AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene04761

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene04761.t1 MTR_8g103520 92.953 298 11 3 1 293 1 293 6.44e-168 467
MS.gene04761.t1 MTR_0907s0020 53.731 67 31 0 224 290 102 168 6.67e-19 82.8
MS.gene04761.t1 MTR_5g079710 42.683 82 47 0 208 289 75 156 2.68e-17 80.1
MS.gene04761.t1 MTR_8g087530 56.452 62 27 0 224 285 258 319 4.57e-17 80.5
MS.gene04761.t1 MTR_7g105790 53.226 62 29 0 227 288 113 174 5.65e-17 77.8
MS.gene04761.t1 MTR_7g072875 51.562 64 31 0 222 285 217 280 5.68e-17 79.7
MS.gene04761.t1 MTR_5g075210 44.944 89 42 1 197 285 260 341 7.02e-17 80.1
MS.gene04761.t1 MTR_7g072630 51.562 64 31 0 222 285 279 342 1.05e-16 79.7
MS.gene04761.t1 MTR_2g018030 51.613 62 30 0 224 285 277 338 1.63e-16 79.0
MS.gene04761.t1 MTR_3g111780 51.389 72 35 0 218 289 192 263 5.09e-15 73.9
MS.gene04761.t1 MTR_4g052040 45.333 75 41 0 217 291 92 166 5.54e-15 72.0
MS.gene04761.t1 MTR_4g028930 52.459 61 29 0 225 285 315 375 9.49e-15 74.3
MS.gene04761.t1 MTR_4g052060 44.286 70 39 0 222 291 91 160 4.59e-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
MS.gene04761.t1 AT5G19650 71.642 67 19 0 224 290 154 220 1.48e-29 112
MS.gene04761.t1 AT2G18500 27.796 313 172 9 1 288 7 290 3.47e-22 94.7
MS.gene04761.t1 AT3G52525 64.516 62 22 0 225 286 67 128 1.62e-21 89.4
MS.gene04761.t1 AT2G36026 54.098 61 28 0 230 290 92 152 2.62e-17 78.6
MS.gene04761.t1 AT1G06920 46.269 67 36 0 219 285 238 304 7.50e-16 77.0
MS.gene04761.t1 AT2G30400 49.254 67 34 0 222 288 250 316 1.97e-15 75.9
MS.gene04761.t1 AT4G18830 48.485 66 34 0 219 284 277 342 3.53e-14 72.4
MS.gene04761.t1 AT5G58360 43.902 82 43 2 204 285 207 285 1.67e-13 69.7
MS.gene04761.t1 AT5G01840 51.724 58 28 0 228 285 202 259 9.53e-13 67.4

Find 51 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACACAAACTTTGATAGTTAT+TGG 0.210878 4.2:-2186454 MS.gene04761:CDS
GAAGGTTTGGGTTTGGAAAT+AGG 0.220586 4.2:+2186815 None:intergenic
TTGAAGTTTACACAGAGATT+TGG 0.279666 4.2:-2186112 MS.gene04761:CDS
CGCATGTTCCGATCCTCATT+TGG 0.311225 4.2:-2186932 MS.gene04761:CDS
AGAGGGGTGTTTGGTGAAAC+AGG 0.313826 4.2:+2186644 None:intergenic
GTCGATGGTTTGAGAAGGTT+TGG 0.314761 4.2:+2186802 None:intergenic
AAGGTTTGGGTTTGGAAATA+GGG 0.329089 4.2:+2186816 None:intergenic
ACAACACTTAACTGATGTTA+TGG 0.340442 4.2:-2186894 MS.gene04761:CDS
ATGTCGGCGGCGAGACTTAG+AGG 0.357232 4.2:+2186364 None:intergenic
AACATCAGTTAAGTGTTGTT+TGG 0.382993 4.2:+2186898 None:intergenic
GGGTAGTACAGTAGTGTTGA+AGG 0.384744 4.2:+2186844 None:intergenic
TGAAGTTTACACAGAGATTT+GGG 0.390881 4.2:-2186111 MS.gene04761:CDS
TACAGTAGTGTTGAAGGAGA+TGG 0.400715 4.2:+2186850 None:intergenic
GGTTTGAGAAGGTTTGGGTT+TGG 0.422047 4.2:+2186808 None:intergenic
ACAGTAGTGTTGAAGGAGAT+GGG 0.427701 4.2:+2186851 None:intergenic
TCGATGGTTTGAGAAGGTTT+GGG 0.428115 4.2:+2186803 None:intergenic
GTGTTGTTGAGAGGGGTGTT+TGG 0.450959 4.2:+2186635 None:intergenic
ACTATTTGCACCGCAGAGAA+AGG 0.459628 4.2:+2186706 None:intergenic
GGGAAGCTTTATTCTCTGAC+TGG 0.460429 4.2:-2186091 MS.gene04761:CDS
GCAGAGAAAGGGTGATGAAC+AGG 0.462863 4.2:+2186718 None:intergenic
GAGATGGGAGGTGCAAATAG+TGG 0.498953 4.2:+2186866 None:intergenic
CTTCTCGCCGGAAAACTGAC+CGG 0.509033 4.2:-2186340 MS.gene04761:CDS
ATGGGTGTTCTTCCGTTGAA+CGG 0.516099 4.2:-2186308 MS.gene04761:CDS
GGGTTTGGAAATAGGGTGAA+AGG 0.519198 4.2:+2186823 None:intergenic
TGGAATATAGTGTTGTTGAG+AGG 0.523390 4.2:+2186626 None:intergenic
CTATTTGCACCGCAGAGAAA+GGG 0.525313 4.2:+2186707 None:intergenic
GAAGTTCTAAAATCATTGTA+CGG 0.539349 4.2:+2186242 None:intergenic
TTGAAAGATATGATATCTGA+AGG 0.540231 4.2:+2186776 None:intergenic
GCCGCCGACATTCTTCTCGC+CGG 0.549096 4.2:-2186352 MS.gene04761:CDS
AAAAGATTCTCCAACTCACT+TGG 0.551265 4.2:+2186182 None:intergenic
TTTGGTGAAACAGGAGGACA+TGG 0.552047 4.2:+2186653 None:intergenic
TGCAGGATCCAAATGAGGAT+CGG 0.558716 4.2:+2186924 None:intergenic
GGTTTGGAAATAGGGTGAAA+GGG 0.564838 4.2:+2186824 None:intergenic
AACTGACCGGAGTTCCGACA+TGG 0.569932 4.2:-2186327 MS.gene04761:CDS
TCTTTAGCACATGAGTTGAA+AGG 0.584272 4.2:+2186476 None:intergenic
GGGTCGTCGATGGTTTGAGA+AGG 0.585595 4.2:+2186797 None:intergenic
CAAACTTTGATAGTTATTGG+TGG 0.586184 4.2:-2186451 MS.gene04761:CDS
GAACACCCATGTCGGAACTC+CGG 0.589971 4.2:+2186321 None:intergenic
GGAATATAGTGTTGTTGAGA+GGG 0.593353 4.2:+2186627 None:intergenic
CAACGGAAGAACACCCATGT+CGG 0.598602 4.2:+2186313 None:intergenic
AACTGAGGTTGTTCTGCTCG+TGG 0.605957 4.2:+2186606 None:intergenic
GATATCTGAAGGGTCGTCGA+TGG 0.615099 4.2:+2186787 None:intergenic
AAAAGTCAAAGACACTTTCG+CGG 0.636990 4.2:-2186285 MS.gene04761:CDS
TGAAAGATATGATATCTGAA+GGG 0.646022 4.2:+2186777 None:intergenic
TGTTCATCACCCTTTCTCTG+CGG 0.653629 4.2:-2186716 MS.gene04761:CDS
TCCGGCGAGAAGAATGTCGG+CGG 0.657252 4.2:+2186351 None:intergenic
ACTGACCGGAGTTCCGACAT+GGG 0.670070 4.2:-2186326 MS.gene04761:CDS
GAATATAGTGTTGTTGAGAG+GGG 0.690549 4.2:+2186628 None:intergenic
AGTCAAAGACACTTTCGCGG+TGG 0.716882 4.2:-2186282 MS.gene04761:CDS
GGGGTGTTTGGTGAAACAGG+AGG 0.744562 4.2:+2186647 None:intergenic
GTAGTGTTGAAGGAGATGGG+AGG 0.751983 4.2:+2186854 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGAAAGATATGATATCTGAA+GGG + chr4.2:2186255-2186274 None:intergenic 25.0%
! TTGAAAGATATGATATCTGA+AGG + chr4.2:2186256-2186275 None:intergenic 25.0%
!! ACACAAACTTTGATAGTTAT+TGG - chr4.2:2186575-2186594 MS.gene04761:CDS 25.0%
!! ATGGTTTTCTATCAAGTTTA+AGG + chr4.2:2186360-2186379 None:intergenic 25.0%
!!! CAATGATTTTAGAACTTCAA+TGG - chr4.2:2186792-2186811 MS.gene04761:CDS 25.0%
!!! GAAGTTCTAAAATCATTGTA+CGG + chr4.2:2186790-2186809 None:intergenic 25.0%
ACAACACTTAACTGATGTTA+TGG - chr4.2:2186135-2186154 MS.gene04761:CDS 30.0%
TGAAGTTTACACAGAGATTT+GGG - chr4.2:2186918-2186937 MS.gene04761:CDS 30.0%
TTGAAGTTTACACAGAGATT+TGG - chr4.2:2186917-2186936 MS.gene04761:CDS 30.0%
! AACATCAGTTAAGTGTTGTT+TGG + chr4.2:2186134-2186153 None:intergenic 30.0%
! AATATTTTCACCAAGTGAGT+TGG - chr4.2:2186837-2186856 MS.gene04761:CDS 30.0%
! CAAACTTTGATAGTTATTGG+TGG - chr4.2:2186578-2186597 MS.gene04761:CDS 30.0%
!! AAAAGCTCTGTTTTTCTTCT+GGG + chr4.2:2186533-2186552 None:intergenic 30.0%
!!! TGATTTTAGAACTTCAATGG+TGG - chr4.2:2186795-2186814 MS.gene04761:CDS 30.0%
!!! TTGTTTTTTCGTAGAAACTG+AGG + chr4.2:2186441-2186460 None:intergenic 30.0%
AAAAGATTCTCCAACTCACT+TGG + chr4.2:2186850-2186869 None:intergenic 35.0%
AAAAGTCAAAGACACTTTCG+CGG - chr4.2:2186744-2186763 MS.gene04761:CDS 35.0%
! AAGGTTTGGGTTTGGAAATA+GGG + chr4.2:2186216-2186235 None:intergenic 35.0%
! GAATATAGTGTTGTTGAGAG+GGG + chr4.2:2186404-2186423 None:intergenic 35.0%
! GGAATATAGTGTTGTTGAGA+GGG + chr4.2:2186405-2186424 None:intergenic 35.0%
! TCTTTAGCACATGAGTTGAA+AGG + chr4.2:2186556-2186575 None:intergenic 35.0%
! TGGAATATAGTGTTGTTGAG+AGG + chr4.2:2186406-2186425 None:intergenic 35.0%
!! GAAAAGCTCTGTTTTTCTTC+TGG + chr4.2:2186534-2186553 None:intergenic 35.0%
!! TCTTTGACTTTTCCGTTCAA+CGG + chr4.2:2186736-2186755 None:intergenic 35.0%
!!! TAAGTGTTGTTTGGTTTTGC+AGG + chr4.2:2186125-2186144 None:intergenic 35.0%
GGTTTGGAAATAGGGTGAAA+GGG + chr4.2:2186208-2186227 None:intergenic 40.0%
TCGATGGTTTGAGAAGGTTT+GGG + chr4.2:2186229-2186248 None:intergenic 40.0%
! ACAGTAGTGTTGAAGGAGAT+GGG + chr4.2:2186181-2186200 None:intergenic 40.0%
! GAAGGTTTGGGTTTGGAAAT+AGG + chr4.2:2186217-2186236 None:intergenic 40.0%
! TACAGTAGTGTTGAAGGAGA+TGG + chr4.2:2186182-2186201 None:intergenic 40.0%
ACTATTTGCACCGCAGAGAA+AGG + chr4.2:2186326-2186345 None:intergenic 45.0%
ATGGGTGTTCTTCCGTTGAA+CGG - chr4.2:2186721-2186740 MS.gene04761:CDS 45.0%
CTATTTGCACCGCAGAGAAA+GGG + chr4.2:2186325-2186344 None:intergenic 45.0%
GGGTTTGGAAATAGGGTGAA+AGG + chr4.2:2186209-2186228 None:intergenic 45.0%
GTCGATGGTTTGAGAAGGTT+TGG + chr4.2:2186230-2186249 None:intergenic 45.0%
TGCAGGATCCAAATGAGGAT+CGG + chr4.2:2186108-2186127 None:intergenic 45.0%
TGTTCATCACCCTTTCTCTG+CGG - chr4.2:2186313-2186332 MS.gene04761:CDS 45.0%
TTTGGTGAAACAGGAGGACA+TGG + chr4.2:2186379-2186398 None:intergenic 45.0%
! GGGTAGTACAGTAGTGTTGA+AGG + chr4.2:2186188-2186207 None:intergenic 45.0%
! GGTTTGAGAAGGTTTGGGTT+TGG + chr4.2:2186224-2186243 None:intergenic 45.0%
! GGTTTTGCAGGATCCAAATG+AGG + chr4.2:2186113-2186132 None:intergenic 45.0%
! TTTTCCGGCGAGAAGAATGT+CGG + chr4.2:2186684-2186703 None:intergenic 45.0%
!! GGGAAGCTTTATTCTCTGAC+TGG - chr4.2:2186938-2186957 MS.gene04761:CDS 45.0%
AACTGAGGTTGTTCTGCTCG+TGG + chr4.2:2186426-2186445 None:intergenic 50.0%
AGTCAAAGACACTTTCGCGG+TGG - chr4.2:2186747-2186766 MS.gene04761:CDS 50.0%
CAACGGAAGAACACCCATGT+CGG + chr4.2:2186719-2186738 None:intergenic 50.0%
CGCATGTTCCGATCCTCATT+TGG - chr4.2:2186097-2186116 MS.gene04761:CDS 50.0%
GATATCTGAAGGGTCGTCGA+TGG + chr4.2:2186245-2186264 None:intergenic 50.0%
GCAGAGAAAGGGTGATGAAC+AGG + chr4.2:2186314-2186333 None:intergenic 50.0%
! CAGGAAGAGATTTTGCGTCG+TGG + chr4.2:2186295-2186314 None:intergenic 50.0%
! GAGATGGGAGGTGCAAATAG+TGG + chr4.2:2186166-2186185 None:intergenic 50.0%
! GTAGTGTTGAAGGAGATGGG+AGG + chr4.2:2186178-2186197 None:intergenic 50.0%
!! AGAGGGGTGTTTGGTGAAAC+AGG + chr4.2:2186388-2186407 None:intergenic 50.0%
!! GTGTTGTTGAGAGGGGTGTT+TGG + chr4.2:2186397-2186416 None:intergenic 50.0%
AACTGACCGGAGTTCCGACA+TGG - chr4.2:2186702-2186721 MS.gene04761:CDS 55.0%
ACTGACCGGAGTTCCGACAT+GGG - chr4.2:2186703-2186722 MS.gene04761:CDS 55.0%
CTTCTCGCCGGAAAACTGAC+CGG - chr4.2:2186689-2186708 MS.gene04761:CDS 55.0%
GAACACCCATGTCGGAACTC+CGG + chr4.2:2186711-2186730 None:intergenic 55.0%
GGGTCGTCGATGGTTTGAGA+AGG + chr4.2:2186235-2186254 None:intergenic 55.0%
! CGGAACTCCGGTCAGTTTTC+CGG + chr4.2:2186699-2186718 None:intergenic 55.0%
! GGGGTGTTTGGTGAAACAGG+AGG + chr4.2:2186385-2186404 None:intergenic 55.0%
ATGTCGGCGGCGAGACTTAG+AGG + chr4.2:2186668-2186687 None:intergenic 60.0%
TCCGGCGAGAAGAATGTCGG+CGG + chr4.2:2186681-2186700 None:intergenic 60.0%
GCCGCCGACATTCTTCTCGC+CGG - chr4.2:2186677-2186696 MS.gene04761:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 2186085 2186966 2186085 ID=MS.gene04761
chr4.2 mRNA 2186085 2186966 2186085 ID=MS.gene04761.t1;Parent=MS.gene04761
chr4.2 exon 2186085 2186966 2186085 ID=MS.gene04761.t1.exon1;Parent=MS.gene04761.t1
chr4.2 CDS 2186085 2186966 2186085 ID=cds.MS.gene04761.t1;Parent=MS.gene04761.t1
Gene Sequence

>MS.gene04761

ATGAGAATCTCTCGCATGTTCCGATCCTCATTTGGATCCTGCAAAACCAAACAACACTTAACTGATGTTATGGAAAAACCACTATTTGCACCTCCCATCTCCTTCAACACTACTGTACTACCCTTTCACCCTATTTCCAAACCCAAACCTTCTCAAACCATCGACGACCCTTCAGATATCATATCTTTCAAAGATTCTCATTCTCTTCCACGACGCAAAATCTCTTCCTGTTCATCACCCTTTCTCTGCGGTGCAAATAGTAATAACAACAACCTTAAACTTGATAGAAAACCATGTCCTCCTGTTTCACCAAACACCCCTCTCAACAACACTATATTCCACGAGCAGAACAACCTCAGTTTCTACGAAAAAACAAACAGTTCAACGAAAAATGTTGCAAAGAAAAACAAAAAGAAGAAGAAAAAGAAGATGAAGAAGAAACATACCCAGAAGAAAAACAGAGCTTTTCCTTTCAACTCATGTGCTAAAGACACAAACTTTGATAGTTATTGGTGGTATAGCAGTGACGAAGACGATGAAACAGATACACTTTTCTCTTCAAAGTCTCTCTCATCAGATTCCTCTAAGTCTCGCCGCCGACATTCTTCTCGCCGGAAAACTGACCGGAGTTCCGACATGGGTGTTCTTCCGTTGAACGGAAAAGTCAAAGACACTTTCGCGGTGGTGAAACGTTCAAGTGATCCGTACAATGATTTTAGAACTTCAATGGTGGAAATGATTGTTGAGAAACAAATATTTTCACCAAGTGAGTTGGAGAATCTTTTACAGTGTTTTCTTTCACTCAATTCACATCATCATCACAAGATCATTGTTGAAGTTTACACAGAGATTTGGGAAGCTTTATTCTCTGACTGGCTTTAA
Protein sequence

>MS.gene04761.t1

MRISRMFRSSFGSCKTKQHLTDVMEKPLFAPPISFNTTVLPFHPISKPKPSQTIDDPSDIISFKDSHSLPRRKISSCSSPFLCGANSNNNNLKLDRKPCPPVSPNTPLNNTIFHEQNNLSFYEKTNSSTKNVAKKNKKKKKKKMKKKHTQKKNRAFPFNSCAKDTNFDSYWWYSSDEDDETDTLFSSKSLSSDSSKSRRRHSSRRKTDRSSDMGVLPLNGKVKDTFAVVKRSSDPYNDFRTSMVEMIVEKQIFSPSELENLLQCFLSLNSHHHHKIIVEVYTEIWEALFSDWL