AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene80572


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene80572.t1 MTR_4g112370 97.358 265 2 2 1 265 1 260 0.0 528
MS.gene80572.t1 MTR_2g055990 73.622 254 56 4 21 265 8 259 5.80e-135 381
MS.gene80572.t1 MTR_2g054380 54.231 260 98 5 23 265 15 270 3.81e-86 258
MS.gene80572.t1 MTR_1g053130 52.153 209 78 4 79 265 76 284 2.09e-60 192
MS.gene80572.t1 MTR_3g094830 44.693 179 93 4 89 265 85 259 3.35e-52 171
MS.gene80572.t1 MTR_8g040690 46.108 167 85 2 100 265 85 247 3.78e-52 170
MS.gene80572.t1 MTR_8g040680 45.509 167 86 2 100 265 95 257 3.20e-50 166
MS.gene80572.t1 MTR_3g101300 46.821 173 77 6 101 264 69 235 4.03e-45 152
MS.gene80572.t1 MTR_7g064810 46.012 163 82 3 103 264 65 222 3.21e-41 142
MS.gene80572.t1 MTR_3g086740 37.576 165 97 3 103 264 81 242 1.02e-33 122
MS.gene80572.t1 MTR_8g089865 39.157 166 91 5 105 264 59 220 1.61e-32 119
MS.gene80572.t1 MTR_1g102920 89.583 48 4 1 46 93 7 53 1.32e-20 83.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene80572.t1 AT5G23100 58.696 276 85 6 18 265 3 277 5.30e-100 293
MS.gene80572.t1 AT3G25640 66.667 180 45 3 97 265 118 293 1.42e-78 239
MS.gene80572.t1 AT3G25640 66.667 180 45 3 97 265 92 267 2.55e-78 238
MS.gene80572.t1 AT2G41660 52.222 180 70 4 97 265 123 297 2.16e-60 193
MS.gene80572.t1 AT2G21990 49.102 167 80 2 100 265 90 252 3.40e-54 176
MS.gene80572.t1 AT4G39610 47.059 170 85 2 101 265 95 264 5.83e-54 176
MS.gene80572.t1 AT5G06990 46.893 177 78 3 100 265 90 261 1.61e-53 174
MS.gene80572.t1 AT2G37880 50.595 168 73 4 103 264 81 244 1.22e-48 161
MS.gene80572.t1 AT5G42680 47.561 164 76 5 105 264 79 236 5.14e-42 144
MS.gene80572.t1 AT5G42680 47.561 164 76 5 105 264 79 236 5.14e-42 144
MS.gene80572.t1 AT1G21050 44.444 162 82 4 105 264 89 244 1.93e-40 140
MS.gene80572.t1 AT1G21050 44.444 162 82 4 105 264 125 280 2.37e-40 141
MS.gene80572.t1 AT1G76610 43.713 167 78 4 100 264 73 225 8.75e-36 127
MS.gene80572.t1 AT5G65340 41.212 165 92 4 105 264 85 249 6.54e-34 123
MS.gene80572.t1 AT2G22460 38.889 162 93 2 103 263 85 241 1.29e-31 117

Find 51 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGGTGGGTGATGGTTCTTC+TGG 0.210488 8.1:+14608087 None:intergenic
TTGGTTCGTGAAATGGCTTC+TGG 0.218997 8.1:-14607778 MS.gene80572:CDS
TCACGAACCAAACCACTAAT+TGG 0.265712 8.1:+14607790 None:intergenic
CGTGTTGTTGGAACCCTCTT+TGG 0.284809 8.1:-14607892 MS.gene80572:CDS
CTTCCAAAAGACACTTTCAT+TGG 0.317781 8.1:-14608134 MS.gene80572:CDS
ACACCAGCACCCATTGAAAT+AGG 0.321507 8.1:+14607580 None:intergenic
TGGTGGGTGATGGTTCTTCT+GGG 0.369853 8.1:+14608088 None:intergenic
TAGTGGTTTGGTTCGTGAAA+TGG 0.373367 8.1:-14607785 MS.gene80572:CDS
TCAGGAGCACCATTGCTATC+AGG 0.382273 8.1:+14607448 None:intergenic
TGGTTCGTGAAATGGCTTCT+GGG 0.390455 8.1:-14607777 MS.gene80572:CDS
TGCAACACCAATTAGTGGTT+TGG 0.390838 8.1:-14607797 MS.gene80572:CDS
GGTCTTGGTTCACGTGTTGT+TGG 0.394137 8.1:-14607904 MS.gene80572:CDS
TGTCCAATGAAAGTGTCTTT+TGG 0.397094 8.1:+14608131 None:intergenic
GCATGTCCTCCTCCTGAAAC+AGG 0.405991 8.1:+14608018 None:intergenic
GAGCTTGCAACACCAATTAG+TGG 0.410894 8.1:-14607802 MS.gene80572:CDS
TCAAATCTACCCTCTGGTCT+TGG 0.414007 8.1:-14607919 MS.gene80572:CDS
CTTTGGAGGACTTATTGTAA+TGG 0.414774 8.1:-14607673 MS.gene80572:CDS
GCAAGGTTTGAGAGAATTGT+TGG 0.417883 8.1:-14607505 MS.gene80572:CDS
GAAAATGAAAACACTAATCA+TGG 0.440137 8.1:-14608199 None:intergenic
TTTCATTGGACAAACAAAGT+TGG 0.442917 8.1:-14608120 MS.gene80572:CDS
AGAAAAGCTGGTTGTGAAGT+AGG 0.455946 8.1:+14607829 None:intergenic
GATTGTTGCAAGAGCCACTT+TGG 0.458144 8.1:-14607690 MS.gene80572:CDS
TCTTGAATGTGATAAAGTTA+AGG 0.462515 8.1:-14607740 MS.gene80572:CDS
AGCAAATAAACACTAAGCTC+AGG 0.497939 8.1:+14607430 None:intergenic
GCTGTTGAGCCTATTTCAAT+GGG 0.498481 8.1:-14607589 MS.gene80572:CDS
GAGCCTATTTCAATGGGTGC+TGG 0.499015 8.1:-14607583 MS.gene80572:CDS
AGCTGTTGAGCCTATTTCAA+TGG 0.499933 8.1:-14607590 MS.gene80572:CDS
CAAGGTTTGAGAGAATTGTT+GGG 0.500323 8.1:-14607504 MS.gene80572:CDS
GAACAACCAGCTTCACCACC+TGG 0.519832 8.1:+14607553 None:intergenic
GATAAAGTTAAGGAGAAAGA+AGG 0.526239 8.1:-14607730 MS.gene80572:CDS
GAAAAGCTGGTTGTGAAGTA+GGG 0.527380 8.1:+14607830 None:intergenic
GGTGAAGCTGGTTGTTCTGA+TGG 0.530478 8.1:-14607547 MS.gene80572:CDS
AAGTTATGTATATGAGAGCA+AGG 0.549681 8.1:-14607522 MS.gene80572:CDS
TGTTGCAAGAGCCACTTTGG+AGG 0.550258 8.1:-14607687 MS.gene80572:CDS
AACCGTTCAAATCTACCCTC+TGG 0.551791 8.1:-14607925 MS.gene80572:CDS
ACGTATTCTTGAAATTGCTA+CGG 0.556557 8.1:+14607972 None:intergenic
GAGGAGGACATGCAGCTACA+AGG 0.559240 8.1:-14608008 MS.gene80572:CDS
AGATGGGTCTTGAGGAGTTG+AGG 0.562495 8.1:+14608155 None:intergenic
GCAAGCTCAATGAGAAAAGC+TGG 0.564770 8.1:+14607817 None:intergenic
TCGTGAAATGGCTTCTGGGT+TGG 0.566947 8.1:-14607773 MS.gene80572:CDS
ACCCTCTTTGGTTACCGTCG+TGG 0.572266 8.1:-14607880 MS.gene80572:CDS
GACCAGAGGGTAGATTTGAA+CGG 0.580928 8.1:+14607923 None:intergenic
CGAAATGAACATGGCCACGA+CGG 0.590275 8.1:+14607866 None:intergenic
GCCACGACGGTAACCAAAGA+GGG 0.602309 8.1:+14607879 None:intergenic
TCTGAAAAGCGAAATGAACA+TGG 0.608653 8.1:+14607857 None:intergenic
GGCCACGACGGTAACCAAAG+AGG 0.632589 8.1:+14607878 None:intergenic
TTTGGTAATAGAAGAGAATG+TGG 0.634366 8.1:-14607637 MS.gene80572:CDS
TTACAATAAGTCCTCCAAAG+TGG 0.641562 8.1:+14607676 None:intergenic
ACACGTGAACCAAGACCAGA+GGG 0.658866 8.1:+14607910 None:intergenic
AACACGTGAACCAAGACCAG+AGG 0.689373 8.1:+14607909 None:intergenic
ATGATGAATCCTGATAGCAA+TGG 0.728571 8.1:-14607457 MS.gene80572:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TCTTGAATGTGATAAAGTTA+AGG - chr8.1:14607875-14607894 MS.gene80572:CDS 25.0%
!! AGGTTTTTCTTCATGTTTTT+TGG + chr8.1:14607580-14607599 None:intergenic 25.0%
!! TATTGTAATGGAAAAAAGTG+TGG - chr8.1:14607954-14607973 MS.gene80572:CDS 25.0%
!!! AAGAATACGTTCTGTTTTAA+CGG - chr8.1:14607656-14607675 MS.gene80572:CDS 25.0%
!!! GTTTTGTTCTTCTATGATTT+TGG + chr8.1:14607556-14607575 None:intergenic 25.0%
AAGTTATGTATATGAGAGCA+AGG - chr8.1:14608093-14608112 MS.gene80572:CDS 30.0%
ACGTATTCTTGAAATTGCTA+CGG + chr8.1:14607646-14607665 None:intergenic 30.0%
AGAATGTGGTGAAAAAGATT+GGG - chr8.1:14607992-14608011 MS.gene80572:CDS 30.0%
GATAAAGTTAAGGAGAAAGA+AGG - chr8.1:14607885-14607904 MS.gene80572:CDS 30.0%
TTTCATTGGACAAACAAAGT+TGG - chr8.1:14607495-14607514 MS.gene80572:CDS 30.0%
! AATGGAAAAAAGTGTGGATT+TGG - chr8.1:14607960-14607979 MS.gene80572:CDS 30.0%
! TTCTTCTATGATTTTGGACA+TGG + chr8.1:14607550-14607569 None:intergenic 30.0%
! TTTGGTAATAGAAGAGAATG+TGG - chr8.1:14607978-14607997 MS.gene80572:CDS 30.0%
AGCAAATAAACACTAAGCTC+AGG + chr8.1:14608188-14608207 None:intergenic 35.0%
ATGATGAATCCTGATAGCAA+TGG - chr8.1:14608158-14608177 MS.gene80572:CDS 35.0%
CAAGGTTTGAGAGAATTGTT+GGG - chr8.1:14608111-14608130 MS.gene80572:CDS 35.0%
CATGAAGAAAAACCTGTTTC+AGG - chr8.1:14607585-14607604 MS.gene80572:CDS 35.0%
CTTCCAAAAGACACTTTCAT+TGG - chr8.1:14607481-14607500 MS.gene80572:CDS 35.0%
GAGAATGTGGTGAAAAAGAT+TGG - chr8.1:14607991-14608010 MS.gene80572:CDS 35.0%
TCTGAAAAGCGAAATGAACA+TGG + chr8.1:14607761-14607780 None:intergenic 35.0%
TTACAATAAGTCCTCCAAAG+TGG + chr8.1:14607942-14607961 None:intergenic 35.0%
! CTTTGGAGGACTTATTGTAA+TGG - chr8.1:14607942-14607961 MS.gene80572:CDS 35.0%
! TCTATGATTTTGGACATGGT+GGG + chr8.1:14607546-14607565 None:intergenic 35.0%
! TTCTATGATTTTGGACATGG+TGG + chr8.1:14607547-14607566 None:intergenic 35.0%
!!! GAAAGTGTCTTTTGGAAGAT+GGG + chr8.1:14607479-14607498 None:intergenic 35.0%
!!! TGAAAGTGTCTTTTGGAAGA+TGG + chr8.1:14607480-14607499 None:intergenic 35.0%
!!! TGTCCAATGAAAGTGTCTTT+TGG + chr8.1:14607487-14607506 None:intergenic 35.0%
AGAAAAGCTGGTTGTGAAGT+AGG + chr8.1:14607789-14607808 None:intergenic 40.0%
AGCTGTTGAGCCTATTTCAA+TGG - chr8.1:14608025-14608044 MS.gene80572:CDS 40.0%
GAAAAGCTGGTTGTGAAGTA+GGG + chr8.1:14607788-14607807 None:intergenic 40.0%
GAAGAAAAACCTGTTTCAGG+AGG - chr8.1:14607588-14607607 MS.gene80572:CDS 40.0%
GCAAGGTTTGAGAGAATTGT+TGG - chr8.1:14608110-14608129 MS.gene80572:CDS 40.0%
GCTGTTGAGCCTATTTCAAT+GGG - chr8.1:14608026-14608045 MS.gene80572:CDS 40.0%
TCACGAACCAAACCACTAAT+TGG + chr8.1:14607828-14607847 None:intergenic 40.0%
TGCAACACCAATTAGTGGTT+TGG - chr8.1:14607818-14607837 MS.gene80572:CDS 40.0%
!! TAGTGGTTTGGTTCGTGAAA+TGG - chr8.1:14607830-14607849 MS.gene80572:CDS 40.0%
AACCGTTCAAATCTACCCTC+TGG - chr8.1:14607690-14607709 MS.gene80572:CDS 45.0%
ACACCAGCACCCATTGAAAT+AGG + chr8.1:14608038-14608057 None:intergenic 45.0%
GAAAAACCTGTTTCAGGAGG+AGG - chr8.1:14607591-14607610 MS.gene80572:CDS 45.0%
GACCAGAGGGTAGATTTGAA+CGG + chr8.1:14607695-14607714 None:intergenic 45.0%
GAGCTTGCAACACCAATTAG+TGG - chr8.1:14607813-14607832 MS.gene80572:CDS 45.0%
GATTGTTGCAAGAGCCACTT+TGG - chr8.1:14607925-14607944 MS.gene80572:CDS 45.0%
GCAAGCTCAATGAGAAAAGC+TGG + chr8.1:14607801-14607820 None:intergenic 45.0%
TCAAATCTACCCTCTGGTCT+TGG - chr8.1:14607696-14607715 MS.gene80572:CDS 45.0%
TGGTTCGTGAAATGGCTTCT+GGG - chr8.1:14607838-14607857 MS.gene80572:CDS 45.0%
! TTGGTTCGTGAAATGGCTTC+TGG - chr8.1:14607837-14607856 MS.gene80572:CDS 45.0%
!! CTTTTGGAAGATGGGTCTTG+AGG + chr8.1:14607471-14607490 None:intergenic 45.0%
!!! ATTTTGGACATGGTGGGTGA+TGG + chr8.1:14607540-14607559 None:intergenic 45.0%
AACACGTGAACCAAGACCAG+AGG + chr8.1:14607709-14607728 None:intergenic 50.0%
ACACGTGAACCAAGACCAGA+GGG + chr8.1:14607708-14607727 None:intergenic 50.0%
AGATGGGTCTTGAGGAGTTG+AGG + chr8.1:14607463-14607482 None:intergenic 50.0%
CGAAATGAACATGGCCACGA+CGG + chr8.1:14607752-14607771 None:intergenic 50.0%
GAGCCTATTTCAATGGGTGC+TGG - chr8.1:14608032-14608051 MS.gene80572:CDS 50.0%
GGTCTTGGTTCACGTGTTGT+TGG - chr8.1:14607711-14607730 MS.gene80572:CDS 50.0%
GGTGAAGCTGGTTGTTCTGA+TGG - chr8.1:14608068-14608087 MS.gene80572:CDS 50.0%
TCGTGAAATGGCTTCTGGGT+TGG - chr8.1:14607842-14607861 MS.gene80572:CDS 50.0%
! CGTGTTGTTGGAACCCTCTT+TGG - chr8.1:14607723-14607742 MS.gene80572:CDS 50.0%
! TGGTGGGTGATGGTTCTTCT+GGG + chr8.1:14607530-14607549 None:intergenic 50.0%
! TGTTGCAAGAGCCACTTTGG+AGG - chr8.1:14607928-14607947 MS.gene80572:CDS 50.0%
!! ATGGTGGGTGATGGTTCTTC+TGG + chr8.1:14607531-14607550 None:intergenic 50.0%
!! TCAGGAGCACCATTGCTATC+AGG + chr8.1:14608170-14608189 None:intergenic 50.0%
ACCCTCTTTGGTTACCGTCG+TGG - chr8.1:14607735-14607754 MS.gene80572:CDS 55.0%
GAACAACCAGCTTCACCACC+TGG + chr8.1:14608065-14608084 None:intergenic 55.0%
GAGGAGGACATGCAGCTACA+AGG - chr8.1:14607607-14607626 MS.gene80572:CDS 55.0%
GCATGTCCTCCTCCTGAAAC+AGG + chr8.1:14607600-14607619 None:intergenic 55.0%
GCCACGACGGTAACCAAAGA+GGG + chr8.1:14607739-14607758 None:intergenic 55.0%
! GTTTTGCCAGGTGGTGAAGC+TGG - chr8.1:14608056-14608075 MS.gene80572:CDS 55.0%
!!! ATGGGTGCTGGTGTTTTGCC+AGG - chr8.1:14608044-14608063 MS.gene80572:CDS 55.0%
GGCCACGACGGTAACCAAAG+AGG + chr8.1:14607740-14607759 None:intergenic 60.0%
!!! GGTGCTGGTGTTTTGCCAGG+TGG - chr8.1:14608047-14608066 MS.gene80572:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 14607420 14608217 14607420 ID=MS.gene80572
chr8.1 mRNA 14607420 14608217 14607420 ID=MS.gene80572.t1;Parent=MS.gene80572
chr8.1 exon 14607420 14608217 14607420 ID=MS.gene80572.t1.exon1;Parent=MS.gene80572.t1
chr8.1 CDS 14607420 14608217 14607420 ID=cds.MS.gene80572.t1;Parent=MS.gene80572.t1
Gene Sequence

>MS.gene80572

ATGAAAACACTAATCATGGAAGACACAAACACAAGCACAACCTCAACTCCTCAAGACCCATCTTCCAAAAGACACTTTCATTGGACAAACAAAGTTGGAAATGAAGACCCAGAAGAACCATCACCCACCATGTCCAAAATCATAGAAGAACAAAACACCAAAAAACATGAAGAAAAACCTGTTTCAGGAGGAGGACATGCAGCTACAAGGAAGAAGCTACAAACCGTAGCAATTTCAAGAATACGTTCTGTTTTAACGGTATTCAGCAAAAACCGTTCAAATCTACCCTCTGGTCTTGGTTCACGTGTTGTTGGAACCCTCTTTGGTTACCGTCGTGGCCATGTTCATTTCGCTTTTCAGAAAGACCCTACTTCACAACCAGCTTTTCTCATTGAGCTTGCAACACCAATTAGTGGTTTGGTTCGTGAAATGGCTTCTGGGTTGGTACGAATTGCTCTTGAATGTGATAAAGTTAAGGAGAAAGAAGGTGAGAAGAAGAGTTTGAGATTGTTGCAAGAGCCACTTTGGAGGACTTATTGTAATGGAAAAAAGTGTGGATTTGGTAATAGAAGAGAATGTGGTGAAAAAGATTGGGAGATTTTGAAAGCTGTTGAGCCTATTTCAATGGGTGCTGGTGTTTTGCCAGGTGGTGAAGCTGGTTGTTCTGATGGTGAAGTTATGTATATGAGAGCAAGGTTTGAGAGAATTGTTGGGTCTAGAGATTCTGAAGCTTTCTATATGATGAATCCTGATAGCAATGGTGCTCCTGAGCTTAGTGTTTATTTGCTTAGAGTTTAA

Protein sequence

>MS.gene80572.t1

MKTLIMEDTNTSTTSTPQDPSSKRHFHWTNKVGNEDPEEPSPTMSKIIEEQNTKKHEEKPVSGGGHAATRKKLQTVAISRIRSVLTVFSKNRSNLPSGLGSRVVGTLFGYRRGHVHFAFQKDPTSQPAFLIELATPISGLVREMASGLVRIALECDKVKEKEGEKKSLRLLQEPLWRTYCNGKKCGFGNRRECGEKDWEILKAVEPISMGAGVLPGGEAGCSDGEVMYMRARFERIVGSRDSEAFYMMNPDSNGAPELSVYLLRV