AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene006123


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene006123.t1 MTR_1g098170 100.000 152 0 0 1 152 1 152 6.47e-112 314
MS.gene006123.t1 MTR_1g098220 100.000 152 0 0 1 152 1 152 6.47e-112 314
MS.gene006123.t1 MTR_6g043210 98.684 152 2 0 1 152 1 152 6.70e-111 311
MS.gene006123.t1 MTR_1g492710 97.945 146 3 0 1 146 794 939 1.21e-97 303
MS.gene006123.t1 MTR_1g098220 99.160 119 1 0 1 119 1 119 2.71e-84 243
MS.gene006123.t1 MTR_5g027650 95.098 102 5 0 39 140 11 112 7.93e-69 203
MS.gene006123.t1 MTR_5g027580 93.137 102 7 0 39 140 48 149 7.08e-68 202
MS.gene006123.t1 MTR_5g027670 94.382 89 5 0 52 140 1 89 2.79e-58 176
MS.gene006123.t1 MTR_5g027615 94.382 89 5 0 52 140 1 89 7.00e-58 175
MS.gene006123.t1 MTR_5g027605 94.382 89 5 0 52 140 1 89 7.00e-58 175
MS.gene006123.t1 MTR_5g027640 94.382 89 5 0 52 140 1 89 7.00e-58 175
MS.gene006123.t1 MTR_5g027600 94.382 89 5 0 52 140 1 89 7.00e-58 175
MS.gene006123.t1 MTR_1005s0010 94.186 86 5 0 55 140 2 87 2.51e-56 171
MS.gene006123.t1 MTR_4g015960 70.270 74 15 2 68 137 10 80 2.32e-27 106
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene006123.t1 AT4G09800 92.763 152 11 0 1 152 1 152 1.89e-105 298
MS.gene006123.t1 AT1G34030 92.763 152 11 0 1 152 1 152 1.89e-105 298
MS.gene006123.t1 AT1G22780 92.763 152 11 0 1 152 1 152 1.89e-105 298

Find 35 sgRNAs with CRISPR-Local

Find 99 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCTTCATGTCAAGTTGAT+TGG 0.350481 1.1:-70571383 None:intergenic
CATGAAGCTGAGGGATGATT+TGG 0.353151 1.1:+70571396 MS.gene006123:CDS
ATCGTGGATTGAGGCACTAC+TGG 0.374036 1.1:+70572268 MS.gene006123:CDS
TCCTCTGCGGCCAGTAGTCT+TGG 0.415117 1.1:-70572316 None:intergenic
TACTGGGGCCTTCGTGTTCG+TGG 0.449083 1.1:+70572285 MS.gene006123:CDS
TGATTGAGGTCATTGCGAAC+TGG 0.463060 1.1:-70571008 None:intergenic
GTTCGCAATGACCTCAATCA+AGG 0.484324 1.1:+70571011 MS.gene006123:CDS
ATGACCTCAATCAAGGGTAT+TGG 0.493197 1.1:+70571018 MS.gene006123:CDS
GTCAATTCAAGGTTCCAGAT+TGG 0.495981 1.1:+70571308 MS.gene006123:CDS
CGCTAACATCTGCTGTAAGA+AGG 0.503592 1.1:+70571050 MS.gene006123:CDS
TGCGAATCCTCGTCAATTCA+AGG 0.503849 1.1:+70571297 MS.gene006123:CDS
TGGAGAGACTCAAGAAGATC+CGG 0.515884 1.1:+70571416 MS.gene006123:CDS
TCGTGGATTGAGGCACTACT+GGG 0.516130 1.1:+70572269 MS.gene006123:CDS
GAACAGAAAGAAGGATTACA+AGG 0.525479 1.1:+70571336 MS.gene006123:CDS
GGTCAGCATACCAAGACTAC+TGG 0.555192 1.1:+70572306 MS.gene006123:CDS
AGAAAGAAGGATTACAAGGA+TGG 0.565673 1.1:+70571340 MS.gene006123:CDS
TGAATTGAGTGCCGCAGAGT+TGG 0.583506 1.1:+70571255 MS.gene006123:CDS
CCTACCAATACCCTTGATTG+AGG 0.590405 1.1:-70571022 None:intergenic
ATCAACTTGACATGAAGCTG+AGG 0.604543 1.1:+70571386 MS.gene006123:CDS
ACCAAGACTACTGGCCGCAG+AGG 0.620084 1.1:+70572315 MS.gene006123:CDS
GTTGGATAATATTATGACAG+TGG 0.620536 1.1:+70571273 MS.gene006123:CDS
TTCGCAATGACCTCAATCAA+GGG 0.622158 1.1:+70571012 MS.gene006123:CDS
GGCCGCAGAGGAAAGACAGT+TGG 0.623790 1.1:+70572327 MS.gene006123:CDS
CCTCAATCAAGGGTATTGGT+AGG 0.631523 1.1:+70571022 MS.gene006123:CDS
GTGTTGAACACAAATGTCGA+TGG 0.634706 1.1:+70570973 MS.gene006123:CDS
TCAACTTGACATGAAGCTGA+GGG 0.637423 1.1:+70571387 MS.gene006123:CDS
GCAGTAATCATCGTGGATTG+AGG 0.637806 1.1:+70572259 MS.gene006123:intron
CTGTTATGCAGTAATCATCG+TGG 0.641883 1.1:+70572252 MS.gene006123:intron
CCTCTTGTTCATGTCAACAT+CGG 0.651019 1.1:-70571073 None:intergenic
CCGATGTTGACATGAACAAG+AGG 0.658386 1.1:+70571073 MS.gene006123:CDS
TCTGGAACCTTGAATTGACG+AGG 0.669518 1.1:-70571304 None:intergenic
CATAATATTATCCAACTCTG+CGG 0.698001 1.1:-70571266 None:intergenic
CACCAACTGTCTTTCCTCTG+CGG 0.707516 1.1:-70572329 None:intergenic
CGTGGATTGAGGCACTACTG+GGG 0.709284 1.1:+70572270 MS.gene006123:CDS
TATGCTGACCACGAACACGA+AGG 0.739225 1.1:-70572293 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAGTTAAAAAAAATTATAA+TGG - chr1.1:70572128-70572147 None:intergenic 10.0%
!!! ATTTTTGTTGTTAAAATTAA+TGG + chr1.1:70571136-70571155 MS.gene006123:intron 10.0%
!!! TTTTTGTTGTTAAAATTAAT+GGG + chr1.1:70571137-70571156 MS.gene006123:intron 10.0%
!! GTTTAAATAAATATCAATCT+AGG + chr1.1:70572098-70572117 MS.gene006123:intron 15.0%
!! TTTGATATTATTGTTGAAAT+GGG + chr1.1:70571200-70571219 MS.gene006123:intron 15.0%
!!! TTTTGATATTATTGTTGAAA+TGG + chr1.1:70571199-70571218 MS.gene006123:intron 15.0%
!! TATTAATTCTATCATCTTTC+TGG - chr1.1:70571510-70571529 None:intergenic 20.0%
!!! AAATGACTGATTTATAAAAG+TGG - chr1.1:70571120-70571139 None:intergenic 20.0%
!!! AATGACTGATTTATAAAAGT+GGG - chr1.1:70571119-70571138 None:intergenic 20.0%
!!! ATAATTATTGCTTTGATAGT+TGG + chr1.1:70571624-70571643 MS.gene006123:intron 20.0%
!!! TTCTGTTTTCAGTAATATAA+TGG + chr1.1:70572153-70572172 MS.gene006123:intron 20.0%
!!! TTTGTTGTTGGATTTTTTTA+GGG + chr1.1:70571228-70571247 MS.gene006123:intron 20.0%
!!! TTTTGTTGTTGGATTTTTTT+AGG + chr1.1:70571227-70571246 MS.gene006123:intron 20.0%
! AAATAAATATCAATCTAGGC+AGG + chr1.1:70572102-70572121 MS.gene006123:intron 25.0%
! AGTGTTTGAATAATAGAATG+AGG + chr1.1:70571688-70571707 MS.gene006123:intron 25.0%
! ATAAGATGAAAACAGTTGAT+GGG + chr1.1:70572017-70572036 MS.gene006123:intron 25.0%
! ATTAAAACTGGTTAGAAAAG+TGG - chr1.1:70571765-70571784 None:intergenic 25.0%
! TATAAGATGAAAACAGTTGA+TGG + chr1.1:70572016-70572035 MS.gene006123:intron 25.0%
! TTTCCCATAAGCTAAAATAT+AGG + chr1.1:70571921-70571940 MS.gene006123:intron 25.0%
!! ATGTAGGAATATTTAAGTTC+AGG + chr1.1:70571577-70571596 MS.gene006123:intron 25.0%
!!! ACATTTTAACACTACTATGT+AGG + chr1.1:70571561-70571580 MS.gene006123:intron 25.0%
!!! ACTTGTATTTGTTTTTCTCT+TGG + chr1.1:70571978-70571997 MS.gene006123:intron 25.0%
!!! GGTTACTAAATTTTTTGTTG+CGG + chr1.1:70572204-70572223 MS.gene006123:intron 25.0%
AAAATATAGGCAGTGAAAAC+TGG + chr1.1:70571934-70571953 MS.gene006123:intron 30.0%
AAATATAGGCAGTGAAAACT+GGG + chr1.1:70571935-70571954 MS.gene006123:intron 30.0%
AGTGAAGAAAGAGATGAAAT+CGG - chr1.1:70570865-70570884 None:intergenic 30.0%
ATAGAATGAGGATTCACTAT+TGG + chr1.1:70571700-70571719 MS.gene006123:intron 30.0%
ATGATTACTGCATAACAGAA+AGG - chr1.1:70572250-70572269 None:intergenic 30.0%
CATAATATTATCCAACTCTG+CGG - chr1.1:70571269-70571288 None:intergenic 30.0%
GTGTTTGGAAATTGATTATC+AGG + chr1.1:70571866-70571885 MS.gene006123:intron 30.0%
GTTGGATAATATTATGACAG+TGG + chr1.1:70571273-70571292 MS.gene006123:CDS 30.0%
TAGCGCATTTCAATTAAAAC+TGG - chr1.1:70571777-70571796 None:intergenic 30.0%
TCAATTTCCAAACACTATTG+TGG - chr1.1:70571861-70571880 None:intergenic 30.0%
TTTCTGTTCAAAAACCAATC+TGG - chr1.1:70571325-70571344 None:intergenic 30.0%
! TTGCATAAGCAAACTGTTTT+GGG - chr1.1:70572070-70572089 None:intergenic 30.0%
! TTTGCATAAGCAAACTGTTT+TGG - chr1.1:70572071-70572090 None:intergenic 30.0%
!! AGTAATATAATGGATGTGTG+TGG + chr1.1:70572163-70572182 MS.gene006123:intron 30.0%
!! TTGGTTTTTGAACAGAAAGA+AGG + chr1.1:70571327-70571346 MS.gene006123:CDS 30.0%
!! TTGTTTTTCTCTTGGCTATA+TGG + chr1.1:70571986-70572005 MS.gene006123:intron 30.0%
!!! AAATGGGTTGTTTTTGTTGT+TGG + chr1.1:70571216-70571235 MS.gene006123:intron 30.0%
!!! ACTGCCTATATTTTAGCTTA+TGG - chr1.1:70571928-70571947 None:intergenic 30.0%
!!! CTGCCTATATTTTAGCTTAT+GGG - chr1.1:70571927-70571946 None:intergenic 30.0%
ACGAAAAGTAACAGAATCAG+TGG - chr1.1:70570902-70570921 None:intergenic 35.0%
AGAAAGAAGGATTACAAGGA+TGG + chr1.1:70571340-70571359 MS.gene006123:CDS 35.0%
AGGGATAATACTAATGTCCA+TGG + chr1.1:70571808-70571827 MS.gene006123:intron 35.0%
CATTAGTATTATCCCTCTTC+TGG - chr1.1:70571804-70571823 None:intergenic 35.0%
GAACAGAAAGAAGGATTACA+AGG + chr1.1:70571336-70571355 MS.gene006123:CDS 35.0%
GTGAAGAAAGAGATGAAATC+GGG - chr1.1:70570864-70570883 None:intergenic 35.0%
TCGTGATGTATTACAGTCTT+TGG + chr1.1:70570918-70570937 MS.gene006123:intron 35.0%
TTAGCTTCCACAATAGTGTT+TGG + chr1.1:70571851-70571870 MS.gene006123:intron 35.0%
! TGCATAAGCAAACTGTTTTG+GGG - chr1.1:70572069-70572088 None:intergenic 35.0%
!!! TTGTTGGATTTTTTTAGGGC+TGG + chr1.1:70571232-70571251 MS.gene006123:intron 35.0%
AAAGTGGTGAATCATGACAG+CGG - chr1.1:70571749-70571768 None:intergenic 40.0%
ACAATGAAGTAGCAACTGAC+CGG - chr1.1:70571438-70571457 None:intergenic 40.0%
ATCAACTTGACATGAAGCTG+AGG + chr1.1:70571386-70571405 MS.gene006123:CDS 40.0%
ATCGAGTTCATACACTGTCA+AGG - chr1.1:70571668-70571687 None:intergenic 40.0%
ATGGATGTGTGTGGAGAAAT+TGG + chr1.1:70572172-70572191 MS.gene006123:intron 40.0%
CCTCTTGTTCATGTCAACAT+CGG - chr1.1:70571076-70571095 None:intergenic 40.0%
CTGTTATGCAGTAATCATCG+TGG + chr1.1:70572252-70572271 MS.gene006123:intron 40.0%
GAAAGAGATGAAATCGGGAT+CGG - chr1.1:70570859-70570878 None:intergenic 40.0%
GTCAATTCAAGGTTCCAGAT+TGG + chr1.1:70571308-70571327 MS.gene006123:CDS 40.0%
GTGTTGAACACAAATGTCGA+TGG + chr1.1:70570973-70570992 MS.gene006123:CDS 40.0%
TCAACTTGACATGAAGCTGA+GGG + chr1.1:70571387-70571406 MS.gene006123:CDS 40.0%
TGGATGTGTGTGGAGAAATT+GGG + chr1.1:70572173-70572192 MS.gene006123:intron 40.0%
TTCGCAATGACCTCAATCAA+GGG + chr1.1:70571012-70571031 MS.gene006123:CDS 40.0%
TTCTCTTGGCTATATGGTAG+TGG + chr1.1:70571992-70572011 MS.gene006123:intron 40.0%
! ATGACCTCAATCAAGGGTAT+TGG + chr1.1:70571018-70571037 MS.gene006123:CDS 40.0%
!! CAGCTTCATGTCAAGTTGAT+TGG - chr1.1:70571386-70571405 None:intergenic 40.0%
ACTGGGCTGAAGTTATTTGC+TGG + chr1.1:70571952-70571971 MS.gene006123:intron 45.0%
CATGAAGCTGAGGGATGATT+TGG + chr1.1:70571396-70571415 MS.gene006123:CDS 45.0%
CCGATGTTGACATGAACAAG+AGG + chr1.1:70571073-70571092 MS.gene006123:CDS 45.0%
CCTACCAATACCCTTGATTG+AGG - chr1.1:70571025-70571044 None:intergenic 45.0%
CGCTAACATCTGCTGTAAGA+AGG + chr1.1:70571050-70571069 MS.gene006123:CDS 45.0%
GTTCGCAATGACCTCAATCA+AGG + chr1.1:70571011-70571030 MS.gene006123:CDS 45.0%
TGATTGAGGTCATTGCGAAC+TGG - chr1.1:70571011-70571030 None:intergenic 45.0%
TGCGAATCCTCGTCAATTCA+AGG + chr1.1:70571297-70571316 MS.gene006123:CDS 45.0%
TGGAGAGACTCAAGAAGATC+CGG + chr1.1:70571416-70571435 MS.gene006123:CDS 45.0%
TGTGTGGAGAAATTGGGCAT+TGG + chr1.1:70572179-70572198 MS.gene006123:intron 45.0%
! GCAGTAATCATCGTGGATTG+AGG + chr1.1:70572259-70572278 MS.gene006123:intron 45.0%
! TCTGGAACCTTGAATTGACG+AGG - chr1.1:70571307-70571326 None:intergenic 45.0%
!! CCTCAATCAAGGGTATTGGT+AGG + chr1.1:70571022-70571041 MS.gene006123:CDS 45.0%
AATGCGCTAGACACCAGAAG+AGG + chr1.1:70571788-70571807 MS.gene006123:intron 50.0%
ATGCGCTAGACACCAGAAGA+GGG + chr1.1:70571789-70571808 MS.gene006123:intron 50.0%
CACCAACTGTCTTTCCTCTG+CGG - chr1.1:70572332-70572351 None:intergenic 50.0%
GGTCAGCATACCAAGACTAC+TGG + chr1.1:70572306-70572325 MS.gene006123:CDS 50.0%
TATGCTGACCACGAACACGA+AGG - chr1.1:70572296-70572315 None:intergenic 50.0%
TCCACGCACAATCAAAGCCA+TGG - chr1.1:70571828-70571847 None:intergenic 50.0%
! ATCGTGGATTGAGGCACTAC+TGG + chr1.1:70572268-70572287 MS.gene006123:CDS 50.0%
! TCGTGGATTGAGGCACTACT+GGG + chr1.1:70572269-70572288 MS.gene006123:CDS 50.0%
! TGAATTGAGTGCCGCAGAGT+TGG + chr1.1:70571255-70571274 MS.gene006123:CDS 50.0%
!! TCCATGGCTTTGATTGTGCG+TGG + chr1.1:70571824-70571843 MS.gene006123:intron 50.0%
!! TGGAGAAATTGGGCATTGGC+TGG + chr1.1:70572183-70572202 MS.gene006123:intron 50.0%
GTGGTGAATCATGACAGCGG+AGG - chr1.1:70571746-70571765 None:intergenic 55.0%
! ATCATGACAGCGGAGGTGCA+TGG - chr1.1:70571739-70571758 None:intergenic 55.0%
! CGTGGATTGAGGCACTACTG+GGG + chr1.1:70572270-70572289 MS.gene006123:CDS 55.0%
ACCAAGACTACTGGCCGCAG+AGG + chr1.1:70572315-70572334 MS.gene006123:CDS 60.0%
GGCCGCAGAGGAAAGACAGT+TGG + chr1.1:70572327-70572346 MS.gene006123:CDS 60.0%
TACTGGGGCCTTCGTGTTCG+TGG + chr1.1:70572285-70572304 MS.gene006123:CDS 60.0%
TCCTCTGCGGCCAGTAGTCT+TGG - chr1.1:70572319-70572338 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 70570845 70572368 70570845 ID=MS.gene006123
chr1.1 mRNA 70570845 70572368 70570845 ID=MS.gene006123.t1;Parent=MS.gene006123
chr1.1 exon 70570845 70570847 70570845 ID=MS.gene006123.t1.exon1;Parent=MS.gene006123.t1
chr1.1 CDS 70570845 70570847 70570845 ID=cds.MS.gene006123.t1;Parent=MS.gene006123.t1
chr1.1 exon 70570934 70571094 70570934 ID=MS.gene006123.t1.exon2;Parent=MS.gene006123.t1
chr1.1 CDS 70570934 70571094 70570934 ID=cds.MS.gene006123.t1;Parent=MS.gene006123.t1
chr1.1 exon 70571249 70571437 70571249 ID=MS.gene006123.t1.exon3;Parent=MS.gene006123.t1
chr1.1 CDS 70571249 70571437 70571249 ID=cds.MS.gene006123.t1;Parent=MS.gene006123.t1
chr1.1 exon 70572263 70572368 70572263 ID=MS.gene006123.t1.exon4;Parent=MS.gene006123.t1
chr1.1 CDS 70572263 70572368 70572263 ID=cds.MS.gene006123.t1;Parent=MS.gene006123.t1
Gene Sequence

>MS.gene006123

ATGGTACGTTTCCGATCCCGATTTCATCTCTTTCTTCACTGTGTAGATGTTTCACCACTGATTCTGTTACTTTTCGTGATGTATTACAGTCTTTGGTTGCGAACGAAGAATTTCAGCACATTTTGCGTGTGTTGAACACAAATGTCGATGGAAAGCAGAAGATCCAGTTCGCAATGACCTCAATCAAGGGTATTGGTAGGAGATTCGCTAACATCTGCTGTAAGAAGGCCGATGTTGACATGAACAAGAGGTTCGTTGTTCTGATTTTGCTCCCACTTTTATAAATCAGTCATTTTTGTTGTTAAAATTAATGGGTTTCTTGAGTTTAATTGATCTCACATTTAAAAATCAAATTTTTGATATTATTGTTGAAATGGGTTGTTTTTGTTGTTGGATTTTTTTAGGGCTGGTGAATTGAGTGCCGCAGAGTTGGATAATATTATGACAGTGGTTGCGAATCCTCGTCAATTCAAGGTTCCAGATTGGTTTTTGAACAGAAAGAAGGATTACAAGGATGGCAAATTCTCTCAAGTTGTATCCAATCAACTTGACATGAAGCTGAGGGATGATTTGGAGAGACTCAAGAAGATCCGGTCAGTTGCTACTTCATTGTTTATTTCATTATTTTTTGTGTTTGATGATGATGTGATTGTTTGTGTTAGCCAGAAAGATGATAGAATTAATAATTATTGTTTTGATAGTGTATGTTTAAATTAACATTTTAACACTACTATGTAGGAATATTTAAGTTCAGGTGTAGTAGTAAGATGATAGAATTAATAATTATTGCTTTGATAGTTGGTTCTTGATGTTTTAGCTTCCTTGACAGTGTATGAACTCGATAGTGTTTGAATAATAGAATGAGGATTCACTATTGGAAAATCTAAAGCACCATGCACCTCCGCTGTCATGATTCACCACTTTTCTAACCAGTTTTAATTGAAATGCGCTAGACACCAGAAGAGGGATAATACTAATGTCCATGGCTTTGATTGTGCGTGGAGCTTTAGCTTCCACAATAGTGTTTGGAAATTGATTATCAGGAAGTGTTATTAATTTACTTGAGTAATCAAATGTTTCCCATAAGCTAAAATATAGGCAGTGAAAACTGGGCTGAAGTTATTTGCTGGTTGACTTGTATTTGTTTTTCTCTTGGCTATATGGTAGTGGATATAAGATGAAAACAGTTGATGGGCATGTTATTAACTGATTCTATAAGTTCCCCAAAACAGTTTGCTTATGCAAATTGATTAGTTTAAATAAATATCAATCTAGGCAGGCCATTATAATTTTTTTTAACTTCTCAAATTCTGTTTTCAGTAATATAATGGATGTGTGTGGAGAAATTGGGCATTGGCTGGTTACTAAATTTTTTGTTGCGGTAACACTTGAAGACTAACATCCTTTCTGTTATGCAGTAATCATCGTGGATTGAGGCACTACTGGGGCCTTCGTGTTCGTGGTCAGCATACCAAGACTACTGGCCGCAGAGGAAAGACAGTTGGTGTGTCAAAGAAGCGTTAA

Protein sequence

>MS.gene006123.t1

MSLVANEEFQHILRVLNTNVDGKQKIQFAMTSIKGIGRRFANICCKKADVDMNKRAGELSAAELDNIMTVVANPRQFKVPDWFLNRKKDYKDGKFSQVVSNQLDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR