AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene067336


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067336.t1 MTR_8g024250 97.173 283 6 1 1 283 1 281 0.0 563
MS.gene067336.t1 MTR_7g118270 63.784 185 67 0 98 282 44 228 3.77e-89 265
MS.gene067336.t1 MTR_7g106050 37.013 154 97 0 104 257 24 177 1.56e-29 111
MS.gene067336.t1 MTR_4g051880 34.507 142 85 1 124 257 45 186 7.47e-22 91.3
MS.gene067336.t1 MTR_3g092790 33.333 150 99 1 123 272 49 197 1.28e-21 90.5
MS.gene067336.t1 MTR_2g086790 30.233 172 107 3 98 257 17 187 3.36e-20 87.0
MS.gene067336.t1 MTR_1g057420 30.464 151 105 0 119 269 39 189 5.51e-20 86.3
MS.gene067336.t1 MTR_2g011350 25.949 158 113 3 111 266 35 190 5.09e-15 72.4
MS.gene067336.t1 MTR_5g087760 26.705 176 117 6 97 261 60 234 1.85e-12 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.gene067336.t1 AT4G01410 49.462 186 94 0 97 282 41 226 1.11e-56 182
MS.gene067336.t1 AT3G44220 29.609 179 123 1 107 282 27 205 2.01e-24 97.8
MS.gene067336.t1 AT3G52470 30.857 175 115 4 98 269 17 188 2.70e-24 97.8
MS.gene067336.t1 AT5G53730 33.557 149 97 1 111 257 38 186 4.41e-24 97.4
MS.gene067336.t1 AT2G35960 30.968 155 107 0 115 269 36 190 2.34e-23 95.1
MS.gene067336.t1 AT5G22200 32.692 156 105 0 119 274 43 198 5.26e-23 94.4
MS.gene067336.t1 AT5G06330 35.220 159 93 7 119 271 39 193 7.69e-23 94.0
MS.gene067336.t1 AT3G11660 33.735 166 101 7 97 257 16 177 1.73e-22 92.8
MS.gene067336.t1 AT4G09590 29.814 161 113 0 101 261 23 183 2.57e-22 92.4
MS.gene067336.t1 AT2G35970 30.435 161 112 0 101 261 23 183 9.57e-22 90.9
MS.gene067336.t1 AT5G22870 27.933 179 122 2 86 258 9 186 1.98e-16 76.6
MS.gene067336.t1 AT4G05220 24.405 168 125 2 101 268 47 212 1.45e-15 74.3
MS.gene067336.t1 AT1G61760 27.374 179 127 2 101 278 45 221 4.74e-15 73.2
MS.gene067336.t1 AT2G35980 27.848 158 113 1 104 260 45 202 8.66e-13 66.6

Find 73 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGACGTGGTTGTTCCATTTC+AGG 0.182704 8.4:-70804328 None:intergenic
GTGGGTCAGATTCCTCTTAT+TGG 0.186108 8.4:+70805018 MS.gene067336:CDS
TGTCGTGGTTGTTCCATTTC+GGG 0.198552 8.4:-70804412 None:intergenic
TGACGTGGTTGTTCCATTTC+GGG 0.199740 8.4:-70804370 None:intergenic
GCATTATAATCCTCATCTTA+TGG 0.245398 8.4:+70804551 MS.gene067336:CDS
TTGTCGTGGTTGTTCCATTT+CGG 0.261861 8.4:-70804413 None:intergenic
TTGACGTGGTTGTTCCATTT+CGG 0.262171 8.4:-70804371 None:intergenic
CATATGCAATGTTCACGTTT+TGG 0.290407 8.4:-70804502 None:intergenic
TTCAAAACATCCACCGAAAC+TGG 0.309717 8.4:-70804847 None:intergenic
TTGGTGTTGGATGAGAATTA+TGG 0.323767 8.4:+70804874 MS.gene067336:CDS
TGGTGTTGGATGAGAATTAT+GGG 0.333006 8.4:+70804875 MS.gene067336:CDS
TAAATGGATACACGTTTGTT+TGG 0.340333 8.4:-70804694 None:intergenic
GGAAAGCCTGTCAAAGTAAA+TGG 0.359178 8.4:-70804710 None:intergenic
TGTGAATGGGGTTGTTGGTT+AGG 0.359389 8.4:-70804256 None:intergenic
TATGCTTCCATCGCTTTACT+TGG 0.363370 8.4:+70804774 MS.gene067336:CDS
AGGCGTGCCGGTTCCAGTTT+CGG 0.370573 8.4:+70804834 MS.gene067336:CDS
GTCACAAGTGCTGCAATCTA+TGG 0.378150 8.4:+70804607 MS.gene067336:CDS
ACAATCTTCTTCCTCGTACT+TGG 0.399240 8.4:+70804529 MS.gene067336:CDS
AGCATATGATGAGGCGTAAT+CGG 0.403211 8.4:-70804757 None:intergenic
ACCGGCACGCCTCCTAAAAC+TGG 0.405172 8.4:-70804823 None:intergenic
GCCAAGTGTGATTTATTGTT+GGG 0.416075 8.4:+70804979 MS.gene067336:CDS
TGCAATTTACAATCTTCATA+AGG 0.420084 8.4:+70804668 MS.gene067336:CDS
GGATGAGAATTATGGGGTGG+TGG 0.422334 8.4:+70804882 MS.gene067336:CDS
AACCATACCTTTGTGTTCCA+TGG 0.429303 8.4:-70804455 None:intergenic
TGCCAAGTGTGATTTATTGT+TGG 0.432416 8.4:+70804978 MS.gene067336:CDS
ACGTCGTCAATACCCTGAAA+TGG 0.435785 8.4:+70804315 MS.gene067336:CDS
GTGTATCCATTTACTTTGAC+AGG 0.438624 8.4:+70804704 MS.gene067336:CDS
GGTAGGTTGAGGTGGAAAAC+TGG 0.445600 8.4:+70804925 MS.gene067336:CDS
TTATTGTTGGGTTTGAAGAA+AGG 0.446899 8.4:+70804991 MS.gene067336:CDS
GACGTGGTTGTTCCATTTCA+GGG 0.447247 8.4:-70804327 None:intergenic
GATGAGAATTATGGGGTGGT+GGG 0.453278 8.4:+70804883 MS.gene067336:CDS
TATGTATCCACATCACAAAC+TGG 0.461285 8.4:-70805045 None:intergenic
ACGTCATCAATATCCCGAAA+TGG 0.462255 8.4:+70804357 MS.gene067336:CDS
ACGTCATCAATATCCCGAAA+TGG 0.462255 8.4:+70804399 MS.gene067336:CDS
GATGTTGTGAATGGGGTTGT+TGG 0.473428 8.4:-70804261 None:intergenic
CAAACTGGAGCACCAATAAG+AGG 0.488904 8.4:-70805030 None:intergenic
ACATCCACCGAAACTGGAAC+CGG 0.491068 8.4:-70804841 None:intergenic
GGTGTGAAACTTATATTTCA+AGG 0.491276 8.4:+70804904 MS.gene067336:CDS
TGCATTGAGATTGACATGTC+TGG 0.499930 8.4:-70804649 None:intergenic
GGTTTGAAGAAAGGTCTTGT+GGG 0.505112 8.4:+70805000 MS.gene067336:CDS
TGAAACTTATATTTCAAGGT+AGG 0.512336 8.4:+70804908 MS.gene067336:CDS
TTATATTTCAAGGTAGGTTG+AGG 0.513313 8.4:+70804914 MS.gene067336:CDS
AGGGAAATGATGTTGTGAAT+GGG 0.518707 8.4:-70804269 None:intergenic
TAGGGAAATGATGTTGTGAA+TGG 0.522309 8.4:-70804270 None:intergenic
ACCATACCTTTGTGTTCCAT+GGG 0.526647 8.4:-70804454 None:intergenic
TATTTCAAGGTAGGTTGAGG+TGG 0.531815 8.4:+70804917 MS.gene067336:CDS
GGGTTTGAAGAAAGGTCTTG+TGG 0.531873 8.4:+70804999 MS.gene067336:CDS
TGACGACGTTGTTGTTGTTG+TGG 0.538741 8.4:-70804301 None:intergenic
TCCCATGGAACACAAAGGTA+TGG 0.547214 8.4:+70804453 MS.gene067336:CDS
GGTGTTGGATGAGAATTATG+GGG 0.556537 8.4:+70804876 MS.gene067336:CDS
TGCTTCTCCAAGTAAAGCGA+TGG 0.561546 8.4:-70804781 None:intergenic
TGGTGCTCCAGTTTGTGATG+TGG 0.562878 8.4:+70805038 MS.gene067336:CDS
GGGAAATGATGTTGTGAATG+GGG 0.563425 8.4:-70804268 None:intergenic
ACCCAACAATAAATCACACT+TGG 0.575443 8.4:-70804980 None:intergenic
TGATGTCGTTGTTGTTGTCG+TGG 0.587065 8.4:-70804427 None:intergenic
TATGATGAGGCGTAATCGGA+TGG 0.604145 8.4:-70804753 None:intergenic
CGTGCCGGTTCCAGTTTCGG+TGG 0.607622 8.4:+70804837 MS.gene067336:CDS
ACAACGACATCAATATCCCA+TGG 0.615164 8.4:+70804438 MS.gene067336:CDS
GCACTTGTGACTGTGATGTG+AGG 0.630907 8.4:-70804595 None:intergenic
TGATGACGTTGTTGTTGACG+TGG 0.649666 8.4:-70804343 None:intergenic
TGATGACGTTGTTGTTGACG+TGG 0.649666 8.4:-70804385 None:intergenic
GGTATGCAAGCCATAAGATG+AGG 0.669740 8.4:-70804561 None:intergenic
ATGGTTTCTATATGACACAA+AGG 0.671270 8.4:-70804734 None:intergenic
AGCGATGGAAGCATATGATG+AGG 0.674282 8.4:-70804766 None:intergenic
GGATTATAATGCCAAGTACG+AGG 0.674453 8.4:-70804540 None:intergenic
CAATATCCCATGGAACACAA+AGG 0.680881 8.4:+70804448 MS.gene067336:CDS
GTTGGATGAGAATTATGGGG+TGG 0.688698 8.4:+70804879 MS.gene067336:CDS
GGAGAAGCATGAAACCGTGT+CGG 0.692283 8.4:+70804795 MS.gene067336:CDS
TAAAACTGGTGATACCGACA+CGG 0.699605 8.4:-70804809 None:intergenic
ATTGAGATTGACATGTCTGG+TGG 0.701504 8.4:-70804646 None:intergenic
GTTTCTATATGACACAAAGG+CGG 0.718743 8.4:-70804731 None:intergenic
GCATTAGGTACTCTATAACG+AGG 0.741839 8.4:-70804478 None:intergenic
CTGGTGGTGAAGTTGCATTG+AGG 0.741850 8.4:-70804630 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGAAACTTATATTTCAAGGT+AGG + chr8.4:70804908-70804927 MS.gene067336:CDS 25.0%
! TGCAATTTACAATCTTCATA+AGG + chr8.4:70804668-70804687 MS.gene067336:CDS 25.0%
ATGGTTTCTATATGACACAA+AGG - chr8.4:70804737-70804756 None:intergenic 30.0%
GCATTATAATCCTCATCTTA+TGG + chr8.4:70804551-70804570 MS.gene067336:CDS 30.0%
GGTGTGAAACTTATATTTCA+AGG + chr8.4:70804904-70804923 MS.gene067336:CDS 30.0%
TAAATGGATACACGTTTGTT+TGG - chr8.4:70804697-70804716 None:intergenic 30.0%
TTATATTTCAAGGTAGGTTG+AGG + chr8.4:70804914-70804933 MS.gene067336:CDS 30.0%
TTATTGTTGGGTTTGAAGAA+AGG + chr8.4:70804991-70805010 MS.gene067336:CDS 30.0%
ACCCAACAATAAATCACACT+TGG - chr8.4:70804983-70805002 None:intergenic 35.0%
AGGGAAATGATGTTGTGAAT+GGG - chr8.4:70804272-70804291 None:intergenic 35.0%
GCCAAGTGTGATTTATTGTT+GGG + chr8.4:70804979-70804998 MS.gene067336:CDS 35.0%
GTGTATCCATTTACTTTGAC+AGG + chr8.4:70804704-70804723 MS.gene067336:CDS 35.0%
GTTTCTATATGACACAAAGG+CGG - chr8.4:70804734-70804753 None:intergenic 35.0%
TAGGGAAATGATGTTGTGAA+TGG - chr8.4:70804273-70804292 None:intergenic 35.0%
TATGTATCCACATCACAAAC+TGG - chr8.4:70805048-70805067 None:intergenic 35.0%
TGCCAAGTGTGATTTATTGT+TGG + chr8.4:70804978-70804997 MS.gene067336:CDS 35.0%
! CATATGCAATGTTCACGTTT+TGG - chr8.4:70804505-70804524 None:intergenic 35.0%
! GTTGTTGTGGCATTTTGTTA+GGG - chr8.4:70804291-70804310 None:intergenic 35.0%
! TGGTGTTGGATGAGAATTAT+GGG + chr8.4:70804875-70804894 MS.gene067336:CDS 35.0%
! TGTTGTTGTGGCATTTTGTT+AGG - chr8.4:70804292-70804311 None:intergenic 35.0%
!! TTGGTGTTGGATGAGAATTA+TGG + chr8.4:70804874-70804893 MS.gene067336:CDS 35.0%
!!! TGTTTTGAATGGTTTGGTGT+TGG + chr8.4:70804861-70804880 MS.gene067336:CDS 35.0%
AACCATACCTTTGTGTTCCA+TGG - chr8.4:70804458-70804477 None:intergenic 40.0%
ACAACGACATCAATATCCCA+TGG + chr8.4:70804438-70804457 MS.gene067336:CDS 40.0%
ACAATCTTCTTCCTCGTACT+TGG + chr8.4:70804529-70804548 MS.gene067336:CDS 40.0%
ACCATACCTTTGTGTTCCAT+GGG - chr8.4:70804457-70804476 None:intergenic 40.0%
ACGTCATCAATATCCCGAAA+TGG + chr8.4:70804357-70804376 MS.gene067336:CDS 40.0%
AGCATATGATGAGGCGTAAT+CGG - chr8.4:70804760-70804779 None:intergenic 40.0%
ATTGAGATTGACATGTCTGG+TGG - chr8.4:70804649-70804668 None:intergenic 40.0%
CAATATCCCATGGAACACAA+AGG + chr8.4:70804448-70804467 MS.gene067336:CDS 40.0%
GCATTAGGTACTCTATAACG+AGG - chr8.4:70804481-70804500 None:intergenic 40.0%
GGAAAGCCTGTCAAAGTAAA+TGG - chr8.4:70804713-70804732 None:intergenic 40.0%
GGATTATAATGCCAAGTACG+AGG - chr8.4:70804543-70804562 None:intergenic 40.0%
GGGAAATGATGTTGTGAATG+GGG - chr8.4:70804271-70804290 None:intergenic 40.0%
TAAAACTGGTGATACCGACA+CGG - chr8.4:70804812-70804831 None:intergenic 40.0%
TATGCTTCCATCGCTTTACT+TGG + chr8.4:70804774-70804793 MS.gene067336:CDS 40.0%
TGCATTGAGATTGACATGTC+TGG - chr8.4:70804652-70804671 None:intergenic 40.0%
TTCAAAACATCCACCGAAAC+TGG - chr8.4:70804850-70804869 None:intergenic 40.0%
TTGACGTGGTTGTTCCATTT+CGG - chr8.4:70804332-70804351 None:intergenic 40.0%
TTGTCGTGGTTGTTCCATTT+CGG - chr8.4:70804416-70804435 None:intergenic 40.0%
! GGTGTTGGATGAGAATTATG+GGG + chr8.4:70804876-70804895 MS.gene067336:CDS 40.0%
! GGTTTGAAGAAAGGTCTTGT+GGG + chr8.4:70805000-70805019 MS.gene067336:CDS 40.0%
! TATTTCAAGGTAGGTTGAGG+TGG + chr8.4:70804917-70804936 MS.gene067336:CDS 40.0%
!! ACTGTGATGTGAGGTTTTGA+GGG - chr8.4:70804589-70804608 None:intergenic 40.0%
!! GGTGGATGTTTTGAATGGTT+TGG + chr8.4:70804855-70804874 MS.gene067336:CDS 40.0%
!! GTTTCGGTGGATGTTTTGAA+TGG + chr8.4:70804850-70804869 MS.gene067336:CDS 40.0%
!!! TGTTCACGTTTTGGAGCATT+AGG - chr8.4:70804496-70804515 None:intergenic 40.0%
ACGTCGTCAATACCCTGAAA+TGG + chr8.4:70804315-70804334 MS.gene067336:CDS 45.0%
GACGTGGTTGTTCCATTTCA+GGG - chr8.4:70804330-70804349 None:intergenic 45.0%
GATGAGAATTATGGGGTGGT+GGG + chr8.4:70804883-70804902 MS.gene067336:CDS 45.0%
GATGTTGTGAATGGGGTTGT+TGG - chr8.4:70804264-70804283 None:intergenic 45.0%
GGGTTTGAAGAAAGGTCTTG+TGG + chr8.4:70804999-70805018 MS.gene067336:CDS 45.0%
GGTATGCAAGCCATAAGATG+AGG - chr8.4:70804564-70804583 None:intergenic 45.0%
GTGGGTCAGATTCCTCTTAT+TGG + chr8.4:70805018-70805037 MS.gene067336:CDS 45.0%
GTTGGATGAGAATTATGGGG+TGG + chr8.4:70804879-70804898 MS.gene067336:CDS 45.0%
TATGATGAGGCGTAATCGGA+TGG - chr8.4:70804756-70804775 None:intergenic 45.0%
TCCCATGGAACACAAAGGTA+TGG + chr8.4:70804453-70804472 MS.gene067336:CDS 45.0%
TGACGTGGTTGTTCCATTTC+AGG - chr8.4:70804331-70804350 None:intergenic 45.0%
TGACGTGGTTGTTCCATTTC+GGG - chr8.4:70804331-70804350 None:intergenic 45.0%
TGCTTCTCCAAGTAAAGCGA+TGG - chr8.4:70804784-70804803 None:intergenic 45.0%
TGTCGTGGTTGTTCCATTTC+GGG - chr8.4:70804415-70804434 None:intergenic 45.0%
! AGCGATGGAAGCATATGATG+AGG - chr8.4:70804769-70804788 None:intergenic 45.0%
! CAAACTGGAGCACCAATAAG+AGG - chr8.4:70805033-70805052 None:intergenic 45.0%
! GACTGTGATGTGAGGTTTTG+AGG - chr8.4:70804590-70804609 None:intergenic 45.0%
! GTCACAAGTGCTGCAATCTA+TGG + chr8.4:70804607-70804626 MS.gene067336:CDS 45.0%
! TGACGACGTTGTTGTTGTTG+TGG - chr8.4:70804304-70804323 None:intergenic 45.0%
! TGATGACGTTGTTGTTGACG+TGG - chr8.4:70804346-70804365 None:intergenic 45.0%
! TGATGTCGTTGTTGTTGTCG+TGG - chr8.4:70804430-70804449 None:intergenic 45.0%
! TGTGAATGGGGTTGTTGGTT+AGG - chr8.4:70804259-70804278 None:intergenic 45.0%
!! GTGTCGGTATCACCAGTTTT+AGG + chr8.4:70804811-70804830 MS.gene067336:CDS 45.0%
!!! TCGGTATCACCAGTTTTAGG+AGG + chr8.4:70804814-70804833 MS.gene067336:CDS 45.0%
!!! TGATGTGAGGTTTTGAGGGA+TGG - chr8.4:70804585-70804604 None:intergenic 45.0%
ACATCCACCGAAACTGGAAC+CGG - chr8.4:70804844-70804863 None:intergenic 50.0%
GCACTTGTGACTGTGATGTG+AGG - chr8.4:70804598-70804617 None:intergenic 50.0%
GGATGAGAATTATGGGGTGG+TGG + chr8.4:70804882-70804901 MS.gene067336:CDS 50.0%
TGGTGCTCCAGTTTGTGATG+TGG + chr8.4:70805038-70805057 MS.gene067336:CDS 50.0%
! CTGGTGGTGAAGTTGCATTG+AGG - chr8.4:70804633-70804652 None:intergenic 50.0%
! GGAGAAGCATGAAACCGTGT+CGG + chr8.4:70804795-70804814 MS.gene067336:CDS 50.0%
! GGTAGGTTGAGGTGGAAAAC+TGG + chr8.4:70804925-70804944 MS.gene067336:CDS 50.0%
!!! ACCAGTTTTAGGAGGCGTGC+CGG + chr8.4:70804822-70804841 MS.gene067336:CDS 55.0%
ACCGGCACGCCTCCTAAAAC+TGG - chr8.4:70804826-70804845 None:intergenic 60.0%
!! AGGCGTGCCGGTTCCAGTTT+CGG + chr8.4:70804834-70804853 MS.gene067336:CDS 60.0%
!! CGTGCCGGTTCCAGTTTCGG+TGG + chr8.4:70804837-70804856 MS.gene067336:CDS 65.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 70804217 70805068 70804217 ID=MS.gene067336
chr8.4 mRNA 70804217 70805068 70804217 ID=MS.gene067336.t1;Parent=MS.gene067336
chr8.4 exon 70804217 70805068 70804217 ID=MS.gene067336.t1.exon1;Parent=MS.gene067336.t1
chr8.4 CDS 70804217 70805068 70804217 ID=cds.MS.gene067336.t1;Parent=MS.gene067336.t1
Gene Sequence

>MS.gene067336

ATGGAAGACGAAATAATGCATATAGAACGTCAAGAAGATCCTAACCAACAACCCCATTCACAACATCATTTCCCTAACAAAATGCCACAACAACAACAACGTCGTCAATACCCTGAAATGGAACAACCACGTCAACAACAACGTCATCAATATCCCGAAATGGAACAACCACGTCAACAACAACGTCATCAATATCCCGAAATGGAACAACCACGACAACAACAACGACATCAATATCCCATGGAACACAAAGGTATGGTTCCTCGTTATAGAGTACCTAATGCTCCAAAACGTGAACATTGCATATGCATCACAATCTTCTTCCTCGTACTTGGCATTATAATCCTCATCTTATGGCTTGCATACCATCCCTCAAAACCTCACATCACAGTCACAAGTGCTGCAATCTATGGCCTCAATGCAACTTCACCACCAGACATGTCAATCTCAATGCAATTTACAATCTTCATAAGGAATCCAAACAAACGTGTATCCATTTACTTTGACAGGCTTTCCGCCTTTGTGTCATATAGAAACCATCCGATTACGCCTCATCATATGCTTCCATCGCTTTACTTGGAGAAGCATGAAACCGTGTCGGTATCACCAGTTTTAGGAGGCGTGCCGGTTCCAGTTTCGGTGGATGTTTTGAATGGTTTGGTGTTGGATGAGAATTATGGGGTGGTGGGTGTGAAACTTATATTTCAAGGTAGGTTGAGGTGGAAAACTGGTGAGATAAAATCTGCACATTATAATATGTATGCCAAGTGTGATTTATTGTTGGGTTTGAAGAAAGGTCTTGTGGGTCAGATTCCTCTTATTGGTGCTCCAGTTTGTGATGTGGATACATAA

Protein sequence

>MS.gene067336.t1

MEDEIMHIERQEDPNQQPHSQHHFPNKMPQQQQRRQYPEMEQPRQQQRHQYPEMEQPRQQQRHQYPEMEQPRQQQRHQYPMEHKGMVPRYRVPNAPKREHCICITIFFLVLGIIILILWLAYHPSKPHITVTSAAIYGLNATSPPDMSISMQFTIFIRNPNKRVSIYFDRLSAFVSYRNHPITPHHMLPSLYLEKHETVSVSPVLGGVPVPVSVDVLNGLVLDENYGVVGVKLIFQGRLRWKTGEIKSAHYNMYAKCDLLLGLKKGLVGQIPLIGAPVCDVDT