTGG+TGG + chr4.2:28473644-28473663 MS.gene031547:CDS 70.0%
TGGGGTTCTGCCGAGGCACG+TGG + chr4.2:28473638-28473657 MS.gene031547:CDS 70.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 28473266 28473943 28473266 ID=MS.gene031547
chr4.2 mRNA 28473266 28473943 28473266 ID=MS.gene031547.t1;Parent=MS.gene031547
chr4.2 exon 28473266 28473943 28473266 ID=MS.gene031547.t1.exon1;Parent=MS.gene031547.t1
chr4.2 CDS 28473266 28473943 28473266 ID=cds.MS.gene031547.t1;Parent=MS.gene031547.t1
Gene Sequence

>MS.gene031547

ATGGCGCGGCCCGCGCAGGAACCCCGCATCAACTGCTGCACCTGCTGCACTAGCTTCATCACCAGCACAGGCCTCACCATCCTCTTCCTGTGGCTCACACTCCGAACTCAACAACCAAAATGCTTCATTCAATCACTCTACCTTCCTTCTCTCAACAAAACACTCACTTCAACCAATCACAAACACTCTAACAACAACAACAACACTATCATCTTCAACCTCAAACTCGCAAACCAAAACGAAGACAAAGGTGTATACTACGAAGCCATTCGTCTTACATTCGCTCTCTTCCTCGACGTCAACACCACGCGTCCACTGGCCAACTCCACTCTCAACGGTTTCTACCAAGGACATGGTAAAAACGCTGAGAAATGGGGTTCTGCCGAGGCACGTGGTGGTGGAGTGAACCGTACAGTGCAAGGAAGTGTTTTCTTAAGGGTGGAGTTTGTCACACGCGTTAAGTATAAGATTCTGTTTGTATATACTAAACGACACCGTTTGTCTGGAGGGGCAAATGTGGAAGTTAATGTCAGTTCAGGTCAGAAGGTGAATCCTAAAGGGATCAGGCTTGGTAATGCTCCAGTTCGGGTCGGGTCTGAAGCTGCCCCGTTTCGCGGGTTCTGGGTTGCTCTTTCTGGAACTTTTGTTTCTCTCTTGGTTCTTAGTGCTTTTACTTGA
Protein sequence

>MS.gene031547.t1

MARPAQEPRINCCTCCTSFITSTGLTILFLWLTLRTQQPKCFIQSLYLPSLNKTLTSTNHKHSNNNNNTIIFNLKLANQNEDKGVYYEAIRLTFALFLDVNTTRPLANSTLNGFYQGHGKNAEKWGSAEARGGGVNRTVQGSVFLRVEFVTRVKYKILFVYTKRHRLSGGANVEVNVSSGQKVNPKGIRLGNAPVRVGSEAAPFRGFWVALSGTFVSLLVLSAFT