AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene91110


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91110.t1 MTR_1g038650 95.745 235 7 1 1 232 1 235 7.20e-165 454
MS.gene91110.t1 MTR_1g114380 62.041 245 56 5 16 230 18 255 1.60e-84 252
MS.gene91110.t1 MTR_2g006150 75.000 84 18 1 20 100 115 198 1.61e-36 133
MS.gene91110.t1 MTR_2g006150 75.000 84 18 1 20 100 115 198 1.73e-36 134
MS.gene91110.t1 MTR_5g039600 78.205 78 12 1 28 100 58 135 1.77e-36 133
MS.gene91110.t1 MTR_7g028160 54.400 125 53 1 1 121 15 139 3.88e-36 129
MS.gene91110.t1 MTR_4g108370 70.930 86 21 1 19 100 80 165 9.24e-36 131
MS.gene91110.t1 MTR_1g063870 78.082 73 13 1 25 94 39 111 6.65e-35 124
MS.gene91110.t1 MTR_1g101810 65.934 91 30 1 5 94 36 126 1.07e-32 121
MS.gene91110.t1 MTR_1g101810 65.934 91 30 1 5 94 66 156 2.48e-32 120
MS.gene91110.t1 MTR_8g033070 72.603 73 20 0 28 100 76 148 2.28e-31 117
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91110.t1 AT5G23280 56.175 251 63 6 10 232 19 250 8.30e-74 224
MS.gene91110.t1 AT5G08330 56.723 238 65 8 16 230 13 235 1.74e-62 195
MS.gene91110.t1 AT1G72010 81.944 72 13 0 29 100 60 131 5.22e-37 133
MS.gene91110.t1 AT1G69690 68.889 90 23 1 16 100 31 120 5.36e-37 132
MS.gene91110.t1 AT3G47620 75.610 82 15 1 24 100 104 185 1.35e-36 134
MS.gene91110.t1 AT1G35560 83.333 72 12 0 29 100 52 123 8.62e-35 127
MS.gene91110.t1 AT3G27010 63.000 100 28 2 3 93 40 139 1.38e-33 123
MS.gene91110.t1 AT3G27010 63.000 100 28 2 3 93 40 139 1.38e-33 123
MS.gene91110.t1 AT5G51910 75.342 73 18 0 28 100 53 125 4.44e-32 119
MS.gene91110.t1 AT5G51910 75.342 73 18 0 28 100 53 125 4.44e-32 119
MS.gene91110.t1 AT2G45680 76.471 68 16 0 27 94 70 137 1.24e-31 119
MS.gene91110.t1 AT1G58100 51.389 144 47 3 32 172 60 183 2.47e-29 113
MS.gene91110.t1 AT5G41030 67.164 67 22 0 28 94 64 130 4.39e-28 107
MS.gene91110.t1 AT2G37000 75.000 60 15 0 32 91 43 102 4.13e-27 103
MS.gene91110.t1 AT3G45150 52.055 73 35 0 33 105 18 90 6.89e-20 83.6

Find 63 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACACGTGCGGCGCAGATTA+TGG 0.191163 1.3:+21910690 None:intergenic
CAACCTTCTCCGTTTATTCT+TGG 0.258658 1.3:-21910517 MS.gene91110:CDS
AATTTGTTGGCTTCATTGTC+TGG 0.298075 1.3:-21910202 MS.gene91110:CDS
GTTGATGCTGCTGGTGGTGC+TGG 0.308604 1.3:+21910290 None:intergenic
GAAGCTTCCGCGGCGAGGTT+AGG 0.328795 1.3:-21910247 MS.gene91110:CDS
GACCAAGCTCACGTGTTAAC+TGG 0.329708 1.3:+21910665 None:intergenic
GCTGCTGGTGGTGCTGGTGC+TGG 0.334270 1.3:+21910296 None:intergenic
TCCTGGTCATCTGAATTTGT+TGG 0.361921 1.3:-21910215 MS.gene91110:CDS
CTTGTTGCTGTTGATGCTGC+TGG 0.390685 1.3:+21910281 None:intergenic
ACACGTGCGGCGCAGATTAT+GGG 0.390746 1.3:+21910691 None:intergenic
TGCTGCACCTACTGCTCCGC+CGG 0.410157 1.3:-21910455 MS.gene91110:CDS
GAAAGAAGCAGGTGTAGTTC+CGG 0.413992 1.3:+21910570 None:intergenic
AAGCTTCCGCGGCGAGGTTA+GGG 0.415378 1.3:-21910246 MS.gene91110:CDS
TGATGATGGTGATGCTGTTT+CGG 0.418538 1.3:-21910479 MS.gene91110:CDS
TCTGGTGGGAATGGAAATTC+TGG 0.419287 1.3:-21910184 MS.gene91110:CDS
AACGGAGAAGGTTGAAGAAA+AGG 0.424552 1.3:+21910526 None:intergenic
CTACTGCTCCGCCGGGGTTG+TGG 0.429297 1.3:-21910447 MS.gene91110:CDS
TGCTGCTGCTCAACCGCCGC+CGG 0.429682 1.3:-21910392 MS.gene91110:CDS
TCCGCCGGGGTTGTGGCGGC+CGG 0.445867 1.3:-21910440 MS.gene91110:CDS
GCTGCTCAACCGCCGCCGGA+AGG 0.449544 1.3:-21910388 MS.gene91110:CDS
CTCCAAAGCTGAGCAAAATC+CGG 0.465288 1.3:+21910421 None:intergenic
TCAACAGCAACAAGGTTCAA+TGG 0.473044 1.3:-21910272 MS.gene91110:CDS
ATCATCGCCGCCACCGGTAC+CGG 0.476622 1.3:-21910589 MS.gene91110:CDS
TGTAGTTCCGGTACCGGTGG+CGG 0.480445 1.3:+21910582 None:intergenic
GCTGCACCTACTGCTCCGCC+GGG 0.481411 1.3:-21910454 MS.gene91110:CDS
GCTTCATTGTCTGGTGGGAA+TGG 0.484637 1.3:-21910193 MS.gene91110:CDS
CAACAGCAACAAGGTTCAAT+GGG 0.485127 1.3:-21910271 MS.gene91110:CDS
AGGTTAGGGAATTATCTTCC+TGG 0.487752 1.3:-21910232 MS.gene91110:CDS
AGCAGGTGTAGTTCCGGTAC+CGG 0.496500 1.3:+21910576 None:intergenic
AGAAGTGGGTTCTACTAGAT+CGG 0.502592 1.3:+21910795 None:intergenic
AAACGCTTACCAAGAATAAA+CGG 0.502790 1.3:+21910508 None:intergenic
GAAAGAGAAGAGAAAGAAGC+AGG 0.509335 1.3:+21910559 None:intergenic
TGATCGACGGTTCAGCTTGA+CGG 0.511819 1.3:+21910608 None:intergenic
TTCCAGTTAACACGTGAGCT+TGG 0.518020 1.3:-21910667 MS.gene91110:CDS
TTCCGTCTACTTTACTGTGA+CGG 0.524053 1.3:+21910734 None:intergenic
TGTTGGCTTCATTGTCTGGT+GGG 0.531348 1.3:-21910198 MS.gene91110:CDS
AAATCCGGCCGCCACAACCC+CGG 0.536662 1.3:+21910436 None:intergenic
CCGTCGATCATCGCCGCCAC+CGG 0.537613 1.3:-21910595 MS.gene91110:CDS
CACAGTAAAGTAGACGGAAG+AGG 0.537838 1.3:-21910730 MS.gene91110:CDS
TTGTTGGCTTCATTGTCTGG+TGG 0.543932 1.3:-21910199 MS.gene91110:CDS
GGGAATGGAAATTCTGGTCG+TGG 0.548380 1.3:-21910178 MS.gene91110:CDS
TTCTACTAGATCGGTTGTTG+TGG 0.553500 1.3:+21910804 None:intergenic
GCCAACAAATTCAGATGACC+AGG 0.560326 1.3:+21910214 None:intergenic
CCGGTGGCGGCGATGATCGA+CGG 0.572268 1.3:+21910595 None:intergenic
TGATAGTTGTTGTTTCCTTG+TGG 0.582444 1.3:+21910827 None:intergenic
CTGCTCCGCCGGGGTTGTGG+CGG 0.587464 1.3:-21910444 MS.gene91110:CDS
CACAACCCCGGCGGAGCAGT+AGG 0.587750 1.3:+21910448 None:intergenic
GTTGCTGTTGATGCTGCTGG+TGG 0.588478 1.3:+21910284 None:intergenic
TTCAATGGGTGAAGCTTCCG+CGG 0.595814 1.3:-21910257 MS.gene91110:CDS
AGGTGTAGTTCCGGTACCGG+TGG 0.608264 1.3:+21910579 None:intergenic
CCATTCGATAGTTTGACCGT+CGG 0.631339 1.3:+21910636 None:intergenic
GACCGTCACAGTAAAGTAGA+CGG 0.641647 1.3:-21910736 MS.gene91110:CDS
AAGCGTTTACGTGATGATGA+TGG 0.641838 1.3:-21910493 MS.gene91110:CDS
CAGCAGCATCAACAGCAACA+AGG 0.643976 1.3:-21910280 MS.gene91110:CDS
CCGACGGTCAAACTATCGAA+TGG 0.646959 1.3:-21910636 MS.gene91110:CDS
TTACCAAGAATAAACGGAGA+AGG 0.653545 1.3:+21910514 None:intergenic
ACCCCAAATGTCTAACCACA+AGG 0.654789 1.3:-21910842 None:intergenic
TCCGGCCGCCACAACCCCGG+CGG 0.666178 1.3:+21910439 None:intergenic
GAGCTTGGTCATAAATCCGA+CGG 0.680249 1.3:-21910652 MS.gene91110:CDS
TGGGTGAAGCTTCCGCGGCG+AGG 0.688189 1.3:-21910252 MS.gene91110:CDS
CTGCACCTACTGCTCCGCCG+GGG 0.707227 1.3:-21910453 MS.gene91110:CDS
TGTTAACTGGAAAACACGTG+CGG 0.728936 1.3:+21910678 None:intergenic
ATAATTCCCTAACCTCGCCG+CGG 0.758456 1.3:+21910240 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAACGCTTACCAAGAATAAA+CGG + chr1.3:21910489-21910508 None:intergenic 30.0%
TGAGAAACAGAAAAACCTTC+CGG + chr1.3:21910624-21910643 None:intergenic 35.0%
TTACCAAGAATAAACGGAGA+AGG + chr1.3:21910483-21910502 None:intergenic 35.0%
!! AATTTGTTGGCTTCATTGTC+TGG - chr1.3:21910792-21910811 MS.gene91110:CDS 35.0%
!! TGATAGTTGTTGTTTCCTTG+TGG + chr1.3:21910170-21910189 None:intergenic 35.0%
!!! GTTAGAGTGTTTTGAGAAGT+GGG + chr1.3:21910216-21910235 None:intergenic 35.0%
!!! TGTTAGAGTGTTTTGAGAAG+TGG + chr1.3:21910217-21910236 None:intergenic 35.0%
AACGGAGAAGGTTGAAGAAA+AGG + chr1.3:21910471-21910490 None:intergenic 40.0%
AGGTTAGGGAATTATCTTCC+TGG - chr1.3:21910762-21910781 MS.gene91110:CDS 40.0%
CAACAGCAACAAGGTTCAAT+GGG - chr1.3:21910723-21910742 MS.gene91110:CDS 40.0%
CAACCTTCTCCGTTTATTCT+TGG - chr1.3:21910477-21910496 MS.gene91110:CDS 40.0%
GAAAGAGAAGAGAAAGAAGC+AGG + chr1.3:21910438-21910457 None:intergenic 40.0%
TCAACAGCAACAAGGTTCAA+TGG - chr1.3:21910722-21910741 MS.gene91110:CDS 40.0%
TCCTGGTCATCTGAATTTGT+TGG - chr1.3:21910779-21910798 MS.gene91110:CDS 40.0%
TGTTAACTGGAAAACACGTG+CGG + chr1.3:21910319-21910338 None:intergenic 40.0%
TTCCGTCTACTTTACTGTGA+CGG + chr1.3:21910263-21910282 None:intergenic 40.0%
TTCTACTAGATCGGTTGTTG+TGG + chr1.3:21910193-21910212 None:intergenic 40.0%
! AAGCGTTTACGTGATGATGA+TGG - chr1.3:21910501-21910520 MS.gene91110:CDS 40.0%
! AGAAGTGGGTTCTACTAGAT+CGG + chr1.3:21910202-21910221 None:intergenic 40.0%
! TTACTGTGACGGTCTTTTGA+CGG + chr1.3:21910252-21910271 None:intergenic 40.0%
!! TGATGATGGTGATGCTGTTT+CGG - chr1.3:21910515-21910534 MS.gene91110:CDS 40.0%
CACAGTAAAGTAGACGGAAG+AGG - chr1.3:21910264-21910283 MS.gene91110:CDS 45.0%
CCATTCGATAGTTTGACCGT+CGG + chr1.3:21910361-21910380 None:intergenic 45.0%
CTCCAAAGCTGAGCAAAATC+CGG + chr1.3:21910576-21910595 None:intergenic 45.0%
GAAACAGAAAAACCTTCCGG+CGG + chr1.3:21910621-21910640 None:intergenic 45.0%
GAAAGAAGCAGGTGTAGTTC+CGG + chr1.3:21910427-21910446 None:intergenic 45.0%
GACCGTCACAGTAAAGTAGA+CGG - chr1.3:21910258-21910277 MS.gene91110:CDS 45.0%
GAGCTTGGTCATAAATCCGA+CGG - chr1.3:21910342-21910361 MS.gene91110:CDS 45.0%
GCCAACAAATTCAGATGACC+AGG + chr1.3:21910783-21910802 None:intergenic 45.0%
TCTGGTGGGAATGGAAATTC+TGG - chr1.3:21910810-21910829 MS.gene91110:CDS 45.0%
TTCCAGTTAACACGTGAGCT+TGG - chr1.3:21910327-21910346 MS.gene91110:CDS 45.0%
!! TGTTGGCTTCATTGTCTGGT+GGG - chr1.3:21910796-21910815 MS.gene91110:CDS 45.0%
!! TTGTTGGCTTCATTGTCTGG+TGG - chr1.3:21910795-21910814 MS.gene91110:CDS 45.0%
ATAATTCCCTAACCTCGCCG+CGG + chr1.3:21910757-21910776 None:intergenic 50.0%
CAGCAGCATCAACAGCAACA+AGG - chr1.3:21910714-21910733 MS.gene91110:CDS 50.0%
CCGACGGTCAAACTATCGAA+TGG - chr1.3:21910358-21910377 MS.gene91110:CDS 50.0%
GACCAAGCTCACGTGTTAAC+TGG + chr1.3:21910332-21910351 None:intergenic 50.0%
GCTTCATTGTCTGGTGGGAA+TGG - chr1.3:21910801-21910820 MS.gene91110:CDS 50.0%
GGGAATGGAAATTCTGGTCG+TGG - chr1.3:21910816-21910835 MS.gene91110:CDS 50.0%
TGATCGACGGTTCAGCTTGA+CGG + chr1.3:21910389-21910408 None:intergenic 50.0%
TTCAATGGGTGAAGCTTCCG+CGG - chr1.3:21910737-21910756 MS.gene91110:CDS 50.0%
! CTTGTTGCTGTTGATGCTGC+TGG + chr1.3:21910716-21910735 None:intergenic 50.0%
AACACGTGCGGCGCAGATTA+TGG + chr1.3:21910307-21910326 None:intergenic 55.0%
ACACGTGCGGCGCAGATTAT+GGG + chr1.3:21910306-21910325 None:intergenic 55.0%
ACAGAAAAACCTTCCGGCGG+CGG + chr1.3:21910618-21910637 None:intergenic 55.0%
AGCAGGTGTAGTTCCGGTAC+CGG + chr1.3:21910421-21910440 None:intergenic 55.0%
! CTGTGACGGTCTTTTGACGG+CGG + chr1.3:21910249-21910268 None:intergenic 55.0%
! GGCCGGATTTTGCTCAGCTT+TGG - chr1.3:21910571-21910590 MS.gene91110:CDS 55.0%
! GTTGCTGTTGATGCTGCTGG+TGG + chr1.3:21910713-21910732 None:intergenic 55.0%
AAGCTTCCGCGGCGAGGTTA+GGG - chr1.3:21910748-21910767 MS.gene91110:CDS 60.0%
! AGGTGTAGTTCCGGTACCGG+TGG + chr1.3:21910418-21910437 None:intergenic 60.0%
! GTTGATGCTGCTGGTGGTGC+TGG + chr1.3:21910707-21910726 None:intergenic 60.0%
!! TGTAGTTCCGGTACCGGTGG+CGG + chr1.3:21910415-21910434 None:intergenic 60.0%
AAATCCGGCCGCCACAACCC+CGG + chr1.3:21910561-21910580 None:intergenic 65.0%
ATCATCGCCGCCACCGGTAC+CGG - chr1.3:21910405-21910424 MS.gene91110:CDS 65.0%
GAAGCTTCCGCGGCGAGGTT+AGG - chr1.3:21910747-21910766 MS.gene91110:CDS 65.0%
TGCTGCACCTACTGCTCCGC+CGG - chr1.3:21910539-21910558 MS.gene91110:CDS 65.0%
CACAACCCCGGCGGAGCAGT+AGG + chr1.3:21910549-21910568 None:intergenic 70.0%
CCGTCGATCATCGCCGCCAC+CGG - chr1.3:21910399-21910418 MS.gene91110:CDS 70.0%
CTACTGCTCCGCCGGGGTTG+TGG - chr1.3:21910547-21910566 MS.gene91110:CDS 70.0%
CTGCACCTACTGCTCCGCCG+GGG - chr1.3:21910541-21910560 MS.gene91110:CDS 70.0%
GCTGCACCTACTGCTCCGCC+GGG - chr1.3:21910540-21910559 MS.gene91110:CDS 70.0%
TGCTGCTGCTCAACCGCCGC+CGG - chr1.3:21910602-21910621 MS.gene91110:CDS 70.0%
TGGGTGAAGCTTCCGCGGCG+AGG - chr1.3:21910742-21910761 MS.gene91110:CDS 70.0%
! CCGGTGGCGGCGATGATCGA+CGG + chr1.3:21910402-21910421 None:intergenic 70.0%
!! GCTGCTGGTGGTGCTGGTGC+TGG + chr1.3:21910701-21910720 None:intergenic 70.0%
CTGCTCCGCCGGGGTTGTGG+CGG - chr1.3:21910550-21910569 MS.gene91110:CDS 75.0%
GCTGCTCAACCGCCGCCGGA+AGG - chr1.3:21910606-21910625 MS.gene91110:CDS 75.0%
! TCCGCCGGGGTTGTGGCGGC+CGG - chr1.3:21910554-21910573 MS.gene91110:CDS 80.0%
! TCCGGCCGCCACAACCCCGG+CGG + chr1.3:21910558-21910577 None:intergenic 80.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 21910159 21910857 21910159 ID=MS.gene91110
chr1.3 mRNA 21910159 21910857 21910159 ID=MS.gene91110.t1;Parent=MS.gene91110
chr1.3 exon 21910159 21910857 21910159 ID=MS.gene91110.t1.exon1;Parent=MS.gene91110.t1
chr1.3 CDS 21910159 21910857 21910159 ID=cds.MS.gene91110.t1;Parent=MS.gene91110.t1
Gene Sequence

>MS.gene91110

ATGTCTAACCACAAGGAAACAACAACTATCACCACAACAACCGATCTAGTAGAACCCACTTCTCAAAACACTCTAACAGTAAAAAAACCGCCGTCAAAAGACCGTCACAGTAAAGTAGACGGAAGAGGAAGACGCATAAGAATGCCCATAATCTGCGCCGCACGTGTTTTCCAGTTAACACGTGAGCTTGGTCATAAATCCGACGGTCAAACTATCGAATGGCTTCTCCGTCAAGCTGAACCGTCGATCATCGCCGCCACCGGTACCGGAACTACACCTGCTTCTTTCTCTTCTCTTTCTGAGCATAAACCTTTTCTTCAACCTTCTCCGTTTATTCTTGGTAAGCGTTTACGTGATGATGATGGTGATGCTGTTTCGGTTGCTGCACCTACTGCTCCGCCGGGGTTGTGGCGGCCGGATTTTGCTCAGCTTTGGAGCTTTGCTGCTGCTGCTCAACCGCCGCCGGAAGGTTTTTCTGTTTCTCAGCACAATTCATTGTTTCATCATCAACAACAACAACAGCAGCAGCAGCAACAACACCAGCACCAGCACCACCAGCAGCATCAACAGCAACAAGGTTCAATGGGTGAAGCTTCCGCGGCGAGGTTAGGGAATTATCTTCCTGGTCATCTGAATTTGTTGGCTTCATTGTCTGGTGGGAATGGAAATTCTGGTCGTGGAGACGATGAAGATCGTTGA

Protein sequence

>MS.gene91110.t1

MSNHKETTTITTTTDLVEPTSQNTLTVKKPPSKDRHSKVDGRGRRIRMPIICAARVFQLTRELGHKSDGQTIEWLLRQAEPSIIAATGTGTTPASFSSLSEHKPFLQPSPFILGKRLRDDDGDAVSVAAPTAPPGLWRPDFAQLWSFAAAAQPPPEGFSVSQHNSLFHHQQQQQQQQQQHQHQHHQQHQQQQGSMGEASAARLGNYLPGHLNLLASLSGGNGNSGRGDDEDR