AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene96112


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene96112.t1 MTR_4g051538 89.362 235 24 1 1 235 1 234 1.57e-143 400
MS.gene96112.t1 MTR_3g104630 52.308 130 50 3 106 223 16 145 4.42e-32 114
MS.gene96112.t1 MTR_5g053390 28.634 227 111 8 1 205 1 198 9.00e-17 77.0
MS.gene96112.t1 MTR_1g105920 31.098 164 96 4 1 150 1 161 2.07e-16 75.9
MS.gene96112.t1 MTR_8g086290 31.410 156 99 2 4 151 7 162 2.66e-16 74.3
MS.gene96112.t1 MTR_1g108510 30.323 155 96 4 1 143 1 155 2.99e-16 75.5
MS.gene96112.t1 MTR_1g012570 28.866 194 115 7 1 182 1 183 3.81e-16 75.1
MS.gene96112.t1 MTR_1g105910 32.609 138 78 3 1 126 1 135 4.67e-16 75.1
MS.gene96112.t1 MTR_3g080940 44.706 85 46 1 1 85 1 84 5.58e-16 74.3
MS.gene96112.t1 MTR_3g030770 30.323 155 96 4 1 143 1 155 5.62e-16 74.7
MS.gene96112.t1 MTR_8g043650 31.852 135 83 3 1 126 1 135 1.35e-15 73.6
MS.gene96112.t1 MTR_2g030740 33.333 135 81 3 1 126 1 135 2.25e-15 73.2
MS.gene96112.t1 MTR_3g052920 32.653 147 89 2 1 137 1 147 2.63e-15 72.8
MS.gene96112.t1 MTR_1g077360 40.244 82 49 0 1 82 1 82 2.72e-15 72.8
MS.gene96112.t1 MTR_2g105290 29.747 158 99 4 4 151 7 162 4.18e-15 71.2
MS.gene96112.t1 MTR_1g106070 31.707 164 101 5 1 153 1 164 4.32e-15 71.2
MS.gene96112.t1 MTR_2g085250 29.710 138 88 3 1 129 1 138 4.65e-15 72.4
MS.gene96112.t1 MTR_2g085280 29.710 138 88 3 1 129 1 138 5.09e-15 72.0
MS.gene96112.t1 MTR_3g052870 40.244 82 49 0 1 82 1 82 5.66e-15 71.6
MS.gene96112.t1 MTR_1g108580 41.558 77 45 0 1 77 1 77 5.68e-15 72.0
MS.gene96112.t1 MTR_5g055100 26.786 168 103 4 1 156 1 160 8.60e-15 71.6
MS.gene96112.t1 MTR_5g045560 40.260 77 46 0 1 77 1 77 6.81e-14 68.9
MS.gene96112.t1 MTR_1g075600 28.426 197 112 5 1 182 1 183 7.84e-14 68.9
MS.gene96112.t1 MTR_2g093190 29.747 158 93 5 1 143 1 155 8.73e-14 68.6
MS.gene96112.t1 MTR_0121s0100 30.579 121 75 2 1 115 1 118 2.07e-13 65.5
MS.gene96112.t1 MTR_4g094638 39.130 69 42 0 9 77 2 70 2.79e-13 66.2
MS.gene96112.t1 MTR_4g094632 36.145 83 53 0 9 91 2 84 2.94e-13 65.9
MS.gene96112.t1 MTR_3g030780 37.500 72 45 0 1 72 1 72 1.52e-12 63.2
MS.gene96112.t1 MTR_0121s0080 25.904 166 106 4 1 152 1 163 4.50e-12 63.9
MS.gene96112.t1 MTR_8g046350 28.947 114 68 2 9 116 2 108 2.37e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene96112.t1 AT4G36590 50.000 68 34 0 5 72 3 70 2.26e-17 79.0
MS.gene96112.t1 AT2G34440 36.434 129 74 4 9 130 2 129 7.87e-17 75.9
MS.gene96112.t1 AT1G29962 46.250 80 42 1 1 80 1 79 2.08e-16 75.1
MS.gene96112.t1 AT2G24840 43.750 80 45 0 7 86 61 140 1.78e-15 73.9
MS.gene96112.t1 AT5G60440 28.780 205 118 6 5 200 3 188 7.87e-15 72.4
MS.gene96112.t1 AT1G28460 45.455 77 41 1 1 77 1 76 7.11e-14 68.2
MS.gene96112.t1 AT1G01530 32.710 107 68 1 5 107 3 109 2.11e-12 65.1
MS.gene96112.t1 AT3G04100 37.931 87 51 1 2 88 7 90 3.25e-12 63.9
MS.gene96112.t1 AT1G28450 41.250 80 46 1 1 80 1 79 1.29e-11 62.0
MS.gene96112.t1 AT1G65360 43.333 60 34 0 9 68 7 66 1.48e-11 62.4
MS.gene96112.t1 AT3G66656 40.000 65 39 0 9 73 2 66 3.56e-11 60.5

Find 38 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGAGTTAACAACACTTTC+AGG 0.202264 4.2:-50877376 MS.gene96112:CDS
CTTATTGGTGTAAGCGAAAT+AGG 0.231353 4.2:-50876420 MS.gene96112:CDS
TTGAAGAAGTTGGAAAGTTC+TGG 0.270990 4.2:-50877145 MS.gene96112:CDS
TGCACCAACTTCATGATCTT+TGG 0.281401 4.2:+50876814 None:intergenic
CTATTTCGCTTACACCAATA+AGG 0.293804 4.2:+50876421 None:intergenic
ACACAAGGAGTCAACCTTAT+TGG 0.301989 4.2:-50876435 MS.gene96112:CDS
ATAACCAATGTCTTGAAAAC+TGG 0.328346 4.2:-50877043 MS.gene96112:CDS
ATCATTTCCTCTTCCATTGA+AGG 0.330256 4.2:+50877250 None:intergenic
CTTCTACCATGTCATATATC+TGG 0.335672 4.2:+50876369 None:intergenic
TTTCTTTCACTTGATCATAT+TGG 0.353442 4.2:+50877101 None:intergenic
AGTTGGAAAGTTCTGGATAT+TGG 0.382288 4.2:-50877138 MS.gene96112:CDS
ATTCTCATGCTTTCTCCAAC+GGG 0.403336 4.2:-50877340 MS.gene96112:CDS
TTTGTTATAGATTCAGAAGA+TGG 0.410640 4.2:+50877295 None:intergenic
TTTATTTACGACAGCAACTA+AGG 0.422183 4.2:+50877069 None:intergenic
GGAAGAGGAAATGATGAAAC+CGG 0.442189 4.2:-50877242 MS.gene96112:CDS
CGTAGCAATTTCTACCATTG+AGG 0.467584 4.2:-50876885 MS.gene96112:intron
GAAGGATGAAAATCCTTCAA+TGG 0.468568 4.2:-50877263 MS.gene96112:CDS
GACTCCATTCAGTTCCTCAA+TGG 0.472764 4.2:+50876871 None:intergenic
TGTTGCATTTACAACGAGAA+AGG 0.475609 4.2:-50877419 MS.gene96112:CDS
GGTGTAAGCGAAATAGGATA+TGG 0.480619 4.2:-50876414 MS.gene96112:CDS
CTGAGTTAACAACACTTTCA+GGG 0.482866 4.2:-50877375 MS.gene96112:CDS
TATTCTCATGCTTTCTCCAA+CGG 0.502164 4.2:-50877341 MS.gene96112:CDS
TGAAAATCCTTCAATGGAAG+AGG 0.510231 4.2:-50877257 MS.gene96112:CDS
TCTACCATTGAGGAACTGAA+TGG 0.512244 4.2:-50876875 MS.gene96112:CDS
TTGTCCTCAAAGACAAAAGA+AGG 0.512656 4.2:+50876839 None:intergenic
GCATTTACAACGAGAAAGGC+TGG 0.523590 4.2:-50877415 MS.gene96112:CDS
TTATCCAAAAGGTAAAGGTA+TGG 0.531949 4.2:-50876493 MS.gene96112:intron
GCGCCGAAGAGGTCATCAAA+AGG 0.555723 4.2:-50877490 MS.gene96112:CDS
AACACCAAAGATCATGAAGT+TGG 0.566706 4.2:-50876818 MS.gene96112:CDS
TGGATATTGGTCGATAAAAG+AGG 0.572226 4.2:-50877125 MS.gene96112:CDS
AGCGAAATAGGATATGGAAG+TGG 0.576656 4.2:-50876408 MS.gene96112:CDS
ACCAATGTCTTGAAAACTGG+AGG 0.591573 4.2:-50877040 MS.gene96112:CDS
TGAGTTAACAACACTTTCAG+GGG 0.607847 4.2:-50877374 MS.gene96112:CDS
GAGTAAGAATGGCGCCGAAG+AGG 0.609055 4.2:-50877501 None:intergenic
GGAGGAGAGATTGAACCTCA+TGG 0.634950 4.2:-50877022 MS.gene96112:intron
TGAAAGTGTTGTTAACTCAG+AGG 0.669188 4.2:+50877378 None:intergenic
AAGCATGAGAATATCAACTG+AGG 0.718686 4.2:+50877351 None:intergenic
AAAGGCTGGAATTTACAACA+AGG 0.729615 4.2:-50877401 MS.gene96112:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAATTGAATCAATGAA+AGG + chr4.2:50877361-50877380 None:intergenic 15.0%
!! CAATACATAATATATATGTT+AGG + chr4.2:50877333-50877352 None:intergenic 15.0%
!! CTTAAAATAATTAGGTAAAA+AGG + chr4.2:50876948-50876967 None:intergenic 15.0%
!!! TTCAATTTTTTTTATCCAAA+AGG - chr4.2:50877369-50877388 MS.gene96112:CDS 15.0%
!! CAGATTCACTTAAAATAATT+AGG + chr4.2:50876956-50876975 None:intergenic 20.0%
!! GTTGAAAAAAATTGAGAAAA+AGG - chr4.2:50876421-50876440 MS.gene96112:CDS 20.0%
!!! CTAATTATTTTAAGTGAATC+TGG - chr4.2:50876954-50876973 MS.gene96112:intron 20.0%
!!! TATAACAAAAACTAGTTTGA+AGG - chr4.2:50876592-50876611 MS.gene96112:intron 20.0%
!!! TGAAAAAAATGATGATCTTT+TGG - chr4.2:50876670-50876689 MS.gene96112:intron 20.0%
!!! TTTTTTTATCCAAAAGGTAA+AGG - chr4.2:50877375-50877394 MS.gene96112:CDS 20.0%
! ACGTAAAAATTTGAAGAAGT+TGG - chr4.2:50876718-50876737 MS.gene96112:intron 25.0%
! ATAGCTACAAAAAAAACACA+AGG - chr4.2:50877423-50877442 MS.gene96112:CDS 25.0%
! TCTTCTTAATTTCCATTACT+AGG - chr4.2:50877270-50877289 MS.gene96112:CDS 25.0%
! TTTCTTTCACTTGATCATAT+TGG + chr4.2:50876775-50876794 None:intergenic 25.0%
!! TTTGTTATAGATTCAGAAGA+TGG + chr4.2:50876581-50876600 None:intergenic 25.0%
!! TTTTTCATGAAATATCCTAG+CGG - chr4.2:50877120-50877139 MS.gene96112:CDS 25.0%
AATGACGTCAAATGATTTCA+TGG - chr4.2:50876919-50876938 MS.gene96112:intron 30.0%
ATAACCAATGTCTTGAAAAC+TGG - chr4.2:50876830-50876849 MS.gene96112:CDS 30.0%
CTAGAGATATTTGATGTGTT+GGG + chr4.2:50877198-50877217 None:intergenic 30.0%
TCTAGAGATATTTGATGTGT+TGG + chr4.2:50877199-50877218 None:intergenic 30.0%
TTATCCAAAAGGTAAAGGTA+TGG - chr4.2:50877380-50877399 MS.gene96112:CDS 30.0%
TTTATTTACGACAGCAACTA+AGG + chr4.2:50876807-50876826 None:intergenic 30.0%
! AAATCCTTCTTTTGTCTTTG+AGG - chr4.2:50877030-50877049 MS.gene96112:CDS 30.0%
! GATGGTTTTCCATAACAAAA+TGG + chr4.2:50876563-50876582 None:intergenic 30.0%
! TCATTTTGCTCTATAATCTC+CGG + chr4.2:50876653-50876672 None:intergenic 30.0%
! TTTGGATAAAAAGCATGTTG+CGG - chr4.2:50876688-50876707 MS.gene96112:intron 30.0%
! TTTTAGACAAGAGATGTTGT+TGG - chr4.2:50877162-50877181 MS.gene96112:CDS 30.0%
! TTTTGTAGCTATATCTTGAG+AGG + chr4.2:50877415-50877434 None:intergenic 30.0%
!! ACCATTTAAGTTGCACTTAT+GGG - chr4.2:50877229-50877248 MS.gene96112:CDS 30.0%
!! TACCATTTAAGTTGCACTTA+TGG - chr4.2:50877228-50877247 MS.gene96112:CDS 30.0%
AAAGGCTGGAATTTACAACA+AGG - chr4.2:50876472-50876491 MS.gene96112:CDS 35.0%
AACACCAAAGATCATGAAGT+TGG - chr4.2:50877055-50877074 MS.gene96112:CDS 35.0%
AAGCATGAGAATATCAACTG+AGG + chr4.2:50876525-50876544 None:intergenic 35.0%
AATGTTTGCATGCCTAGTAA+TGG + chr4.2:50877285-50877304 None:intergenic 35.0%
ATCATTTCCTCTTCCATTGA+AGG + chr4.2:50876626-50876645 None:intergenic 35.0%
CTATTTCGCTTACACCAATA+AGG + chr4.2:50877455-50877474 None:intergenic 35.0%
CTGAGTTAACAACACTTTCA+GGG - chr4.2:50876498-50876517 MS.gene96112:intron 35.0%
CTTATTGGTGTAAGCGAAAT+AGG - chr4.2:50877453-50877472 MS.gene96112:CDS 35.0%
GAAGGATGAAAATCCTTCAA+TGG - chr4.2:50876610-50876629 MS.gene96112:intron 35.0%
TATTCTCATGCTTTCTCCAA+CGG - chr4.2:50876532-50876551 MS.gene96112:intron 35.0%
TCCCATAAGTGCAACTTAAA+TGG + chr4.2:50877233-50877252 None:intergenic 35.0%
TCTGAGTTAACAACACTTTC+AGG - chr4.2:50876497-50876516 MS.gene96112:intron 35.0%
TGAAAATCCTTCAATGGAAG+AGG - chr4.2:50876616-50876635 MS.gene96112:intron 35.0%
TGAGTTAACAACACTTTCAG+GGG - chr4.2:50876499-50876518 MS.gene96112:intron 35.0%
TGGATATTGGTCGATAAAAG+AGG - chr4.2:50876748-50876767 MS.gene96112:intron 35.0%
TGTTGCATTTACAACGAGAA+AGG - chr4.2:50876454-50876473 MS.gene96112:CDS 35.0%
TTGAAGAAGTTGGAAAGTTC+TGG - chr4.2:50876728-50876747 MS.gene96112:intron 35.0%
TTGTCCTCAAAGACAAAAGA+AGG + chr4.2:50877037-50877056 None:intergenic 35.0%
! ACGGGAAAACCATTTTGTTA+TGG - chr4.2:50876551-50876570 MS.gene96112:intron 35.0%
! TAACAAAATGGTTTTCCCGT+TGG + chr4.2:50876551-50876570 None:intergenic 35.0%
!! AGTTGGAAAGTTCTGGATAT+TGG - chr4.2:50876735-50876754 MS.gene96112:intron 35.0%
!! TGAAAGTGTTGTTAACTCAG+AGG + chr4.2:50876498-50876517 None:intergenic 35.0%
!! TTTCCTTTTGATGACCTCTT+CGG + chr4.2:50876389-50876408 None:intergenic 35.0%
ACACAAGGAGTCAACCTTAT+TGG - chr4.2:50877438-50877457 MS.gene96112:CDS 40.0%
ACCAATGTCTTGAAAACTGG+AGG - chr4.2:50876833-50876852 MS.gene96112:CDS 40.0%
AGCGAAATAGGATATGGAAG+TGG - chr4.2:50877465-50877484 MS.gene96112:CDS 40.0%
ATTCTCATGCTTTCTCCAAC+GGG - chr4.2:50876533-50876552 MS.gene96112:intron 40.0%
CAAGATGTACACATACCATG+AGG + chr4.2:50876869-50876888 None:intergenic 40.0%
CGTAGCAATTTCTACCATTG+AGG - chr4.2:50876988-50877007 MS.gene96112:intron 40.0%
GGAAGAGGAAATGATGAAAC+CGG - chr4.2:50876631-50876650 MS.gene96112:intron 40.0%
GGTGTAAGCGAAATAGGATA+TGG - chr4.2:50877459-50877478 MS.gene96112:CDS 40.0%
TCTACCATTGAGGAACTGAA+TGG - chr4.2:50876998-50877017 MS.gene96112:intron 40.0%
TGCACCAACTTCATGATCTT+TGG + chr4.2:50877062-50877081 None:intergenic 40.0%
! GCAACCATACCTTTACCTTT+TGG + chr4.2:50877387-50877406 None:intergenic 40.0%
!! TCCTCCAGTTTTCAAGACAT+TGG + chr4.2:50876837-50876856 None:intergenic 40.0%
GACTCCATTCAGTTCCTCAA+TGG + chr4.2:50877005-50877024 None:intergenic 45.0%
GCATTTACAACGAGAAAGGC+TGG - chr4.2:50876458-50876477 MS.gene96112:CDS 45.0%
GGAGGAGAGATTGAACCTCA+TGG - chr4.2:50876851-50876870 MS.gene96112:CDS 50.0%
! AATGTGTGAGTGTTGCCGCT+AGG + chr4.2:50877138-50877157 None:intergenic 50.0%
GCGCCGAAGAGGTCATCAAA+AGG - chr4.2:50876383-50876402 MS.gene96112:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 50876380 50877515 50876380 ID=MS.gene96112
chr4.2 mRNA 50876380 50877515 50876380 ID=MS.gene96112.t1;Parent=MS.gene96112
chr4.2 exon 50877023 50877515 50877023 ID=MS.gene96112.t1.exon1;Parent=MS.gene96112.t1
chr4.2 CDS 50877023 50877515 50877023 ID=cds.MS.gene96112.t1;Parent=MS.gene96112.t1
chr4.2 exon 50876813 50876902 50876813 ID=MS.gene96112.t1.exon2;Parent=MS.gene96112.t1
chr4.2 CDS 50876813 50876902 50876813 ID=cds.MS.gene96112.t1;Parent=MS.gene96112.t1
chr4.2 exon 50876380 50876504 50876380 ID=MS.gene96112.t1.exon3;Parent=MS.gene96112.t1
chr4.2 CDS 50876380 50876504 50876380 ID=cds.MS.gene96112.t1;Parent=MS.gene96112.t1
Gene Sequence

>MS.gene96112

ATGGCGCCGAAGAGGTCATCAAAAGGAAAACAAAAAATTGAGTTGAAAAAAATTGAGAAAAAGGATGATCTCTTTGTTGCATTTACAACGAGAAAGGCTGGAATTTACAACAAGGCCTCTGAGTTAACAACACTTTCAGGGGCCTCAGTTGATATTCTCATGCTTTCTCCAACGGGAAAACCATTTTGTTATGGAAAACCATCTTCTGAATCTATAACAAAAACTAGTTTGAAGGATGAAAATCCTTCAATGGAAGAGGAAATGATGAAACCGGAGATTATAGAGCAAAATGAAAAAAATGATGATCTTTTGGATAAAAAGCATGTTGCGGAAGCACAACGTAAAAATTTGAAGAAGTTGGAAAGTTCTGGATATTGGTCGATAAAAGAGGACCAATATGATCAAGTGAAAGAAATTGACAAATCCTTAGTTGCTGTCGTAAATAAATTGATAACCAATGTCTTGAAAACTGGAGGAGAGATTGAACCTCATGGTATGTGTACATCTTGTAACTATCTATGTGTTATATTTGATCTATTAATGACGTCAAATGATTTCATGGCATCCTTTTTACCTAATTATTTTAAGTGAATCTGGTTATAATTTTTCGTAGCAATTTCTACCATTGAGGAACTGAATGGAGTCAAAACAAATCCTTCTTTTGTCTTTGAGGACAACACCAAAGATCATGAAGTTGGTGCAAGTAAGAATTTTCATTCATGTTTTTAATTTTTTAATTTTTTTTCATGAAATATCCTAGCGGCAACACTCACACATTAAACTTTTAGACAAGAGATGTTGTTGGATAATCATGTCCCAACACATCAAATATCTCTAGATAAAATTTTTACCATTTAAGTTGCACTTATGGGAAAAATCTCAATTCTTTTTCTTCTTAATTTCCATTACTAGGCATGCAAACATTTACTTTTAATATTTCATGCGACAAACCTAACATATATATTATGTATTGTCTTTCCTTTCATTGATTCAATTTTTTTTATCCAAAAGGTAAAGGTATGGTTGCTAAAGCCTCTCAAGATATAGCTACAAAAAAAACACAAGGAGTCAACCTTATTGGTGTAAGCGAAATAGGATATGGAAGTGGTGTTGATCATGCTTCTCCAGATATATGA

Protein sequence

>MS.gene96112.t1

MAPKRSSKGKQKIELKKIEKKDDLFVAFTTRKAGIYNKASELTTLSGASVDILMLSPTGKPFCYGKPSSESITKTSLKDENPSMEEEMMKPEIIEQNEKNDDLLDKKHVAEAQRKNLKKLESSGYWSIKEDQYDQVKEIDKSLVAVVNKLITNVLKTGGEIEPHAISTIEELNGVKTNPSFVFEDNTKDHEVGASKGMVAKASQDIATKKTQGVNLIGVSEIGYGSGVDHASPDI