AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene05916

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05916.t1 MTR_8g103520 91.946 298 13 3 1 292 1 293 2.11e-167 466
MS.gene05916.t1 MTR_0907s0020 53.731 67 31 0 223 289 102 168 5.74e-19 82.8
MS.gene05916.t1 MTR_5g079710 42.683 82 47 0 207 288 75 156 2.51e-17 80.1
MS.gene05916.t1 MTR_8g087530 56.452 62 27 0 223 284 258 319 3.81e-17 80.9
MS.gene05916.t1 MTR_7g072875 51.562 64 31 0 221 284 217 280 5.07e-17 79.7
MS.gene05916.t1 MTR_7g105790 53.226 62 29 0 226 287 113 174 5.19e-17 77.8
MS.gene05916.t1 MTR_5g075210 44.944 89 42 1 196 284 260 341 6.98e-17 80.1
MS.gene05916.t1 MTR_7g072630 51.562 64 31 0 221 284 279 342 9.79e-17 79.7
MS.gene05916.t1 MTR_2g018030 51.613 62 30 0 223 284 277 338 1.48e-16 79.3
MS.gene05916.t1 MTR_4g052040 45.333 75 41 0 216 290 92 166 4.90e-15 72.0
MS.gene05916.t1 MTR_3g111780 51.389 72 35 0 217 288 192 263 5.12e-15 73.9
MS.gene05916.t1 MTR_4g028930 52.459 61 29 0 224 284 315 375 8.36e-15 74.3
MS.gene05916.t1 MTR_4g052060 44.286 70 39 0 221 290 91 160 4.28e-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.gene05916.t1 AT5G19650 71.642 67 19 0 223 289 154 220 1.22e-29 112
MS.gene05916.t1 AT3G52525 64.516 62 22 0 224 285 67 128 1.59e-21 89.4
MS.gene05916.t1 AT2G18500 28.391 317 164 12 1 287 7 290 3.07e-21 92.0
MS.gene05916.t1 AT2G36026 54.098 61 28 0 229 289 92 152 2.29e-17 78.6
MS.gene05916.t1 AT1G06920 46.269 67 36 0 218 284 238 304 6.46e-16 77.0
MS.gene05916.t1 AT2G30400 49.254 67 34 0 221 287 250 316 1.48e-15 75.9
MS.gene05916.t1 AT4G18830 48.485 66 34 0 218 283 277 342 2.80e-14 72.8
MS.gene05916.t1 AT5G58360 47.826 69 35 1 219 287 221 288 1.48e-13 70.1
MS.gene05916.t1 AT5G01840 51.724 58 28 0 227 284 202 259 8.89e-13 67.4

Find 57 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACACAAACTTTGATAGTTAT+TGG 0.210878 4.4:-3024648 MS.gene05916:CDS
GAAGGTTTGGGTTTGGAAAT+AGG 0.210976 4.4:+3025006 None:intergenic
AGAGGGGTGTTTGGTGAAAC+AGG 0.250670 4.4:+3024835 None:intergenic
TTGAAGTTTACACAGAGATT+TGG 0.279666 4.4:-3024306 MS.gene05916:CDS
GTCGATGGTTTGGGAAGGTT+TGG 0.287203 4.4:+3024993 None:intergenic
CGCATGTTCCGATCCTCATT+TGG 0.311225 4.4:-3025123 MS.gene05916:CDS
AAGGTTTGGGTTTGGAAATA+GGG 0.321417 4.4:+3025007 None:intergenic
ACAACACTTAACTGATGTTA+TGG 0.340442 4.4:-3025085 MS.gene05916:CDS
CTGAAGGGTCGTCGATGGTT+TGG 0.342358 4.4:+3024983 None:intergenic
TACAGTAGTGTTGGAGGAGA+TGG 0.355339 4.4:+3025041 None:intergenic
ATGTCGGCGGCGAGACTTAG+AGG 0.357232 4.4:+3024558 None:intergenic
AACATCAGTTAAGTGTTGTT+TGG 0.382993 4.4:+3025089 None:intergenic
TGAAGGGTCGTCGATGGTTT+GGG 0.384667 4.4:+3024984 None:intergenic
TGAAGTTTACACAGAGATTT+GGG 0.390881 4.4:-3024305 MS.gene05916:CDS
TCGATGGTTTGGGAAGGTTT+GGG 0.396648 4.4:+3024994 None:intergenic
GGTTTGGGAAGGTTTGGGTT+TGG 0.417556 4.4:+3024999 None:intergenic
ACAGTAGTGTTGGAGGAGAT+GGG 0.421440 4.4:+3025042 None:intergenic
GTGTTGTTGAGAGGGGTGTT+TGG 0.450959 4.4:+3024826 None:intergenic
ACTATTTGCACCGCAGAGAA+AGG 0.459628 4.4:+3024897 None:intergenic
GGGAAGCTTTATTCTCTGAC+TGG 0.460429 4.4:-3024285 MS.gene05916:CDS
GCAGAGAAAGGGTGATGAAC+AGG 0.462863 4.4:+3024909 None:intergenic
AACTGAGGTTGTTCTGTTCG+TGG 0.468482 4.4:+3024797 None:intergenic
CAGTAGTGTTGGAGGAGATG+GGG 0.474739 4.4:+3025043 None:intergenic
TTTGGTGAAACAGGGGTACA+TGG 0.475570 4.4:+3024844 None:intergenic
GGGTAGTACAGTAGTGTTGG+AGG 0.476980 4.4:+3025035 None:intergenic
AGTAGTGTTGGAGGAGATGG+GGG 0.479904 4.4:+3025044 None:intergenic
AAAGGGTAGTACAGTAGTGT+TGG 0.488860 4.4:+3025032 None:intergenic
TGGAATATAGTGTTGTTGAG+AGG 0.492043 4.4:+3024817 None:intergenic
CTTCTCGCCGGAAAACTGAC+CGG 0.509033 4.4:-3024534 MS.gene05916:CDS
ATGGGTGTTCTTCCGTTGAA+CGG 0.516099 4.4:-3024502 MS.gene05916:CDS
GGGTTTGGAAATAGGGTGAA+AGG 0.519198 4.4:+3025014 None:intergenic
CTATTTGCACCGCAGAGAAA+GGG 0.525313 4.4:+3024898 None:intergenic
GAGGGGTGTTTGGTGAAACA+GGG 0.533711 4.4:+3024836 None:intergenic
GAAGTTCTAAAATCATTGTA+CGG 0.539349 4.4:+3024436 None:intergenic
TTGAAAGATATGATATCTGA+AGG 0.540231 4.4:+3024967 None:intergenic
GCCGCCGACATTCTTCTCGC+CGG 0.549096 4.4:-3024546 MS.gene05916:CDS
AAAAGATTCTCCAACTCACT+TGG 0.551265 4.4:+3024376 None:intergenic
TGCAGGATCCAAATGAGGAT+CGG 0.558716 4.4:+3025115 None:intergenic
GGTTTGGAAATAGGGTGAAA+GGG 0.564838 4.4:+3025015 None:intergenic
AACTGACCGGAGTTCCGACA+TGG 0.569932 4.4:-3024521 MS.gene05916:CDS
GGGTCGTCGATGGTTTGGGA+AGG 0.579980 4.4:+3024988 None:intergenic
TCTTTAGCACATGAGTTGAA+AGG 0.584272 4.4:+3024670 None:intergenic
CAAACTTTGATAGTTATTGG+TGG 0.586184 4.4:-3024645 MS.gene05916:CDS
GAACACCCATGTCGGAACTC+CGG 0.589971 4.4:+3024515 None:intergenic
GGAATATAGTGTTGTTGAGA+GGG 0.593353 4.4:+3024818 None:intergenic
CAACGGAAGAACACCCATGT+CGG 0.598602 4.4:+3024507 None:intergenic
GATATCTGAAGGGTCGTCGA+TGG 0.615099 4.4:+3024978 None:intergenic
AAAAGTCAAAGACACTTTCG+CGG 0.636990 4.4:-3024479 MS.gene05916:CDS
TGAAAGATATGATATCTGAA+GGG 0.646022 4.4:+3024968 None:intergenic
TGTTCATCACCCTTTCTCTG+CGG 0.653629 4.4:-3024907 MS.gene05916:CDS
TCCGGCGAGAAGAATGTCGG+CGG 0.657252 4.4:+3024545 None:intergenic
ACTGACCGGAGTTCCGACAT+GGG 0.670070 4.4:-3024520 MS.gene05916:CDS
CAGGAAGAGAATTTGCGTCG+TGG 0.673631 4.4:+3024928 None:intergenic
AGGGGTGTTTGGTGAAACAG+GGG 0.673783 4.4:+3024837 None:intergenic
GTAGTGTTGGAGGAGATGGG+GGG 0.685343 4.4:+3025045 None:intergenic
GAATATAGTGTTGTTGAGAG+GGG 0.690549 4.4:+3024819 None:intergenic
AGTCAAAGACACTTTCGCGG+TGG 0.716882 4.4:-3024476 MS.gene05916:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGAAAGATATGATATCTGAA+GGG + chr4.4:3024449-3024468 None:intergenic 25.0%
! TTGAAAGATATGATATCTGA+AGG + chr4.4:3024450-3024469 None:intergenic 25.0%
!! ACACAAACTTTGATAGTTAT+TGG - chr4.4:3024766-3024785 MS.gene05916:CDS 25.0%
!! ATGGTTTTCTATCAAGTTTA+AGG + chr4.4:3024554-3024573 None:intergenic 25.0%
!!! CAATGATTTTAGAACTTCAA+TGG - chr4.4:3024983-3025002 MS.gene05916:CDS 25.0%
!!! GAAGTTCTAAAATCATTGTA+CGG + chr4.4:3024981-3025000 None:intergenic 25.0%
ACAACACTTAACTGATGTTA+TGG - chr4.4:3024329-3024348 MS.gene05916:CDS 30.0%
TGAAGTTTACACAGAGATTT+GGG - chr4.4:3025109-3025128 MS.gene05916:CDS 30.0%
TTGAAGTTTACACAGAGATT+TGG - chr4.4:3025108-3025127 MS.gene05916:CDS 30.0%
! AACATCAGTTAAGTGTTGTT+TGG + chr4.4:3024328-3024347 None:intergenic 30.0%
! AATATTTTCACCAAGTGAGT+TGG - chr4.4:3025028-3025047 MS.gene05916:CDS 30.0%
! CAAACTTTGATAGTTATTGG+TGG - chr4.4:3024769-3024788 MS.gene05916:CDS 30.0%
!! AAAAGCTCTGTTTTTCTTCT+GGG + chr4.4:3024724-3024743 None:intergenic 30.0%
!!! TGATTTTAGAACTTCAATGG+TGG - chr4.4:3024986-3025005 MS.gene05916:CDS 30.0%
!!! TTGTTTTTTCGTAGAAACTG+AGG + chr4.4:3024635-3024654 None:intergenic 30.0%
AAAAGATTCTCCAACTCACT+TGG + chr4.4:3025041-3025060 None:intergenic 35.0%
AAAAGTCAAAGACACTTTCG+CGG - chr4.4:3024935-3024954 MS.gene05916:CDS 35.0%
! AAGGTTTGGGTTTGGAAATA+GGG + chr4.4:3024410-3024429 None:intergenic 35.0%
! GAATATAGTGTTGTTGAGAG+GGG + chr4.4:3024598-3024617 None:intergenic 35.0%
! GGAATATAGTGTTGTTGAGA+GGG + chr4.4:3024599-3024618 None:intergenic 35.0%
! TCTTTAGCACATGAGTTGAA+AGG + chr4.4:3024747-3024766 None:intergenic 35.0%
! TGGAATATAGTGTTGTTGAG+AGG + chr4.4:3024600-3024619 None:intergenic 35.0%
!! GAAAAGCTCTGTTTTTCTTC+TGG + chr4.4:3024725-3024744 None:intergenic 35.0%
!! TCTTTGACTTTTCCGTTCAA+CGG + chr4.4:3024927-3024946 None:intergenic 35.0%
!!! TAAGTGTTGTTTGGTTTTGC+AGG + chr4.4:3024319-3024338 None:intergenic 35.0%
AAAGGGTAGTACAGTAGTGT+TGG + chr4.4:3024385-3024404 None:intergenic 40.0%
GGTTTGGAAATAGGGTGAAA+GGG + chr4.4:3024402-3024421 None:intergenic 40.0%
! GAAGGTTTGGGTTTGGAAAT+AGG + chr4.4:3024411-3024430 None:intergenic 40.0%
AACTGAGGTTGTTCTGTTCG+TGG + chr4.4:3024620-3024639 None:intergenic 45.0%
ACTATTTGCACCGCAGAGAA+AGG + chr4.4:3024520-3024539 None:intergenic 45.0%
ATGGGTGTTCTTCCGTTGAA+CGG - chr4.4:3024912-3024931 MS.gene05916:CDS 45.0%
CTATTTGCACCGCAGAGAAA+GGG + chr4.4:3024519-3024538 None:intergenic 45.0%
GGGTTTGGAAATAGGGTGAA+AGG + chr4.4:3024403-3024422 None:intergenic 45.0%
TGCAGGATCCAAATGAGGAT+CGG + chr4.4:3024302-3024321 None:intergenic 45.0%
TGTTCATCACCCTTTCTCTG+CGG - chr4.4:3024507-3024526 MS.gene05916:CDS 45.0%
! ACAGTAGTGTTGGAGGAGAT+GGG + chr4.4:3024375-3024394 None:intergenic 45.0%
! GGTTTTGCAGGATCCAAATG+AGG + chr4.4:3024307-3024326 None:intergenic 45.0%
! TACAGTAGTGTTGGAGGAGA+TGG + chr4.4:3024376-3024395 None:intergenic 45.0%
! TCGATGGTTTGGGAAGGTTT+GGG + chr4.4:3024423-3024442 None:intergenic 45.0%
! TTTGGTGAAACAGGGGTACA+TGG + chr4.4:3024573-3024592 None:intergenic 45.0%
! TTTTCCGGCGAGAAGAATGT+CGG + chr4.4:3024875-3024894 None:intergenic 45.0%
!! GGGAAGCTTTATTCTCTGAC+TGG - chr4.4:3025129-3025148 MS.gene05916:CDS 45.0%
AGTCAAAGACACTTTCGCGG+TGG - chr4.4:3024938-3024957 MS.gene05916:CDS 50.0%
CAACGGAAGAACACCCATGT+CGG + chr4.4:3024910-3024929 None:intergenic 50.0%
CAGGAAGAGAATTTGCGTCG+TGG + chr4.4:3024489-3024508 None:intergenic 50.0%
CGCATGTTCCGATCCTCATT+TGG - chr4.4:3024291-3024310 MS.gene05916:CDS 50.0%
GATATCTGAAGGGTCGTCGA+TGG + chr4.4:3024439-3024458 None:intergenic 50.0%
GCAGAGAAAGGGTGATGAAC+AGG + chr4.4:3024508-3024527 None:intergenic 50.0%
TGAAGGGTCGTCGATGGTTT+GGG + chr4.4:3024433-3024452 None:intergenic 50.0%
! AGTAGTGTTGGAGGAGATGG+GGG + chr4.4:3024373-3024392 None:intergenic 50.0%
! CAGTAGTGTTGGAGGAGATG+GGG + chr4.4:3024374-3024393 None:intergenic 50.0%
! GGGTAGTACAGTAGTGTTGG+AGG + chr4.4:3024382-3024401 None:intergenic 50.0%
! GGTTTGGGAAGGTTTGGGTT+TGG + chr4.4:3024418-3024437 None:intergenic 50.0%
! GTCGATGGTTTGGGAAGGTT+TGG + chr4.4:3024424-3024443 None:intergenic 50.0%
!! AGAGGGGTGTTTGGTGAAAC+AGG + chr4.4:3024582-3024601 None:intergenic 50.0%
!! AGGGGTGTTTGGTGAAACAG+GGG + chr4.4:3024580-3024599 None:intergenic 50.0%
!! GAGGGGTGTTTGGTGAAACA+GGG + chr4.4:3024581-3024600 None:intergenic 50.0%
!! GTGTTGTTGAGAGGGGTGTT+TGG + chr4.4:3024591-3024610 None:intergenic 50.0%
AACTGACCGGAGTTCCGACA+TGG - chr4.4:3024893-3024912 MS.gene05916:CDS 55.0%
ACTGACCGGAGTTCCGACAT+GGG - chr4.4:3024894-3024913 MS.gene05916:CDS 55.0%
CTGAAGGGTCGTCGATGGTT+TGG + chr4.4:3024434-3024453 None:intergenic 55.0%
CTTCTCGCCGGAAAACTGAC+CGG - chr4.4:3024880-3024899 MS.gene05916:CDS 55.0%
GAACACCCATGTCGGAACTC+CGG + chr4.4:3024902-3024921 None:intergenic 55.0%
! CGGAACTCCGGTCAGTTTTC+CGG + chr4.4:3024890-3024909 None:intergenic 55.0%
! GAGATGGGGGGTGCAAATAG+TGG + chr4.4:3024360-3024379 None:intergenic 55.0%
! GTAGTGTTGGAGGAGATGGG+GGG + chr4.4:3024372-3024391 None:intergenic 55.0%
ATGTCGGCGGCGAGACTTAG+AGG + chr4.4:3024859-3024878 None:intergenic 60.0%
TCCGGCGAGAAGAATGTCGG+CGG + chr4.4:3024872-3024891 None:intergenic 60.0%
! GGGTCGTCGATGGTTTGGGA+AGG + chr4.4:3024429-3024448 None:intergenic 60.0%
GCCGCCGACATTCTTCTCGC+CGG - chr4.4:3024868-3024887 MS.gene05916:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 3024279 3025157 3024279 ID=MS.gene05916
chr4.4 mRNA 3024279 3025157 3024279 ID=MS.gene05916.t1;Parent=MS.gene05916
chr4.4 exon 3024279 3025157 3024279 ID=MS.gene05916.t1.exon1;Parent=MS.gene05916.t1
chr4.4 CDS 3024279 3025157 3024279 ID=cds.MS.gene05916.t1;Parent=MS.gene05916.t1
Gene Sequence

>MS.gene05916

ATGAGAATCTCTCGCATGTTCCGATCCTCATTTGGATCCTGCAAAACCAAACAACACTTAACTGATGTTATGGAAAAACCACTATTTGCACCCCCCATCTCCTCCAACACTACTGTACTACCCTTTCACCCTATTTCCAAACCCAAACCTTCCCAAACCATCGACGACCCTTCAGATATCATATCTTTCAAAGACTCTCATTCTCTTCCACGACGCAAATTCTCTTCCTGTTCATCACCCTTTCTCTGCGGTGCAAATAGTAATAACAACAACCTTAAACTTGATAGAAAACCATGTACCCCTGTTTCACCAAACACCCCTCTCAACAACACTATATTCCACGAACAGAACAACCTCAGTTTCTACGAAAAAACAAACAGTTCAACGAAAAATGTTGCAAAGAAAAACAAAAAGAAGAAGAAGAAGAAGAAGAAGAAACATACCCAGAAGAAAAACAGAGCTTTTCCTTTCAACTCATGTGCTAAAGACACAAACTTTGATAGTTATTGGTGGTATAGCAGTGACGAAGACGATGAAACAGATACACTTTTCTCTTCAAAGTCTCTCTCATCAGATTCCTCTAAGTCTCGCCGCCGACATTCTTCTCGCCGGAAAACTGACCGGAGTTCCGACATGGGTGTTCTTCCGTTGAACGGAAAAGTCAAAGACACTTTCGCGGTGGTGAAACGTTCAAGTGATCCGTACAATGATTTTAGAACTTCAATGGTGGAAATGATTGTTGAGAAACAAATATTTTCACCAAGTGAGTTGGAGAATCTTTTACAGTGTTTTCTTTCACTCAATTCACATCATCATCACAAGATCATTGTTGAAGTTTACACAGAGATTTGGGAAGCTTTATTCTCTGACTGGCTTTAA
Protein sequence

>MS.gene05916.t1

MRISRMFRSSFGSCKTKQHLTDVMEKPLFAPPISSNTTVLPFHPISKPKPSQTIDDPSDIISFKDSHSLPRRKFSSCSSPFLCGANSNNNNLKLDRKPCTPVSPNTPLNNTIFHEQNNLSFYEKTNSSTKNVAKKNKKKKKKKKKKHTQKKNRAFPFNSCAKDTNFDSYWWYSSDEDDETDTLFSSKSLSSDSSKSRRRHSSRRKTDRSSDMGVLPLNGKVKDTFAVVKRSSDPYNDFRTSMVEMIVEKQIFSPSELENLLQCFLSLNSHHHHKIIVEVYTEIWEALFSDWL