AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene038814

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene038814.t1 MTR_7g029400 35.714 126 66 3 49 170 55 169 6.03e-17 75.1
MS.gene038814.t1 MTR_8g015250 36.364 121 62 3 54 170 50 159 1.09e-16 74.3
MS.gene038814.t1 MTR_7g017880 42.727 110 59 1 44 149 53 162 6.42e-16 72.4
MS.gene038814.t1 MTR_6g016375 41.441 111 60 1 46 151 57 167 8.31e-16 72.4
MS.gene038814.t1 MTR_5g015090 36.232 138 71 6 43 172 27 155 6.33e-13 63.9
MS.gene038814.t1 MTR_4g070860 37.143 105 56 2 63 157 16 120 2.58e-12 62.0
MS.gene038814.t1 MTR_1g087040 31.624 117 73 1 54 163 7 123 1.21e-11 60.1
MS.gene038814.t1 MTR_3g117120 36.275 102 55 2 63 154 16 117 1.52e-11 60.1
MS.gene038814.t1 MTR_4g097440 33.333 129 72 4 20 142 23 143 3.37e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene038814.t1 AT5G60830 54.118 85 39 0 72 156 69 153 6.27e-22 88.6
MS.gene038814.t1 AT5G38800 41.667 96 54 1 56 149 52 147 3.33e-18 77.8
MS.gene038814.t1 AT3G30530 43.000 100 57 0 52 151 59 158 6.32e-18 77.4
MS.gene038814.t1 AT1G13600 42.105 95 50 1 60 149 67 161 2.13e-16 73.9
MS.gene038814.t1 AT5G15830 36.937 111 64 1 62 166 56 166 1.53e-14 68.9
MS.gene038814.t1 AT2G04038 40.426 94 50 1 62 149 56 149 1.71e-13 65.5
MS.gene038814.t1 AT2G18160 33.333 114 69 1 60 166 17 130 5.06e-12 61.6
MS.gene038814.t1 AT1G75390 40.566 106 55 2 52 149 11 116 8.85e-12 61.2
MS.gene038814.t1 AT1G75390 40.196 102 53 2 52 145 11 112 7.47e-11 57.4
MS.gene038814.t1 AT2G42380 39.362 94 55 1 51 142 163 256 8.42e-11 59.7
MS.gene038814.t1 AT3G62420 33.898 118 69 3 57 166 8 124 8.80e-11 57.8

Find 46 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACAAAATGCTCAACTTAA+AGG 0.201570 8.3:-14804243 MS.gene038814:CDS
CCAACAAGTAAATGATCTTT+TGG 0.211603 8.3:+14804286 None:intergenic
ATGAGTTGGGAGAAGATTTA+TGG 0.268120 8.3:+14804484 None:intergenic
AGCCTGCAAAACCTGGAAAA+TGG 0.302202 8.3:-14804621 MS.gene038814:CDS
CCAAAAGATCATTTACTTGT+TGG 0.311300 8.3:-14804286 MS.gene038814:CDS
GTGAGGTATACCAACATTTC+CGG 0.334411 8.3:+14804173 None:intergenic
TTTATGGTCTGGAATTTGAA+TGG 0.416953 8.3:+14804500 None:intergenic
GAACTCAAGCCTGCAAAACC+TGG 0.431180 8.3:-14804628 MS.gene038814:CDS
TTGGGAGAAGATTTATGGTC+TGG 0.437689 8.3:+14804489 None:intergenic
GTTACTGTTTGATGATGAGT+TGG 0.446587 8.3:+14804470 None:intergenic
TGAAGCTGGGAGTAGTGAAA+TGG 0.452683 8.3:+14804546 None:intergenic
TTATGGTCTGGAATTTGAAT+GGG 0.454968 8.3:+14804501 None:intergenic
AGCGGTACTATCTACTTTGT+TGG 0.466162 8.3:-14804202 MS.gene038814:CDS
TTGATGATCGAAAGAAGAAA+AGG 0.480340 8.3:-14804419 MS.gene038814:CDS
AGACGAGTTGAAAGGTTGGC+TGG 0.483172 8.3:+14804132 None:intergenic
TGTCGTTAGAGAGGTGAAGC+TGG 0.483487 8.3:+14804532 None:intergenic
ACCCATCTGTATCCATCTCA+AGG 0.506932 8.3:-14804582 MS.gene038814:CDS
CTACTCAAAATCGCTATGCT+CGG 0.512535 8.3:+14804089 None:intergenic
TCTACTTTGTTGGTTACGAC+CGG 0.517483 8.3:-14804192 MS.gene038814:CDS
TACTCAAAATCGCTATGCTC+GGG 0.518651 8.3:+14804090 None:intergenic
TTACTGTTTGATGATGAGTT+GGG 0.525916 8.3:+14804471 None:intergenic
ATTGATGGTTCAGCGCCTGC+AGG 0.527456 8.3:+14804313 None:intergenic
AGGTTGGCTGGGAAGCCACT+AGG 0.529008 8.3:+14804144 None:intergenic
GATACAGATGGGTCAAAGAA+TGG 0.534656 8.3:+14804592 None:intergenic
CTGGGAAGCCACTAGGGATG+TGG 0.538645 8.3:+14804151 None:intergenic
GTATCAAGTGAATCACCTGC+AGG 0.567327 8.3:-14804328 MS.gene038814:CDS
ATATCATGTAAACCTTGAGA+TGG 0.573761 8.3:+14804570 None:intergenic
TCAAACAGTAACAACAACTC+TGG 0.574952 8.3:-14804459 MS.gene038814:CDS
GTCGTTAGAGAGGTGAAGCT+GGG 0.575441 8.3:+14804533 None:intergenic
GACGAGTTGAAAGGTTGGCT+GGG 0.575767 8.3:+14804133 None:intergenic
AACCTTGAGATGGATACAGA+TGG 0.576394 8.3:+14804580 None:intergenic
GGTTGGCTGGGAAGCCACTA+GGG 0.587937 8.3:+14804145 None:intergenic
TTGTAACTAGACGAGTTGAA+AGG 0.591340 8.3:+14804124 None:intergenic
TTGGTTACGACCGGAAATGT+TGG 0.596096 8.3:-14804183 MS.gene038814:CDS
AGATAGTACCGCTTGAAGAG+AGG 0.597446 8.3:+14804212 None:intergenic
GACTGTCGCTGTCGTTAGAG+AGG 0.603830 8.3:+14804523 None:intergenic
CAAAACCTGGAAAATGGAGA+AGG 0.605645 8.3:-14804615 MS.gene038814:CDS
CAAAGTTTCCTCTCTTCAAG+CGG 0.609354 8.3:-14804220 MS.gene038814:CDS
CAACAACTCTGGTAAAGCAA+AGG 0.613348 8.3:-14804448 MS.gene038814:CDS
GGTGATTCACTTGATACCAC+AGG 0.615500 8.3:+14804334 None:intergenic
AACTAGACGAGTTGAAAGGT+TGG 0.615858 8.3:+14804128 None:intergenic
ACCTTGAGATGGATACAGAT+GGG 0.616103 8.3:+14804581 None:intergenic
CTAACAGAGAATCTGCTCGT+CGG 0.675721 8.3:-14804389 MS.gene038814:CDS
ATACCTCACCACATCCCTAG+TGG 0.679014 8.3:-14804159 MS.gene038814:CDS
AGCAGCGAATTGAAGTCCTG+TGG 0.703639 8.3:-14804350 MS.gene038814:CDS
AAGCCACTAGGGATGTGGTG+AGG 0.721984 8.3:+14804156 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAACAAGTAAATGATCTTTT+GGG + chr8.3:14804435-14804454 None:intergenic 25.0%
ATATCATGTAAACCTTGAGA+TGG + chr8.3:14804152-14804171 None:intergenic 30.0%
CAACAAAATGCTCAACTTAA+AGG - chr8.3:14804476-14804495 MS.gene038814:CDS 30.0%
CCAAAAGATCATTTACTTGT+TGG - chr8.3:14804433-14804452 MS.gene038814:CDS 30.0%
! CCAACAAGTAAATGATCTTT+TGG + chr8.3:14804436-14804455 None:intergenic 30.0%
! TTATGGTCTGGAATTTGAAT+GGG + chr8.3:14804221-14804240 None:intergenic 30.0%
! TTGATGATCGAAAGAAGAAA+AGG - chr8.3:14804300-14804319 MS.gene038814:CDS 30.0%
! TTTATGGTCTGGAATTTGAA+TGG + chr8.3:14804222-14804241 None:intergenic 30.0%
! TTTTCTTCTTTCGATCATCA+AGG + chr8.3:14804301-14804320 None:intergenic 30.0%
!! CATTTTGTTGGTTGATTAGT+TGG + chr8.3:14804466-14804485 None:intergenic 30.0%
!! TTACTGTTTGATGATGAGTT+GGG + chr8.3:14804251-14804270 None:intergenic 30.0%
!!! CTTTAAGTTGAGCATTTTGT+TGG + chr8.3:14804478-14804497 None:intergenic 30.0%
TCAAACAGTAACAACAACTC+TGG - chr8.3:14804260-14804279 MS.gene038814:CDS 35.0%
! ATGAGTTGGGAGAAGATTTA+TGG + chr8.3:14804238-14804257 None:intergenic 35.0%
! TTGTAACTAGACGAGTTGAA+AGG + chr8.3:14804598-14804617 None:intergenic 35.0%
!! GTTACTGTTTGATGATGAGT+TGG + chr8.3:14804252-14804271 None:intergenic 35.0%
!!! TGATCTTTTGGGACAATTGA+TGG + chr8.3:14804424-14804443 None:intergenic 35.0%
AACCTTGAGATGGATACAGA+TGG + chr8.3:14804142-14804161 None:intergenic 40.0%
ACCTTGAGATGGATACAGAT+GGG + chr8.3:14804141-14804160 None:intergenic 40.0%
AGCGGTACTATCTACTTTGT+TGG - chr8.3:14804517-14804536 MS.gene038814:CDS 40.0%
CAAAACCTGGAAAATGGAGA+AGG - chr8.3:14804104-14804123 MS.gene038814:CDS 40.0%
CAAAGTTTCCTCTCTTCAAG+CGG - chr8.3:14804499-14804518 MS.gene038814:CDS 40.0%
CAACAACTCTGGTAAAGCAA+AGG - chr8.3:14804271-14804290 MS.gene038814:CDS 40.0%
CTACTCAAAATCGCTATGCT+CGG + chr8.3:14804633-14804652 None:intergenic 40.0%
GATACAGATGGGTCAAAGAA+TGG + chr8.3:14804130-14804149 None:intergenic 40.0%
GTGAGGTATACCAACATTTC+CGG + chr8.3:14804549-14804568 None:intergenic 40.0%
TACTCAAAATCGCTATGCTC+GGG + chr8.3:14804632-14804651 None:intergenic 40.0%
TTGGGAGAAGATTTATGGTC+TGG + chr8.3:14804233-14804252 None:intergenic 40.0%
! AACTAGACGAGTTGAAAGGT+TGG + chr8.3:14804594-14804613 None:intergenic 40.0%
! TCTACTTTGTTGGTTACGAC+CGG - chr8.3:14804527-14804546 MS.gene038814:CDS 40.0%
ACCCATCTGTATCCATCTCA+AGG - chr8.3:14804137-14804156 MS.gene038814:CDS 45.0%
AGATAGTACCGCTTGAAGAG+AGG + chr8.3:14804510-14804529 None:intergenic 45.0%
AGCCTGCAAAACCTGGAAAA+TGG - chr8.3:14804098-14804117 MS.gene038814:CDS 45.0%
CTAACAGAGAATCTGCTCGT+CGG - chr8.3:14804330-14804349 MS.gene038814:CDS 45.0%
GGTGATTCACTTGATACCAC+AGG + chr8.3:14804388-14804407 None:intergenic 45.0%
GTATCAAGTGAATCACCTGC+AGG - chr8.3:14804391-14804410 MS.gene038814:CDS 45.0%
TGAAGCTGGGAGTAGTGAAA+TGG + chr8.3:14804176-14804195 None:intergenic 45.0%
TTGGTTACGACCGGAAATGT+TGG - chr8.3:14804536-14804555 MS.gene038814:CDS 45.0%
! AATGGCCTTCTCCATTTTCC+AGG + chr8.3:14804112-14804131 None:intergenic 45.0%
! CTCCATTTTCCAGGTTTTGC+AGG + chr8.3:14804103-14804122 None:intergenic 45.0%
AGCAGCGAATTGAAGTCCTG+TGG - chr8.3:14804369-14804388 MS.gene038814:CDS 50.0%
ATACCTCACCACATCCCTAG+TGG - chr8.3:14804560-14804579 MS.gene038814:CDS 50.0%
GAACTCAAGCCTGCAAAACC+TGG - chr8.3:14804091-14804110 MS.gene038814:CDS 50.0%
GTCGTTAGAGAGGTGAAGCT+GGG + chr8.3:14804189-14804208 None:intergenic 50.0%
TGTCGTTAGAGAGGTGAAGC+TGG + chr8.3:14804190-14804209 None:intergenic 50.0%
! AGACGAGTTGAAAGGTTGGC+TGG + chr8.3:14804590-14804609 None:intergenic 50.0%
! GACGAGTTGAAAGGTTGGCT+GGG + chr8.3:14804589-14804608 None:intergenic 50.0%
AAGCCACTAGGGATGTGGTG+AGG + chr8.3:14804566-14804585 None:intergenic 55.0%
GACTGTCGCTGTCGTTAGAG+AGG + chr8.3:14804199-14804218 None:intergenic 55.0%
! ATTGATGGTTCAGCGCCTGC+AGG + chr8.3:14804409-14804428 None:intergenic 55.0%
CTGGGAAGCCACTAGGGATG+TGG + chr8.3:14804571-14804590 None:intergenic 60.0%
! AGGTTGGCTGGGAAGCCACT+AGG + chr8.3:14804578-14804597 None:intergenic 60.0%
! GGTTGGCTGGGAAGCCACTA+GGG + chr8.3:14804577-14804596 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 14804089 14804652 14804089 ID=MS.gene038814
chr8.3 mRNA 14804089 14804652 14804089 ID=MS.gene038814.t1;Parent=MS.gene038814
chr8.3 exon 14804089 14804652 14804089 ID=MS.gene038814.t1.exon1;Parent=MS.gene038814.t1
chr8.3 CDS 14804089 14804652 14804089 ID=cds.MS.gene038814.t1;Parent=MS.gene038814.t1
Gene Sequence

>MS.gene038814

ATGAACTCAAGCCTGCAAAACCTGGAAAATGGAGAAGGCCATTCTTTGACCCATCTGTATCCATCTCAAGGTTTACATGATATTCCATTTCACTACTCCCAGCTTCACCTCTCTAACGACAGCGACAGTCCCATTCAAATTCCAGACCATAAATCTTCTCCCAACTCATCATCAAACAGTAACAACAACTCTGGTAAAGCAAAGGATCTCCTTGATGATCGAAAGAAGAAAAGGATGTTCTCTAACAGAGAATCTGCTCGTCGGTCGCGAATGAGAAAGAAGCAGCGAATTGAAGTCCTGTGGTATCAAGTGAATCACCTGCAGGCGCTGAACCATCAATTGTCCCAAAAGATCATTTACTTGTTGGAATGTAACCAACTAATCAACCAACAAAATGCTCAACTTAAAGGCAAAGTTTCCTCTCTTCAAGCGGTACTATCTACTTTGTTGGTTACGACCGGAAATGTTGGTATACCTCACCACATCCCTAGTGGCTTCCCAGCCAACCTTTCAACTCGTCTAGTTACAAACTTACAATTTCCCGAGCATAGCGATTTTGAGTAG
Protein sequence

>MS.gene038814.t1

MNSSLQNLENGEGHSLTHLYPSQGLHDIPFHYSQLHLSNDSDSPIQIPDHKSSPNSSSNSNNNSGKAKDLLDDRKKKRMFSNRESARRSRMRKKQRIEVLWYQVNHLQALNHQLSQKIIYLLECNQLINQQNAQLKGKVSSLQAVLSTLLVTTGNVGIPHHIPSGFPANLSTRLVTNLQFPEHSDFE