AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene052272

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene052272.t1 MTR_4g075450 98.684 152 2 0 1 152 1 152 3.69e-108 304
MS.gene052272.t1 MTR_1g070450 95.395 152 7 0 1 152 1 152 4.44e-104 294
MS.gene052272.t1 MTR_8g105110 92.857 154 9 1 1 152 1 154 5.53e-98 279
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene052272.t1 AT5G09500 88.816 152 15 1 1 152 1 150 1.74e-94 270
MS.gene052272.t1 AT5G09510 91.447 152 13 0 1 152 1 152 4.53e-92 264
MS.gene052272.t1 AT1G04270 91.447 152 13 0 1 152 1 152 5.89e-92 263
MS.gene052272.t1 AT5G09490 82.237 152 27 0 1 152 1 152 5.71e-91 261
MS.gene052272.t1 AT1G04270 90.789 152 13 1 1 152 1 151 2.04e-89 257
MS.gene052272.t1 AT5G43640 87.919 149 18 0 4 152 1 149 3.89e-85 246
MS.gene052272.t1 AT5G09510 93.220 118 8 0 35 152 1 118 5.16e-69 204
MS.gene052272.t1 AT5G63070 63.750 160 50 4 1 152 1 160 2.86e-62 189
MS.gene052272.t1 AT1G33850 79.104 67 14 0 4 70 1 67 9.43e-22 83.2

Find 47 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGATAGTGGCCAATCATTTC+AGG 0.255429 4.2:-33458586 None:intergenic
GAGATGATTGGTAGCATTAT+TGG 0.295899 4.2:+33458523 MS.gene052272:CDS
AGGTGAGTCCTCACTGGTTC+TGG 0.312113 4.2:-33458478 None:intergenic
CCAGGCCTACCGTGCTTAAC+AGG 0.326778 4.2:-33458634 None:intergenic
GATCAGTGCCATAGGCTTGC+GGG 0.366809 4.2:-33458410 None:intergenic
GAAATTAAACCTGAAATGAT+TGG 0.389036 4.2:+33458577 MS.gene052272:CDS
TTTAATTTCAACCTGATTGA+AGG 0.413851 4.2:-33458563 None:intergenic
ACTGGTTCTGGCTTCTCACC+AGG 0.440200 4.2:-33458466 None:intergenic
ACTCCATGTGCTGCTACCTC+TGG 0.447556 4.2:-33458256 None:intergenic
AGTTGATCTCGATGCTCTCT+TGG 0.473380 4.2:+33458318 MS.gene052272:CDS
CAATGGAAAGACCTTCAATC+AGG 0.479116 4.2:+33458552 MS.gene052272:CDS
CCTGTTAAGCACGGTAGGCC+TGG 0.480548 4.2:+33458634 MS.gene052272:CDS
TGGTTTAACCCGCAAGCCTA+TGG 0.481267 4.2:+33458402 MS.gene052272:CDS
TCTCTGCACGTGCCCGACGA+AGG 0.500103 4.2:+33458371 MS.gene052272:CDS
TGATCAGTGCCATAGGCTTG+CGG 0.511355 4.2:-33458411 None:intergenic
TTGAGAATTCAGCAAGATAG+TGG 0.526209 4.2:-33458600 None:intergenic
CAGGCACAATGATCATGTTA+CGG 0.535956 4.2:-33458501 None:intergenic
TTCAAGAAGTTCAGTTTCCG+TGG 0.538808 4.2:+33458295 MS.gene052272:CDS
ATCATTGTGCCTGAGATGAT+TGG 0.552522 4.2:+33458511 MS.gene052272:CDS
ACCACGTCGAAACCTTCGTC+GGG 0.558631 4.2:-33458383 None:intergenic
GTGCCTCACGTTTCGCCTTG+CGG 0.558971 4.2:-33458441 None:intergenic
TTACGGAGGTGAGTCCTCAC+TGG 0.565975 4.2:-33458484 None:intergenic
GATGAGAGTCTTCACTTGAG+AGG 0.572177 4.2:-33458688 None:intergenic
TCGGTGCTACTAACTCCTCC+AGG 0.575536 4.2:+33458659 MS.gene052272:CDS
GAGTTAGTAGCACCGATACC+AGG 0.575818 4.2:-33458652 None:intergenic
AGCTTCACAAGTTCATCAGT+GGG 0.576252 4.2:-33458346 None:intergenic
ATAATGCTACCAATCATCTC+AGG 0.577641 4.2:-33458520 None:intergenic
AGCATTATTGGTGTCTACAA+TGG 0.579267 4.2:+33458535 MS.gene052272:CDS
AAGCACGGTAGGCCTGGTAT+CGG 0.593127 4.2:+33458640 MS.gene052272:CDS
GAACCAGAGGTAGCAGCACA+TGG 0.595234 4.2:+33458253 MS.gene052272:CDS
ACAAGCCTGTTAAGCACGGT+AGG 0.596494 4.2:+33458629 MS.gene052272:CDS
AGCTTCTTGATCAGTGCCAT+AGG 0.597848 4.2:-33458418 None:intergenic
GCGAAACGTGAGGCACCACC+TGG 0.605362 4.2:+33458448 MS.gene052272:CDS
AAGCTTCACAAGTTCATCAG+TGG 0.618110 4.2:-33458347 None:intergenic
AGAGGTAGCAGCACATGGAG+TGG 0.629988 4.2:+33458258 MS.gene052272:CDS
TCACTTGAGAGGAATAAACC+TGG 0.632316 4.2:-33458677 None:intergenic
AACCACGTCGAAACCTTCGT+CGG 0.635075 4.2:-33458384 None:intergenic
GGTTCTGGCTTCTCACCAGG+TGG 0.636958 4.2:-33458463 None:intergenic
TCTTACAAGCCTGTTAAGCA+CGG 0.639372 4.2:+33458625 MS.gene052272:CDS
GCTCCGCAAGGCGAAACGTG+AGG 0.649824 4.2:+33458438 MS.gene052272:CDS
ACTGATCAAGAAGCTCCGCA+AGG 0.663887 4.2:+33458426 MS.gene052272:CDS
GAGCATCGAGATCAACTCCA+CGG 0.673689 4.2:-33458312 None:intergenic
CATGGCGGATATTGAACCAG+AGG 0.674964 4.2:+33458240 None:intergenic
GCCCGACGAAGGTTTCGACG+TGG 0.696172 4.2:+33458382 MS.gene052272:CDS
GTGAGAAGCCAGAACCAGTG+AGG 0.706617 4.2:+33458470 MS.gene052272:CDS
GCACAATGATCATGTTACGG+AGG 0.711118 4.2:-33458498 None:intergenic
CTTGAGAGGAATAAACCTGG+AGG 0.744280 4.2:-33458674 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GAAATTAAACCTGAAATGAT+TGG + chr4.2:33458577-33458596 MS.gene052272:CDS 25.0%
!! TTTAATTTCAACCTGATTGA+AGG - chr4.2:33458566-33458585 None:intergenic 25.0%
ATAATGCTACCAATCATCTC+AGG - chr4.2:33458523-33458542 None:intergenic 35.0%
TTGAGAATTCAGCAAGATAG+TGG - chr4.2:33458603-33458622 None:intergenic 35.0%
! AGCATTATTGGTGTCTACAA+TGG + chr4.2:33458535-33458554 MS.gene052272:CDS 35.0%
! GAGATGATTGGTAGCATTAT+TGG + chr4.2:33458523-33458542 MS.gene052272:CDS 35.0%
AAGCTTCACAAGTTCATCAG+TGG - chr4.2:33458350-33458369 None:intergenic 40.0%
AGCTTCACAAGTTCATCAGT+GGG - chr4.2:33458349-33458368 None:intergenic 40.0%
ATCATTGTGCCTGAGATGAT+TGG + chr4.2:33458511-33458530 MS.gene052272:CDS 40.0%
CAATGGAAAGACCTTCAATC+AGG + chr4.2:33458552-33458571 MS.gene052272:CDS 40.0%
CAGGCACAATGATCATGTTA+CGG - chr4.2:33458504-33458523 None:intergenic 40.0%
TCACTTGAGAGGAATAAACC+TGG - chr4.2:33458680-33458699 None:intergenic 40.0%
TCTTACAAGCCTGTTAAGCA+CGG + chr4.2:33458625-33458644 MS.gene052272:CDS 40.0%
TTCAAGAAGTTCAGTTTCCG+TGG + chr4.2:33458295-33458314 MS.gene052272:CDS 40.0%
! AGATAGTGGCCAATCATTTC+AGG - chr4.2:33458589-33458608 None:intergenic 40.0%
AGCTTCTTGATCAGTGCCAT+AGG - chr4.2:33458421-33458440 None:intergenic 45.0%
AGTTGATCTCGATGCTCTCT+TGG + chr4.2:33458318-33458337 MS.gene052272:CDS 45.0%
CTTGAGAGGAATAAACCTGG+AGG - chr4.2:33458677-33458696 None:intergenic 45.0%
GCACAATGATCATGTTACGG+AGG - chr4.2:33458501-33458520 None:intergenic 45.0%
AACCACGTCGAAACCTTCGT+CGG - chr4.2:33458387-33458406 None:intergenic 50.0%
ACAAGCCTGTTAAGCACGGT+AGG + chr4.2:33458629-33458648 MS.gene052272:CDS 50.0%
ACTGATCAAGAAGCTCCGCA+AGG + chr4.2:33458426-33458445 MS.gene052272:CDS 50.0%
TGATCAGTGCCATAGGCTTG+CGG - chr4.2:33458414-33458433 None:intergenic 50.0%
TGGTTTAACCCGCAAGCCTA+TGG + chr4.2:33458402-33458421 MS.gene052272:CDS 50.0%
!! GAGCATCGAGATCAACTCCA+CGG - chr4.2:33458315-33458334 None:intergenic 50.0%
!! GAGTTAGTAGCACCGATACC+AGG - chr4.2:33458655-33458674 None:intergenic 50.0%
AAGCACGGTAGGCCTGGTAT+CGG + chr4.2:33458640-33458659 MS.gene052272:CDS 55.0%
ACCACGTCGAAACCTTCGTC+GGG - chr4.2:33458386-33458405 None:intergenic 55.0%
AGAGGTAGCAGCACATGGAG+TGG + chr4.2:33458258-33458277 MS.gene052272:CDS 55.0%
GAACCAGAGGTAGCAGCACA+TGG + chr4.2:33458253-33458272 MS.gene052272:CDS 55.0%
GATCAGTGCCATAGGCTTGC+GGG - chr4.2:33458413-33458432 None:intergenic 55.0%
GTGAGAAGCCAGAACCAGTG+AGG + chr4.2:33458470-33458489 MS.gene052272:CDS 55.0%
TTACGGAGGTGAGTCCTCAC+TGG - chr4.2:33458487-33458506 None:intergenic 55.0%
! ACTCCATGTGCTGCTACCTC+TGG - chr4.2:33458259-33458278 None:intergenic 55.0%
!! ACTGGTTCTGGCTTCTCACC+AGG - chr4.2:33458469-33458488 None:intergenic 55.0%
!! AGGTGAGTCCTCACTGGTTC+TGG - chr4.2:33458481-33458500 None:intergenic 55.0%
!! TCGGTGCTACTAACTCCTCC+AGG + chr4.2:33458659-33458678 MS.gene052272:CDS 55.0%
CCAGGCCTACCGTGCTTAAC+AGG - chr4.2:33458637-33458656 None:intergenic 60.0%
CCTGTTAAGCACGGTAGGCC+TGG + chr4.2:33458634-33458653 MS.gene052272:CDS 60.0%
GTGCCTCACGTTTCGCCTTG+CGG - chr4.2:33458444-33458463 None:intergenic 60.0%
!! GGTTCTGGCTTCTCACCAGG+TGG - chr4.2:33458466-33458485 None:intergenic 60.0%
GCCCGACGAAGGTTTCGACG+TGG + chr4.2:33458382-33458401 MS.gene052272:CDS 65.0%
GCTCCGCAAGGCGAAACGTG+AGG + chr4.2:33458438-33458457 MS.gene052272:CDS 65.0%
TCTCTGCACGTGCCCGACGA+AGG + chr4.2:33458371-33458390 MS.gene052272:CDS 65.0%
! GCGAAACGTGAGGCACCACC+TGG + chr4.2:33458448-33458467 MS.gene052272:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 33458241 33458699 33458241 ID=MS.gene052272
chr4.2 mRNA 33458241 33458699 33458241 ID=MS.gene052272.t1;Parent=MS.gene052272
chr4.2 exon 33458241 33458699 33458241 ID=MS.gene052272.t1.exon1;Parent=MS.gene052272.t1
chr4.2 CDS 33458241 33458699 33458241 ID=cds.MS.gene052272.t1;Parent=MS.gene052272.t1
Gene Sequence

>MS.gene052272

ATGGCGGATATTGAACCAGAGGTAGCAGCACATGGAGTGGCAAAGAAGAGAACATTCAAGAAGTTCAGTTTCCGTGGAGTTGATCTCGATGCTCTCTTGGATATGCCCACTGATGAACTTGTGAAGCTTTTCTCTGCACGTGCCCGACGAAGGTTTCGACGTGGTTTAACCCGCAAGCCTATGGCACTGATCAAGAAGCTCCGCAAGGCGAAACGTGAGGCACCACCTGGTGAGAAGCCAGAACCAGTGAGGACTCACCTCCGTAACATGATCATTGTGCCTGAGATGATTGGTAGCATTATTGGTGTCTACAATGGAAAGACCTTCAATCAGGTTGAAATTAAACCTGAAATGATTGGCCACTATCTTGCTGAATTCTCAATCTCTTACAAGCCTGTTAAGCACGGTAGGCCTGGTATCGGTGCTACTAACTCCTCCAGGTTTATTCCTCTCAAGTGA
Protein sequence

>MS.gene052272.t1

MADIEPEVAAHGVAKKRTFKKFSFRGVDLDALLDMPTDELVKLFSARARRRFRRGLTRKPMALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIGATNSSRFIPLK