AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene64847

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64847.t1 MTR_5g023600 86.275 204 25 1 1 204 85 285 6.36e-123 349
MS.gene64847.t1 MTR_5g023370 83.333 204 31 1 1 204 85 285 1.41e-117 335
MS.gene64847.t1 MTR_5g023390 82.353 204 33 1 1 204 85 285 9.44e-117 333
MS.gene64847.t1 MTR_5g023350 81.863 204 34 1 1 204 85 285 1.48e-116 333
MS.gene64847.t1 MTR_5g023340 81.863 204 34 1 1 204 85 285 1.03e-115 331
MS.gene64847.t1 MTR_5g023320 82.266 203 30 2 1 203 86 282 3.72e-115 329
MS.gene64847.t1 MTR_5g023580 83.663 202 32 1 1 201 85 286 2.28e-114 330
MS.gene64847.t1 MTR_5g023530 80.976 205 35 2 1 204 85 286 9.43e-114 326
MS.gene64847.t1 MTR_5g023520 80.882 204 35 2 1 203 84 284 7.53e-113 323
MS.gene64847.t1 MTR_5g023550 79.803 203 38 1 1 203 84 283 3.37e-112 322
MS.gene64847.t1 MTR_5g023470 80.000 205 37 2 1 204 85 286 3.65e-112 322
MS.gene64847.t1 MTR_5g023460 80.319 188 30 2 16 203 11 191 8.77e-104 297
MS.gene64847.t1 MTR_8g074510 69.903 206 59 2 1 203 82 287 1.83e-95 280
MS.gene64847.t1 MTR_8g074420 69.417 206 60 2 1 203 84 289 1.22e-92 273
MS.gene64847.t1 MTR_8g074450 69.417 206 60 2 1 203 84 289 1.80e-91 270
MS.gene64847.t1 MTR_5g023290 37.850 214 122 4 1 203 95 308 1.26e-35 127
MS.gene64847.t1 MTR_8g074530 40.097 207 119 4 1 203 99 304 2.51e-34 124
MS.gene64847.t1 MTR_5g023650 36.232 207 124 3 4 203 99 304 1.40e-30 114
MS.gene64847.t1 MTR_8g074380 36.232 207 109 5 1 204 97 283 1.39e-29 112
MS.gene64847.t1 MTR_4g070530 31.527 203 137 2 1 201 91 293 3.94e-27 104
MS.gene64847.t1 MTR_4g070570 32.864 213 129 7 1 202 92 301 7.29e-27 104
MS.gene64847.t1 MTR_4g070590 33.971 209 128 4 1 202 94 299 1.98e-26 103
MS.gene64847.t1 MTR_3g116950 33.333 210 125 6 1 202 92 294 1.08e-24 98.6
MS.gene64847.t1 MTR_3g116920 32.227 211 130 6 1 202 90 296 2.05e-24 97.8
MS.gene64847.t1 MTR_4g070540 35.266 207 124 6 1 201 91 293 2.82e-24 97.4
MS.gene64847.t1 MTR_1g037820 30.918 207 114 5 2 203 43 225 1.92e-21 88.6
MS.gene64847.t1 MTR_5g023540 52.239 67 29 1 79 145 1 64 1.87e-14 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64847.t1 AT4G35690 34.434 212 116 5 1 203 86 283 1.60e-31 116
MS.gene64847.t1 AT2G17680 36.715 207 115 7 1 203 97 291 1.11e-27 106
MS.gene64847.t1 AT2G17080 34.975 203 106 6 1 202 84 261 3.55e-25 99.0
MS.gene64847.t1 AT4G35200 33.663 202 108 5 1 201 77 253 7.92e-24 95.5
MS.gene64847.t1 AT2G17070 34.328 201 106 6 1 200 84 259 1.06e-23 95.1
MS.gene64847.t1 AT4G35710 31.100 209 127 5 1 203 85 282 1.06e-20 87.4
MS.gene64847.t1 AT4G35210 30.693 202 111 5 1 201 77 250 2.38e-20 85.9
MS.gene64847.t1 AT1G76210 28.713 202 124 5 2 203 44 225 6.81e-15 70.9
MS.gene64847.t1 AT4G35660 30.275 218 115 8 1 204 94 288 1.14e-14 71.2
MS.gene64847.t1 AT3G51400 29.557 203 125 7 11 204 82 275 3.01e-14 70.1
MS.gene64847.t1 AT4G35680 28.837 215 134 6 1 203 102 309 6.78e-13 66.6
MS.gene64847.t1 AT4G35720 29.870 231 129 6 4 203 96 324 1.67e-12 65.5
MS.gene64847.t1 AT1G20520 28.230 209 116 6 2 203 44 225 7.38e-11 60.1

Find 28 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGCATATGGAAAGTAAATT+TGG 0.150071 5.1:+14202607 MS.gene64847:CDS
GGATGGTTCAGTCAGAATTT+TGG 0.212280 5.1:+14202411 MS.gene64847:CDS
GCAATTGAAATGATAGAAAA+TGG 0.225171 5.1:+14202934 MS.gene64847:CDS
CTCCGACAATTTCAATGAAT+TGG 0.273256 5.1:+14202822 MS.gene64847:CDS
CTTTGTGAAGAATTTATATT+CGG 0.312307 5.1:-14202545 None:intergenic
CACTTCACTCTTCTCTTAGA+AGG 0.337508 5.1:+14202488 MS.gene64847:CDS
CTTTGCTACTTTCAACCATT+TGG 0.341153 5.1:-14202767 None:intergenic
GGAGAGTTTATTTAGGAGAT+TGG 0.352571 5.1:+14202960 MS.gene64847:CDS
GATCACATCTTTAAAGCATA+TGG 0.363400 5.1:+14202594 MS.gene64847:CDS
CATTTGAACCTTCTCTTAAG+AGG 0.379262 5.1:-14202870 None:intergenic
ATGGTTTGGAGAGTTTATTT+AGG 0.391038 5.1:+14202953 MS.gene64847:CDS
TAACTGTAATCACATCAAAA+AGG 0.409264 5.1:-14202660 None:intergenic
TGAAATGATAGAAAATGGTT+TGG 0.414105 5.1:+14202939 MS.gene64847:CDS
CTCTTCTCTTAGAAGGAGAA+AGG 0.427476 5.1:+14202495 MS.gene64847:CDS
CTCCAATTCATTGAAATTGT+CGG 0.444896 5.1:-14202824 None:intergenic
TGGAAGAGTTGTTGGATGGA+TGG 0.457226 5.1:+14202394 None:intergenic
ATTGTCGGAGTTCTCTTCAC+TGG 0.464084 5.1:-14202809 None:intergenic
AGAAGGTTCAAATGTTTCAA+AGG 0.515818 5.1:+14202879 MS.gene64847:CDS
ATTTGAACCTTCTCTTAAGA+GGG 0.528432 5.1:-14202869 None:intergenic
TGGATATCTGTGGCATCACA+AGG 0.539961 5.1:+14202431 MS.gene64847:CDS
TCTTCTCTTAGAAGGAGAAA+GGG 0.543836 5.1:+14202496 MS.gene64847:CDS
TTGAGAACCCTCTTAAGAGA+AGG 0.546116 5.1:+14202862 MS.gene64847:CDS
CAAAGTCAAAGGCAACCAAA+TGG 0.562903 5.1:+14202752 MS.gene64847:CDS
GATGTTCAAAAGATGAACTC+TGG 0.565252 5.1:-14202989 None:intergenic
TTTCAATGAATTGGAGTGTG+TGG 0.576990 5.1:+14202831 MS.gene64847:CDS
TGGATCTTCATCAAAGTCAA+AGG 0.588491 5.1:+14202741 MS.gene64847:CDS
TGTGATTACAGTTATTAGAG+AGG 0.600695 5.1:+14202669 MS.gene64847:CDS
GGATATCTGTGGCATCACAA+GGG 0.651501 5.1:+14202432 MS.gene64847:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTTCTTTAATTTGTAAGA+TGG - chr5.1:14202461-14202480 None:intergenic 15.0%
!! CTTTGTGAAGAATTTATATT+CGG - chr5.1:14202548-14202567 None:intergenic 20.0%
! AAGCATATGGAAAGTAAATT+TGG + chr5.1:14202607-14202626 MS.gene64847:CDS 25.0%
! GCAATTGAAATGATAGAAAA+TGG + chr5.1:14202934-14202953 MS.gene64847:CDS 25.0%
! TAACTGTAATCACATCAAAA+AGG - chr5.1:14202663-14202682 None:intergenic 25.0%
! TGAAATGATAGAAAATGGTT+TGG + chr5.1:14202939-14202958 MS.gene64847:CDS 25.0%
AGAAGGTTCAAATGTTTCAA+AGG + chr5.1:14202879-14202898 MS.gene64847:CDS 30.0%
ATTTGAACCTTCTCTTAAGA+GGG - chr5.1:14202872-14202891 None:intergenic 30.0%
CTCCAATTCATTGAAATTGT+CGG - chr5.1:14202827-14202846 None:intergenic 30.0%
TGTGATTACAGTTATTAGAG+AGG + chr5.1:14202669-14202688 MS.gene64847:CDS 30.0%
! ACATGAAAAATTTGAGGCTT+TGG + chr5.1:14202906-14202925 MS.gene64847:CDS 30.0%
! ATGGTTTGGAGAGTTTATTT+AGG + chr5.1:14202953-14202972 MS.gene64847:CDS 30.0%
! TCAATCTGTTTTGTCTTTCT+TGG + chr5.1:14202717-14202736 MS.gene64847:CDS 30.0%
!! GATCACATCTTTAAAGCATA+TGG + chr5.1:14202594-14202613 MS.gene64847:CDS 30.0%
CATTTGAACCTTCTCTTAAG+AGG - chr5.1:14202873-14202892 None:intergenic 35.0%
CTCCGACAATTTCAATGAAT+TGG + chr5.1:14202822-14202841 MS.gene64847:CDS 35.0%
GATGTTCAAAAGATGAACTC+TGG - chr5.1:14202992-14203011 None:intergenic 35.0%
GGAGAGTTTATTTAGGAGAT+TGG + chr5.1:14202960-14202979 MS.gene64847:CDS 35.0%
GGATGCACATGAAAAATTTG+AGG + chr5.1:14202900-14202919 MS.gene64847:CDS 35.0%
TCTTCTCTTAGAAGGAGAAA+GGG + chr5.1:14202496-14202515 MS.gene64847:CDS 35.0%
TGGATCTTCATCAAAGTCAA+AGG + chr5.1:14202741-14202760 MS.gene64847:CDS 35.0%
TTTCAATGAATTGGAGTGTG+TGG + chr5.1:14202831-14202850 MS.gene64847:CDS 35.0%
! GTCAGAATTTTGGATATCTG+TGG + chr5.1:14202421-14202440 MS.gene64847:CDS 35.0%
! TCTGTTTTGTCTTTCTTGGT+TGG + chr5.1:14202721-14202740 MS.gene64847:CDS 35.0%
!! CTTTGCTACTTTCAACCATT+TGG - chr5.1:14202770-14202789 None:intergenic 35.0%
CAAAGTCAAAGGCAACCAAA+TGG + chr5.1:14202752-14202771 MS.gene64847:CDS 40.0%
CACTTCACTCTTCTCTTAGA+AGG + chr5.1:14202488-14202507 MS.gene64847:CDS 40.0%
CTCTTCTCTTAGAAGGAGAA+AGG + chr5.1:14202495-14202514 MS.gene64847:CDS 40.0%
TTGAGAACCCTCTTAAGAGA+AGG + chr5.1:14202862-14202881 MS.gene64847:CDS 40.0%
! GGATGGTTCAGTCAGAATTT+TGG + chr5.1:14202411-14202430 MS.gene64847:CDS 40.0%
ATTGTCGGAGTTCTCTTCAC+TGG - chr5.1:14202812-14202831 None:intergenic 45.0%
GGATATCTGTGGCATCACAA+GGG + chr5.1:14202432-14202451 MS.gene64847:CDS 45.0%
TGGATATCTGTGGCATCACA+AGG + chr5.1:14202431-14202450 MS.gene64847:CDS 45.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 14202409 14203023 14202409 ID=MS.gene64847
chr5.1 mRNA 14202409 14203023 14202409 ID=MS.gene64847.t1;Parent=MS.gene64847
chr5.1 exon 14202409 14203023 14202409 ID=MS.gene64847.t1.exon1;Parent=MS.gene64847.t1
chr5.1 CDS 14202409 14203023 14202409 ID=cds.MS.gene64847.t1;Parent=MS.gene64847.t1
Gene Sequence

>MS.gene64847

ATGGATGGTTCAGTCAGAATTTTGGATATCTGTGGCATCACAAGGGACACCATCTTACAAATTAAAGAAAATGTTCAATCACTTCACTCTTCTCTTAGAAGGAGAAAGGGAGAATCAAGCATTGAAACAAGTGTAGCCGAATATAAATTCTTCACAAAGAAGATGAAGAAGAATGTCACAAAGTTGATCACATCTTTAAAGCATATGGAAAGTAAATTTGGAGCTTCATCACTTTTGAATCAAGATCAAGACCTTTTTGATGTGATTACAGTTATTAGAGAGGTCATTGCAATGAACTTGTCTATCTTTCAATCTGTTTTGTCTTTCTTGGTTGGATCTTCATCAAAGTCAAAGGCAACCAAATGGTTGAAAGTAGCAAAGTTGATGCATAAGAAGCTATCCAGTGAAGAGAACTCCGACAATTTCAATGAATTGGAGTGTGTGGAAGCGTCTTTGAGAACCCTCTTAAGAGAAGGTTCAAATGTTTCAAAGGATGCACATGAAAAATTTGAGGCTTTGGAGAATGCAATTGAAATGATAGAAAATGGTTTGGAGAGTTTATTTAGGAGATTGGTTAAAACCAGAGTTCATCTTTTGAACATCATCACACTATGA
Protein sequence

>MS.gene64847.t1

MDGSVRILDICGITRDTILQIKENVQSLHSSLRRRKGESSIETSVAEYKFFTKKMKKNVTKLITSLKHMESKFGASSLLNQDQDLFDVITVIREVIAMNLSIFQSVLSFLVGSSSKSKATKWLKVAKLMHKKLSSEENSDNFNELECVEASLRTLLREGSNVSKDAHEKFEALENAIEMIENGLESLFRRLVKTRVHLLNIITL