AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene85835

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85835.t1 MTR_7g077620 69.630 270 70 2 3 261 102 370 3.18e-127 366
MS.gene85835.t1 MTR_7g077650 64.286 280 77 8 1 263 99 372 8.36e-108 317
MS.gene85835.t1 MTR_7g077660 64.364 275 78 8 3 263 100 368 1.44e-106 313
MS.gene85835.t1 MTR_7g076100 59.746 236 83 3 39 263 66 300 1.57e-84 254
MS.gene85835.t1 MTR_7g076110 50.538 279 120 4 3 263 35 313 2.45e-84 254
MS.gene85835.t1 MTR_1g108740 44.649 271 121 12 1 261 93 344 6.07e-57 186
MS.gene85835.t1 MTR_5g038260 41.216 296 132 12 4 263 94 383 3.01e-52 174
MS.gene85835.t1 MTR_1g064570 39.241 316 125 13 6 263 94 400 2.03e-49 167
MS.gene85835.t1 MTR_5g038230 40.000 285 121 10 4 261 92 353 2.83e-48 163
MS.gene85835.t1 MTR_5g082770 48.058 206 89 6 4 196 88 288 1.94e-46 157
MS.gene85835.t1 MTR_5g082780 42.105 228 108 8 15 228 1 218 3.90e-38 134
MS.gene85835.t1 MTR_7g076130 50.382 131 50 5 68 184 24 153 3.03e-27 103
MS.gene85835.t1 MTR_1g016150 47.423 97 47 4 1 96 102 195 9.10e-19 83.2
MS.gene85835.t1 MTR_6g023955 42.553 94 52 2 41 133 73 165 5.03e-12 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 56 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACTTCCATCCTTCACATTA+TGG 0.195674 6.4:-14803013 None:intergenic
CAAACTCTACGTTTACAAAT+TGG 0.205980 6.4:+14802809 MS.gene85835:CDS
TTTCAACATACTTGAGAGTT+TGG 0.271304 6.4:+14802863 MS.gene85835:CDS
CAACCGGATGTCACATCTTT+GGG 0.283463 6.4:+14803064 MS.gene85835:CDS
TCAACCGGATGTCACATCTT+TGG 0.300744 6.4:+14803063 MS.gene85835:CDS
TTTCCAGAACAATATCATTA+TGG 0.309110 6.4:+14802702 MS.gene85835:CDS
GGAGCTACACTATACTTAAA+AGG 0.314471 6.4:-14802396 None:intergenic
GACATCCGGTTGAAGGAAAT+TGG 0.322776 6.4:-14803053 None:intergenic
TGGATTCGTGTAAACAGATA+TGG 0.324446 6.4:+14802555 MS.gene85835:CDS
CAATGAAATGACGGTGTGTT+TGG 0.335412 6.4:+14802314 None:intergenic
TAATCACTTGGTCTTGTAAT+CGG 0.335704 6.4:-14802471 None:intergenic
AAAAGGATTCGCTAGTGTTA+TGG 0.360726 6.4:-14802379 None:intergenic
CTACGTTTACAAATTGGAAC+TGG 0.389715 6.4:+14802815 MS.gene85835:CDS
CTTTACCAATTTCCTTCAAC+CGG 0.393860 6.4:+14803048 MS.gene85835:CDS
CCATGGTTGGCTTGCATTGG+TGG 0.402911 6.4:+14802344 MS.gene85835:CDS
TTGGAGAGGTGGCAGACTAA+TGG 0.403671 6.4:-14802418 None:intergenic
GGGTTCTACCACAATTTCAA+TGG 0.406178 6.4:+14803084 MS.gene85835:CDS
CCTCCATAATGATATTGTTC+TGG 0.422685 6.4:-14802705 None:intergenic
AAAGAGCAAGTCAATCATCT+TGG 0.426179 6.4:+14802535 MS.gene85835:CDS
TGGAGAGGTGGCAGACTAAT+GGG 0.429349 6.4:-14802417 None:intergenic
AATCACTTGGTCTTGTAATC+GGG 0.457171 6.4:-14802470 None:intergenic
TTGTTTCTCCAAGTTTGAAA+AGG 0.460734 6.4:+14802938 MS.gene85835:CDS
AATGAAATGACGGTGTGTTT+GGG 0.468609 6.4:+14802315 None:intergenic
GGTTCTACCACAATTTCAAT+GGG 0.480142 6.4:+14803085 MS.gene85835:CDS
TAGCCATGGTTGGCTTGCAT+TGG 0.484269 6.4:+14802341 MS.gene85835:CDS
AATCATTGACCGGAGACATA+TGG 0.484616 6.4:+14802745 MS.gene85835:CDS
ACCTCTCCAATCTGTTTACA+AGG 0.490029 6.4:+14802431 MS.gene85835:CDS
CTGATATTTGCTGTTGGCAA+CGG 0.495311 6.4:+14802612 MS.gene85835:CDS
CAATTCTGCTTGTTATGAGA+TGG 0.510153 6.4:+14802662 MS.gene85835:CDS
AAGATGTGACATCCGGTTGA+AGG 0.515408 6.4:-14803060 None:intergenic
TACAAGACCAAGTGATTATG+TGG 0.517501 6.4:+14802476 MS.gene85835:CDS
TGTAATCGGGTCAGCGGACA+AGG 0.524243 6.4:-14802457 None:intergenic
CAAATCCATAATGTGAAGGA+TGG 0.524725 6.4:+14803008 MS.gene85835:CDS
TTTCACCATCCATATGTCTC+CGG 0.527974 6.4:-14802754 None:intergenic
GATCAATCCCATTGAAATTG+TGG 0.531759 6.4:-14803092 None:intergenic
CCAGAACAATATCATTATGG+AGG 0.533728 6.4:+14802705 MS.gene85835:CDS
GTGTGTTTGGGCGTTAGCCA+TGG 0.536708 6.4:+14802327 MS.gene85835:CDS
AAAGGTCTGATATTTGCTGT+TGG 0.547450 6.4:+14802606 MS.gene85835:CDS
GTTTGGGCGTTAGCCATGGT+TGG 0.554659 6.4:+14802331 MS.gene85835:CDS
AGGTAACCTTGTAAACAGAT+TGG 0.555212 6.4:-14802437 None:intergenic
GAACCCAAAGATGTGACATC+CGG 0.561035 6.4:-14803067 None:intergenic
CAGAACAATATCATTATGGA+GGG 0.569165 6.4:+14802706 MS.gene85835:CDS
TTCAAACTTGGAGAAACAAG+AGG 0.574529 6.4:-14802934 None:intergenic
TTGTAAACAGATTGGAGAGG+TGG 0.610040 6.4:-14802429 None:intergenic
GTTACAAATCCATAATGTGA+AGG 0.610111 6.4:+14803004 MS.gene85835:CDS
AACTTGGAGAAACAAGAGGC+TGG 0.613015 6.4:-14802930 None:intergenic
TTGGAACTGGACGCTATGAG+TGG 0.614160 6.4:+14802828 MS.gene85835:CDS
GCTGCAACCACATAATCACT+TGG 0.620527 6.4:-14802483 None:intergenic
AAATTGGTAAAGATTGACTA+CGG 0.637052 6.4:-14803037 None:intergenic
AGTTTGCATAAACGCTTGCG+AGG 0.643052 6.4:-14802792 None:intergenic
TGGTCTTGTAATCGGGTCAG+CGG 0.649934 6.4:-14802463 None:intergenic
GTTGAAACTGAAGCTTACAA+TGG 0.657995 6.4:-14802640 None:intergenic
CCACCAATGCAAGCCAACCA+TGG 0.665097 6.4:-14802344 None:intergenic
ATTGACCGGAGACATATGGA+TGG 0.696827 6.4:+14802749 MS.gene85835:CDS
GTTGCAGCGATTTACAACTG+TGG 0.706416 6.4:+14802498 MS.gene85835:CDS
ACCTTGTAAACAGATTGGAG+AGG 0.742777 6.4:-14802432 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TCAATTTATTTTATTTATGA+TGG + chr6.4:14802963-14802982 MS.gene85835:CDS 10.0%
!!! AACATTTTATTTGTTGGAAT+CGG + chr6.4:14802891-14802910 MS.gene85835:CDS 20.0%
!!! ACTGATGTTGTATTTTATAA+AGG + chr6.4:14802588-14802607 MS.gene85835:CDS 20.0%
! AAATTGGTAAAGATTGACTA+CGG - chr6.4:14803040-14803059 None:intergenic 25.0%
! TTTCCAGAACAATATCATTA+TGG + chr6.4:14802702-14802721 MS.gene85835:CDS 25.0%
!! AATTGAATCCTTTTCAAACT+TGG - chr6.4:14802949-14802968 None:intergenic 25.0%
!! TATTTTGTGAAATCATTGAC+CGG + chr6.4:14802735-14802754 MS.gene85835:CDS 25.0%
!!! GAAAGCAACATTTTATTTGT+TGG + chr6.4:14802885-14802904 MS.gene85835:CDS 25.0%
!!! TATTTTATTTATGATGGCGA+CGG + chr6.4:14802969-14802988 MS.gene85835:CDS 25.0%
CAAACTCTACGTTTACAAAT+TGG + chr6.4:14802809-14802828 MS.gene85835:CDS 30.0%
CAGAACAATATCATTATGGA+GGG + chr6.4:14802706-14802725 MS.gene85835:CDS 30.0%
GTTACAAATCCATAATGTGA+AGG + chr6.4:14803004-14803023 MS.gene85835:CDS 30.0%
TTTCAACATACTTGAGAGTT+TGG + chr6.4:14802863-14802882 MS.gene85835:CDS 30.0%
! TTGTTTCTCCAAGTTTGAAA+AGG + chr6.4:14802938-14802957 MS.gene85835:CDS 30.0%
!! TAATCACTTGGTCTTGTAAT+CGG - chr6.4:14802474-14802493 None:intergenic 30.0%
AAAAGGATTCGCTAGTGTTA+TGG - chr6.4:14802382-14802401 None:intergenic 35.0%
AAAGAGCAAGTCAATCATCT+TGG + chr6.4:14802535-14802554 MS.gene85835:CDS 35.0%
AACTTCCATCCTTCACATTA+TGG - chr6.4:14803016-14803035 None:intergenic 35.0%
AGGTAACCTTGTAAACAGAT+TGG - chr6.4:14802440-14802459 None:intergenic 35.0%
CAAATCCATAATGTGAAGGA+TGG + chr6.4:14803008-14803027 MS.gene85835:CDS 35.0%
CCAGAACAATATCATTATGG+AGG + chr6.4:14802705-14802724 MS.gene85835:CDS 35.0%
CCTCCATAATGATATTGTTC+TGG - chr6.4:14802708-14802727 None:intergenic 35.0%
CTACGTTTACAAATTGGAAC+TGG + chr6.4:14802815-14802834 MS.gene85835:CDS 35.0%
CTTTACCAATTTCCTTCAAC+CGG + chr6.4:14803048-14803067 MS.gene85835:CDS 35.0%
GGAGCTACACTATACTTAAA+AGG - chr6.4:14802399-14802418 None:intergenic 35.0%
GGTTCTACCACAATTTCAAT+GGG + chr6.4:14803085-14803104 MS.gene85835:CDS 35.0%
GTTGAAACTGAAGCTTACAA+TGG - chr6.4:14802643-14802662 None:intergenic 35.0%
TACAAGACCAAGTGATTATG+TGG + chr6.4:14802476-14802495 MS.gene85835:CDS 35.0%
TGGATTCGTGTAAACAGATA+TGG + chr6.4:14802555-14802574 MS.gene85835:CDS 35.0%
TTCAAACTTGGAGAAACAAG+AGG - chr6.4:14802937-14802956 None:intergenic 35.0%
!! AAAGGTCTGATATTTGCTGT+TGG + chr6.4:14802606-14802625 MS.gene85835:CDS 35.0%
!! AATCACTTGGTCTTGTAATC+GGG - chr6.4:14802473-14802492 None:intergenic 35.0%
!! CAATTCTGCTTGTTATGAGA+TGG + chr6.4:14802662-14802681 MS.gene85835:CDS 35.0%
AATCATTGACCGGAGACATA+TGG + chr6.4:14802745-14802764 MS.gene85835:CDS 40.0%
ACCTCTCCAATCTGTTTACA+AGG + chr6.4:14802431-14802450 MS.gene85835:CDS 40.0%
ACCTTGTAAACAGATTGGAG+AGG - chr6.4:14802435-14802454 None:intergenic 40.0%
GGGTTCTACCACAATTTCAA+TGG + chr6.4:14803084-14803103 MS.gene85835:CDS 40.0%
TTGTAAACAGATTGGAGAGG+TGG - chr6.4:14802432-14802451 None:intergenic 40.0%
TTTCACCATCCATATGTCTC+CGG - chr6.4:14802757-14802776 None:intergenic 40.0%
!! CTGATATTTGCTGTTGGCAA+CGG + chr6.4:14802612-14802631 MS.gene85835:CDS 40.0%
AACTTGGAGAAACAAGAGGC+TGG - chr6.4:14802933-14802952 None:intergenic 45.0%
AAGATGTGACATCCGGTTGA+AGG - chr6.4:14803063-14803082 None:intergenic 45.0%
AGTTTGCATAAACGCTTGCG+AGG - chr6.4:14802795-14802814 None:intergenic 45.0%
ATTGACCGGAGACATATGGA+TGG + chr6.4:14802749-14802768 MS.gene85835:CDS 45.0%
CAACCGGATGTCACATCTTT+GGG + chr6.4:14803064-14803083 MS.gene85835:CDS 45.0%
GAACCCAAAGATGTGACATC+CGG - chr6.4:14803070-14803089 None:intergenic 45.0%
GACATCCGGTTGAAGGAAAT+TGG - chr6.4:14803056-14803075 None:intergenic 45.0%
GCTGCAACCACATAATCACT+TGG - chr6.4:14802486-14802505 None:intergenic 45.0%
GTTGCAGCGATTTACAACTG+TGG + chr6.4:14802498-14802517 MS.gene85835:CDS 45.0%
TCAACCGGATGTCACATCTT+TGG + chr6.4:14803063-14803082 MS.gene85835:CDS 45.0%
TGGAGAGGTGGCAGACTAAT+GGG - chr6.4:14802420-14802439 None:intergenic 50.0%
TTGGAACTGGACGCTATGAG+TGG + chr6.4:14802828-14802847 MS.gene85835:CDS 50.0%
TTGGAGAGGTGGCAGACTAA+TGG - chr6.4:14802421-14802440 None:intergenic 50.0%
!! TAGCCATGGTTGGCTTGCAT+TGG + chr6.4:14802341-14802360 MS.gene85835:CDS 50.0%
!! TGGTCTTGTAATCGGGTCAG+CGG - chr6.4:14802466-14802485 None:intergenic 50.0%
CCACCAATGCAAGCCAACCA+TGG - chr6.4:14802347-14802366 None:intergenic 55.0%
GTGTGTTTGGGCGTTAGCCA+TGG + chr6.4:14802327-14802346 MS.gene85835:CDS 55.0%
GTTTGGGCGTTAGCCATGGT+TGG + chr6.4:14802331-14802350 MS.gene85835:CDS 55.0%
TGTAATCGGGTCAGCGGACA+AGG - chr6.4:14802460-14802479 None:intergenic 55.0%
!! CCATGGTTGGCTTGCATTGG+TGG + chr6.4:14802344-14802363 MS.gene85835:CDS 55.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 14802321 14803112 14802321 ID=MS.gene85835
chr6.4 mRNA 14802321 14803112 14802321 ID=MS.gene85835.t1;Parent=MS.gene85835
chr6.4 exon 14802321 14803112 14802321 ID=MS.gene85835.t1.exon1;Parent=MS.gene85835.t1
chr6.4 CDS 14802321 14803112 14802321 ID=cds.MS.gene85835.t1;Parent=MS.gene85835.t1
Gene Sequence

>MS.gene85835

ATGACGGTGTGTTTGGGCGTTAGCCATGGTTGGCTTGCATTGGTGGATGACAACAAAGCCATAACACTAGCGAATCCTTTTAAGTATAGTGTAGCTCCCATTAGTCTGCCACCTCTCCAATCTGTTTACAAGGTTACCTTGTCCGCTGACCCGATTACAAGACCAAGTGATTATGTGGTTGCAGCGATTTACAACTGTGGTTCTCTCGCTTTCAAAAGAGCAAGTCAATCATCTTGGATTCGTGTAAACAGATATGGATTTTATTTCACTGATGTTGTATTTTATAAAGGTCTGATATTTGCTGTTGGCAACGGAGACACCATTGTAAGCTTCAGTTTCAACAATTCTGCTTGTTATGAGATGGCTAGTACTCAGAATTTTTTTCCAGAACAATATCATTATGGAGGGCATGCTTATTTTGTGAAATCATTGACCGGAGACATATGGATGGTGAAAAGATGTTTAATTGATCCTCGCAAGCGTTTATGCAAACTCTACGTTTACAAATTGGAACTGGACGCTATGAGTGGAAAAGTTAAACATTTCAACATACTTGAGAGTTTGGAAAGCAACATTTTATTTGTTGGAATCGGCGATTCAATTTCTGTGCCAGCCTCTTGTTTCTCCAAGTTTGAAAAGGATTCAATTTATTTTATTTATGATGGCGACGGAGATGATTTAGAGTTACAAATCCATAATGTGAAGGATGGAAGTTTCCGTAGTCAATCTTTACCAATTTCCTTCAACCGGATGTCACATCTTTGGGTTCTACCACAATTTCAATGGGATTGA
Protein sequence

>MS.gene85835.t1

MTVCLGVSHGWLALVDDNKAITLANPFKYSVAPISLPPLQSVYKVTLSADPITRPSDYVVAAIYNCGSLAFKRASQSSWIRVNRYGFYFTDVVFYKGLIFAVGNGDTIVSFSFNNSACYEMASTQNFFPEQYHYGGHAYFVKSLTGDIWMVKRCLIDPRKRLCKLYVYKLELDAMSGKVKHFNILESLESNILFVGIGDSISVPASCFSKFEKDSIYFIYDGDGDDLELQIHNVKDGSFRSQSLPISFNRMSHLWVLPQFQWD