AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene32027

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32027.t1 MTR_4g088335 96.117 206 8 0 1 206 1 206 4.80e-149 412
MS.gene32027.t1 MTR_2g014550 73.096 197 53 0 10 206 14 210 1.03e-107 308
MS.gene32027.t1 MTR_2g014520 72.589 197 54 0 10 206 11 207 4.02e-106 304
MS.gene32027.t1 MTR_4g078870 54.106 207 92 3 1 206 1 205 9.77e-74 221
MS.gene32027.t1 MTR_5g044580 43.333 180 102 0 21 200 35 214 9.27e-50 161
MS.gene32027.t1 MTR_7g010890 42.222 180 104 0 21 200 35 214 6.10e-48 156
MS.gene32027.t1 MTR_2g020850 41.520 171 97 2 36 206 22 189 1.35e-42 142
MS.gene32027.t1 MTR_4g118470 41.270 189 103 3 19 206 18 199 2.81e-42 142
MS.gene32027.t1 MTR_4g118480 42.529 174 96 2 34 206 27 197 8.16e-41 138
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32027.t1 AT5G46090 58.491 212 80 3 1 204 1 212 4.36e-88 258
MS.gene32027.t1 AT4G18425 58.216 213 82 3 1 206 1 213 7.86e-88 258
MS.gene32027.t1 AT3G02430 49.444 180 85 2 26 201 33 210 1.14e-63 196
MS.gene32027.t1 AT4G28485 50.761 197 95 2 10 204 2 198 1.39e-63 196
MS.gene32027.t1 AT4G24310 48.889 180 86 2 31 206 32 209 2.01e-59 186
MS.gene32027.t1 AT1G09157 40.761 184 97 2 29 200 56 239 3.01e-43 145
MS.gene32027.t1 AT5G39650 40.761 184 97 2 29 200 57 240 7.06e-42 142
MS.gene32027.t1 AT3G21550 41.860 172 94 2 32 202 6 172 5.14e-40 135
MS.gene32027.t1 AT3G21520 39.375 160 92 2 43 201 32 187 2.56e-36 126
MS.gene32027.t1 AT4G28485 57.426 101 43 0 106 206 65 165 3.46e-32 114
MS.gene32027.t1 AT5G27370 36.111 180 100 3 36 200 7 186 2.46e-31 113

Find 37 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATGGATTTGCCACATTTAA+AGG 0.151872 4.3:-25074414 MS.gene32027:CDS
GTTTGATGGCTCTATGAAAA+AGG 0.270220 4.3:+25074646 None:intergenic
TTGCCTTGGTTTGTGAATAT+TGG 0.340750 4.3:+25074549 None:intergenic
GCATGCAATTATGTCAATCT+TGG 0.353966 4.3:-25074313 MS.gene32027:CDS
ACTGCATTGCCTGTTGGAAT+TGG 0.362670 4.3:-25074207 MS.gene32027:CDS
AAATGTTAATTTGTTGAAAG+TGG 0.365679 4.3:+25074126 None:intergenic
AAAGGCTTGTGGATCATTGA+TGG 0.366664 4.3:-25074396 MS.gene32027:CDS
TGAATATTGGTGATAGAAGT+TGG 0.394112 4.3:+25074562 None:intergenic
CCTACTCATAGACATGGAAT+TGG 0.396888 4.3:-25074153 MS.gene32027:CDS
AATAAAGGAAACATATGTTA+TGG 0.408884 4.3:-25074432 MS.gene32027:CDS
GATAGCTTCAAAGACAATAA+AGG 0.412350 4.3:-25074447 MS.gene32027:CDS
ATCCTTACTGCATTGCCTGT+TGG 0.464824 4.3:-25074213 MS.gene32027:CDS
AATGTTAATTTGTTGAAAGT+GGG 0.475928 4.3:+25074127 None:intergenic
GTGATAGAAGTTGGAATGAA+AGG 0.491481 4.3:+25074571 None:intergenic
TTGCCACATTTAAAGGCTTG+TGG 0.495818 4.3:-25074407 MS.gene32027:CDS
TTACGTGGTCACACTTGCCT+TGG 0.497176 4.3:+25074535 None:intergenic
AGCTATCAGTGAAGCATAGT+AGG 0.500815 4.3:+25074463 None:intergenic
GTTTGATACTTTAACATCCA+TGG 0.502032 4.3:+25074731 None:intergenic
CAGAAAGCACCAATTCCAAC+AGG 0.507539 4.3:+25074198 None:intergenic
TTGATGCAAAATATAAACTA+AGG 0.516003 4.3:-25074350 MS.gene32027:CDS
TTCCAACAGGCAATGCAGTA+AGG 0.522793 4.3:+25074211 None:intergenic
AGTGCCTGTTGGTAAAAGAT+TGG 0.523234 4.3:+25074596 None:intergenic
GAAGCATGAGGCACCACATA+GGG 0.537089 4.3:+25074485 None:intergenic
CGCATCTCATATGAAGGTGA+TGG 0.549812 4.3:+25074240 None:intergenic
ATTTGACGCATCTCATATGA+AGG 0.568010 4.3:+25074234 None:intergenic
CCAATTCCATGTCTATGAGT+AGG 0.569725 4.3:+25074153 None:intergenic
TTCTCCATGTTGTGAAGAAG+TGG 0.596484 4.3:+25074687 None:intergenic
TGCAATGTTTGATCATAATG+TGG 0.607647 4.3:-25074277 MS.gene32027:CDS
GGAAGCATGAGGCACCACAT+AGG 0.607823 4.3:+25074484 None:intergenic
GCATTTCCTACTCATAGACA+TGG 0.615722 4.3:-25074159 MS.gene32027:CDS
TCACCAATATTCACAAACCA+AGG 0.630187 4.3:-25074552 MS.gene32027:CDS
GATCCACAAGCCTTTAAATG+TGG 0.634748 4.3:+25074404 None:intergenic
GCTACCACTTCTTCACAACA+TGG 0.653507 4.3:-25074691 MS.gene32027:CDS
GAAGCATAGTAGGAAGCATG+AGG 0.656130 4.3:+25074473 None:intergenic
TGGAGAATGCAGAACCACAA+AGG 0.663571 4.3:-25074671 MS.gene32027:CDS
AATGAAAGGACAGTGCCTGT+TGG 0.722317 4.3:+25074585 None:intergenic
AAGTCATTAAGTGTGTTACG+TGG 0.732584 4.3:+25074520 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAAAGGAAACATATGTTA+TGG - chr4.3:25074428-25074447 MS.gene32027:CDS 20.0%
!! TTGATGCAAAATATAAACTA+AGG - chr4.3:25074510-25074529 MS.gene32027:CDS 20.0%
GATAGCTTCAAAGACAATAA+AGG - chr4.3:25074413-25074432 MS.gene32027:CDS 30.0%
TATGGATTTGCCACATTTAA+AGG - chr4.3:25074446-25074465 MS.gene32027:CDS 30.0%
TGCAATGTTTGATCATAATG+TGG - chr4.3:25074583-25074602 MS.gene32027:CDS 30.0%
! GCTTTTACATGTTTGTTTGA+TGG + chr4.3:25074231-25074250 None:intergenic 30.0%
! TATTTTGCATCAAGTTCATG+TGG + chr4.3:25074503-25074522 None:intergenic 30.0%
! TGAATATTGGTGATAGAAGT+TGG + chr4.3:25074301-25074320 None:intergenic 30.0%
AAGTCATTAAGTGTGTTACG+TGG + chr4.3:25074343-25074362 None:intergenic 35.0%
ATTTGACGCATCTCATATGA+AGG + chr4.3:25074629-25074648 None:intergenic 35.0%
CTATGAAAAAGGTTCCTTTG+TGG + chr4.3:25074206-25074225 None:intergenic 35.0%
GCATGCAATTATGTCAATCT+TGG - chr4.3:25074547-25074566 MS.gene32027:CDS 35.0%
GTGATAGAAGTTGGAATGAA+AGG + chr4.3:25074292-25074311 None:intergenic 35.0%
TCACCAATATTCACAAACCA+AGG - chr4.3:25074308-25074327 MS.gene32027:CDS 35.0%
! GTAGCTTTTGTTCATCATAG+AGG + chr4.3:25074154-25074173 None:intergenic 35.0%
! GTTTGATGGCTCTATGAAAA+AGG + chr4.3:25074217-25074236 None:intergenic 35.0%
! TTAGCCAATCTTTTACCAAC+AGG - chr4.3:25074260-25074279 MS.gene32027:CDS 35.0%
!! TTATCGCTTTTATCCCTATG+TGG - chr4.3:25074362-25074381 MS.gene32027:CDS 35.0%
!! TTGCCTTGGTTTGTGAATAT+TGG + chr4.3:25074314-25074333 None:intergenic 35.0%
AAAGGCTTGTGGATCATTGA+TGG - chr4.3:25074464-25074483 MS.gene32027:CDS 40.0%
AGCTATCAGTGAAGCATAGT+AGG + chr4.3:25074400-25074419 None:intergenic 40.0%
CCAATTCCATGTCTATGAGT+AGG + chr4.3:25074710-25074729 None:intergenic 40.0%
CCTACTCATAGACATGGAAT+TGG - chr4.3:25074707-25074726 MS.gene32027:CDS 40.0%
GATCCACAAGCCTTTAAATG+TGG + chr4.3:25074459-25074478 None:intergenic 40.0%
GCATTTCCTACTCATAGACA+TGG - chr4.3:25074701-25074720 MS.gene32027:CDS 40.0%
TTCTCCATGTTGTGAAGAAG+TGG + chr4.3:25074176-25074195 None:intergenic 40.0%
TTGCCACATTTAAAGGCTTG+TGG - chr4.3:25074453-25074472 MS.gene32027:CDS 40.0%
! AGTGCCTGTTGGTAAAAGAT+TGG + chr4.3:25074267-25074286 None:intergenic 40.0%
AATGAAAGGACAGTGCCTGT+TGG + chr4.3:25074278-25074297 None:intergenic 45.0%
ACTGCATTGCCTGTTGGAAT+TGG - chr4.3:25074653-25074672 MS.gene32027:CDS 45.0%
ATCCTTACTGCATTGCCTGT+TGG - chr4.3:25074647-25074666 MS.gene32027:CDS 45.0%
CGCATCTCATATGAAGGTGA+TGG + chr4.3:25074623-25074642 None:intergenic 45.0%
GCTACCACTTCTTCACAACA+TGG - chr4.3:25074169-25074188 MS.gene32027:CDS 45.0%
TGGAGAATGCAGAACCACAA+AGG - chr4.3:25074189-25074208 MS.gene32027:CDS 45.0%
TTCCAACAGGCAATGCAGTA+AGG + chr4.3:25074652-25074671 None:intergenic 45.0%
! GAAGCATAGTAGGAAGCATG+AGG + chr4.3:25074390-25074409 None:intergenic 45.0%
!! CAGAAAGCACCAATTCCAAC+AGG + chr4.3:25074665-25074684 None:intergenic 45.0%
TTACGTGGTCACACTTGCCT+TGG + chr4.3:25074328-25074347 None:intergenic 50.0%
! GAAGCATGAGGCACCACATA+GGG + chr4.3:25074378-25074397 None:intergenic 50.0%
! GGAAGCATGAGGCACCACAT+AGG + chr4.3:25074379-25074398 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 25074131 25074751 25074131 ID=MS.gene32027
chr4.3 mRNA 25074131 25074751 25074131 ID=MS.gene32027.t1;Parent=MS.gene32027
chr4.3 exon 25074131 25074751 25074131 ID=MS.gene32027.t1.exon1;Parent=MS.gene32027.t1
chr4.3 CDS 25074131 25074751 25074131 ID=cds.MS.gene32027.t1;Parent=MS.gene32027.t1
Gene Sequence

>MS.gene32027

ATGGATGTTAAAGTATCAAACCTCTATGATGAACAAAAGCTACCACTTCTTCACAACATGGAGAATGCAGAACCACAAAGGAACCTTTTTCATAGAGCCATCAAACAAACATGTAAAAGCACAGCTCATTTAGCCAATCTTTTACCAACAGGCACTGTCCTTTCATTCCAACTTCTATCACCAATATTCACAAACCAAGGCAAGTGTGACCACGTAACACACTTAATGACTTTATCGCTTTTATCCCTATGTGGTGCCTCATGCTTCCTACTATGCTTCACTGATAGCTTCAAAGACAATAAAGGAAACATATGTTATGGATTTGCCACATTTAAAGGCTTGTGGATCATTGATGGATCAGCTACACTTCCACATGAACTTGATGCAAAATATAAACTAAGGTTCATTGATTTCATGCATGCAATTATGTCAATCTTGGTTTTTTCAGCTATTGCAATGTTTGATCATAATGTGGTTAACTGTTTTTTTCCATCACCTTCATATGAGATGCGTCAAATCCTTACTGCATTGCCTGTTGGAATTGGTGCTTTCTGTAGCATGCTGTTTGTTGCATTTCCTACTCATAGACATGGAATTGGCTTCCCACTTTCAACAAATTAA
Protein sequence

>MS.gene32027.t1

MDVKVSNLYDEQKLPLLHNMENAEPQRNLFHRAIKQTCKSTAHLANLLPTGTVLSFQLLSPIFTNQGKCDHVTHLMTLSLLSLCGASCFLLCFTDSFKDNKGNICYGFATFKGLWIIDGSATLPHELDAKYKLRFIDFMHAIMSILVFSAIAMFDHNVVNCFFPSPSYEMRQILTALPVGIGAFCSMLFVAFPTHRHGIGFPLSTN