AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene77621

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene77621.t1 MTR_7g113680 55.849 265 95 8 5 260 53 304 5.01e-80 244
MS.gene77621.t1 MTR_1g082660 59.227 233 77 10 5 226 2 227 2.40e-73 225
MS.gene77621.t1 MTR_3g099180 67.361 144 37 3 84 226 36 170 6.37e-62 194
MS.gene77621.t1 MTR_3g099180 67.361 144 37 3 84 226 36 170 6.52e-62 194
MS.gene77621.t1 MTR_2g023340 55.034 149 52 3 85 224 67 209 3.43e-52 170
MS.gene77621.t1 MTR_2g081630 60.241 83 32 1 102 183 21 103 2.02e-30 110
MS.gene77621.t1 MTR_2g081600 60.241 83 32 1 102 183 21 103 2.14e-30 110
MS.gene77621.t1 MTR_3g012030 41.026 78 46 0 104 181 9 86 3.71e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene77621.t1 AT1G56170 86.154 130 14 2 82 210 55 181 2.03e-78 236
MS.gene77621.t1 AT1G56170 86.154 130 14 2 82 210 55 181 2.03e-78 236
MS.gene77621.t1 AT5G63470 58.128 203 66 5 41 234 20 212 3.01e-69 214
MS.gene77621.t1 AT5G63470 58.128 203 66 5 41 234 20 212 3.01e-69 214
MS.gene77621.t1 AT1G08970 71.528 144 38 3 85 226 62 204 4.36e-69 213
MS.gene77621.t1 AT1G08970 71.528 144 38 3 85 226 62 204 4.36e-69 213
MS.gene77621.t1 AT1G08970 71.528 144 38 3 85 226 62 204 4.36e-69 213
MS.gene77621.t1 AT1G08970 71.528 144 38 3 85 226 62 204 4.36e-69 213
MS.gene77621.t1 AT1G54830 69.388 147 33 3 85 226 52 191 2.92e-68 211
MS.gene77621.t1 AT1G54830 69.388 147 33 3 85 226 52 191 2.92e-68 211
MS.gene77621.t1 AT1G54830 69.388 147 33 3 85 226 52 191 2.92e-68 211
MS.gene77621.t1 AT3G48590 65.060 166 52 3 71 233 33 195 1.10e-67 209
MS.gene77621.t1 AT5G50480 47.879 165 70 4 81 243 35 185 2.82e-47 156
MS.gene77621.t1 AT5G27910 41.667 180 85 6 79 256 15 176 7.03e-40 137
MS.gene77621.t1 AT5G50490 39.429 175 93 4 72 244 8 171 9.32e-36 126
MS.gene77621.t1 AT5G50470 48.148 108 47 2 81 182 44 148 2.61e-30 113
MS.gene77621.t1 AT5G38140 45.000 100 51 2 82 180 48 144 1.94e-26 102

Find 75 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGTGGTGGCTGCTGTTGC+TGG 0.226796 2.3:-30013882 None:intergenic
TAGAGTTGACTTTGCGATCT+TGG 0.263614 2.3:+30013542 MS.gene77621:CDS
ACTGTTCCCATGTTGGCTTC+TGG 0.263791 2.3:+30013220 MS.gene77621:CDS
TTTGCTCAATTTCTTGCATT+TGG 0.264134 2.3:-30013390 None:intergenic
TCTTCTTTCAATTCATCTCT+TGG 0.282962 2.3:-30013664 None:intergenic
TATATTGCTGCATGATCAAC+TGG 0.341302 2.3:-30013802 None:intergenic
ATCAGCAGCTTCAAATGTTC+TGG 0.343397 2.3:+30013362 MS.gene77621:CDS
AGGCGGCTGGAGGTTGTGTT+GGG 0.345448 2.3:-30013267 None:intergenic
TGCAAATACAACTGGAGCTT+CGG 0.352437 2.3:-30013497 None:intergenic
GTTGGTGTTGCTGCTGTTGA+TGG 0.352589 2.3:-30013339 None:intergenic
TACGCGCAAGAGGGAGAGTA+TGG 0.358081 2.3:-30013429 None:intergenic
TTAACTTGTCATGGATAATT+CGG 0.369534 2.3:+30013117 None:intergenic
AAGGCGGCTGGAGGTTGTGT+TGG 0.392780 2.3:-30013268 None:intergenic
GGTGGAAATGTTGTGCTTGC+TGG 0.393054 2.3:-30013318 None:intergenic
GTCCCACCACAACATCCTTT+AGG 0.406073 2.3:+30013754 MS.gene77621:CDS
TCAGCTGGAGCACCGATTAT+CGG 0.426072 2.3:-30013715 None:intergenic
CAACATCCTTTAGGTCCTAC+AGG 0.429195 2.3:+30013763 MS.gene77621:CDS
AAGCCTACTATTCCGATAAT+CGG 0.435007 2.3:+30013703 MS.gene77621:CDS
AGTGAGAAGAATAGACCATT+TGG 0.446634 2.3:-30013192 None:intergenic
TGTGGTGGGACATAATAATA+TGG 0.447642 2.3:-30013742 None:intergenic
CCACAGGAGGTCGAGGCTGC+TGG 0.460527 2.3:-30013831 None:intergenic
GTGCTTGCTGGTATGCGAAT+TGG 0.463958 2.3:-30013306 None:intergenic
TCAGCAGCTTCAAATGTTCT+GGG 0.497192 2.3:+30013363 MS.gene77621:CDS
CTCCTGTGGCTTTCATGCCA+TGG 0.498225 2.3:+30013845 MS.gene77621:CDS
CGCACCAGGTACTAGCCAAA+TGG 0.499512 2.3:+30013177 MS.gene77621:CDS
GCACCGATTATCGGAATAGT+AGG 0.501513 2.3:-30013706 None:intergenic
ATCATCCCTGTAGGACCTAA+AGG 0.501857 2.3:-30013769 None:intergenic
GAGTCTGTCTGTGGCTGTTG+TGG 0.506073 2.3:-30013898 None:intergenic
GCTGGAGGTTGTGTTGGGGT+AGG 0.506284 2.3:-30013262 None:intergenic
GAGCTTCGGCTGAAATCATC+CGG 0.506392 2.3:-30013483 None:intergenic
TAATAATATGGCATATCAGC+TGG 0.509819 2.3:-30013730 None:intergenic
AGGTCCTACAGGGATGATCA+TGG 0.513342 2.3:+30013774 MS.gene77621:CDS
GCGGAATTAGAGAAGGCGGC+TGG 0.518140 2.3:-30013280 None:intergenic
ATGAAAGCCACAGGAGGTCG+AGG 0.520693 2.3:-30013838 None:intergenic
AGAGATGAATTGAAAGAAGA+GGG 0.526767 2.3:+30013667 MS.gene77621:CDS
CTACCAGACTGTTCCCATGT+TGG 0.533936 2.3:+30013213 MS.gene77621:CDS
TCCTCTTGTTCTCTTCAGTG+TGG 0.538251 2.3:-30013567 None:intergenic
TCTGTCTGTGGCTGTTGTGG+TGG 0.546304 2.3:-30013895 None:intergenic
AAGCCAACATGGGAACAGTC+TGG 0.547744 2.3:-30013216 None:intergenic
TGAAAGCCGATGAAGATGTC+CGG 0.548255 2.3:+30013464 MS.gene77621:CDS
GAATTGAAAGAAGAGGGGCT+TGG 0.553111 2.3:+30013673 MS.gene77621:CDS
CGACTCCGATCGCAGATTGT+TGG 0.553401 2.3:-30013156 None:intergenic
CTTGCTGGTATGCGAATTGG+TGG 0.555433 2.3:-30013303 None:intergenic
GGTGTTGCTGCTGTTGATGG+TGG 0.572770 2.3:-30013336 None:intergenic
AATCATCCGGACATCTTCAT+CGG 0.573019 2.3:-30013470 None:intergenic
AGGTGTGCCAGAAGCCAACA+TGG 0.576129 2.3:-30013227 None:intergenic
AAGAGATGAATTGAAAGAAG+AGG 0.576346 2.3:+30013666 MS.gene77621:CDS
TAGACCATTTGGCTAGTACC+TGG 0.582406 2.3:-30013181 None:intergenic
GGCGGCTGGAGGTTGTGTTG+GGG 0.582498 2.3:-30013266 None:intergenic
TCTGCGATCGGAGTCGCACC+AGG 0.583461 2.3:+30013163 MS.gene77621:CDS
GACCATGGCATGAAAGCCAC+AGG 0.584151 2.3:-30013847 None:intergenic
GAAAGAAGAGGGGCTTGGAA+TGG 0.586004 2.3:+30013678 MS.gene77621:CDS
GACCTAAAGGATGTTGTGGT+GGG 0.590318 2.3:-30013756 None:intergenic
CCAGCAGCCTCGACCTCCTG+TGG 0.590845 2.3:+30013831 MS.gene77621:CDS
GGGGTAGGAACAGCTACAGC+AGG 0.597736 2.3:-30013247 None:intergenic
GGTCCTACAGGGATGATCAT+GGG 0.598225 2.3:+30013775 MS.gene77621:CDS
TTTCCCATGATCATCCCTGT+AGG 0.601110 2.3:-30013778 None:intergenic
ACATTTGAAGCTGCTGATGT+TGG 0.603398 2.3:-30013357 None:intergenic
TCCACACTGAAGAGAACAAG+AGG 0.607941 2.3:+30013566 MS.gene77621:CDS
CAGCACCAACAATCTGCGAT+CGG 0.627380 2.3:+30013151 MS.gene77621:CDS
ATTTATTAAGAGTCTGTCTG+TGG 0.628344 2.3:-30013907 None:intergenic
GTAGGACCTAAAGGATGTTG+TGG 0.634993 2.3:-30013760 None:intergenic
GAATTAGAGAAGGCGGCTGG+AGG 0.641232 2.3:-30013277 None:intergenic
GGACCTAAAGGATGTTGTGG+TGG 0.645250 2.3:-30013757 None:intergenic
TGGATGTGTGCACTTGACCA+TGG 0.646696 2.3:-30013862 None:intergenic
TTGGTGGGCGGAATTAGAGA+AGG 0.647177 2.3:-30013287 None:intergenic
TTGCTGGTATGCGAATTGGT+GGG 0.649667 2.3:-30013302 None:intergenic
GTGGGCGGAATTAGAGAAGG+CGG 0.665564 2.3:-30013284 None:intergenic
CTGGTATGCGAATTGGTGGG+CGG 0.667066 2.3:-30013299 None:intergenic
AACATCCTTTAGGTCCTACA+GGG 0.669689 2.3:+30013764 MS.gene77621:CDS
CATGGCATGAAAGCCACAGG+AGG 0.683115 2.3:-30013844 None:intergenic
GAGATGAATTGAAAGAAGAG+GGG 0.683256 2.3:+30013668 MS.gene77621:CDS
GGTGTGCCAGAAGCCAACAT+GGG 0.687320 2.3:-30013226 None:intergenic
ACAAAAGAATGACGTAGCAG+CGG 0.689374 2.3:+30013597 MS.gene77621:CDS
ATATTGCTGCATGATCAACT+GGG 0.690297 2.3:-30013801 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATGATGTTTTTGATTTCT+TGG + chr2.3:30013630-30013649 MS.gene77621:CDS 20.0%
AAGAGATGAATTGAAAGAAG+AGG + chr2.3:30013666-30013685 MS.gene77621:CDS 30.0%
AGAGATGAATTGAAAGAAGA+GGG + chr2.3:30013667-30013686 MS.gene77621:CDS 30.0%
TAATAATATGGCATATCAGC+TGG - chr2.3:30013733-30013752 None:intergenic 30.0%
TCTTCTTTCAATTCATCTCT+TGG - chr2.3:30013667-30013686 None:intergenic 30.0%
TTTGCTCAATTTCTTGCATT+TGG - chr2.3:30013393-30013412 None:intergenic 30.0%
AAGCCTACTATTCCGATAAT+CGG + chr2.3:30013703-30013722 MS.gene77621:CDS 35.0%
AGTGAGAAGAATAGACCATT+TGG - chr2.3:30013195-30013214 None:intergenic 35.0%
ATATTGCTGCATGATCAACT+GGG - chr2.3:30013804-30013823 None:intergenic 35.0%
GAGATGAATTGAAAGAAGAG+GGG + chr2.3:30013668-30013687 MS.gene77621:CDS 35.0%
TATATTGCTGCATGATCAAC+TGG - chr2.3:30013805-30013824 None:intergenic 35.0%
! ATTTTCTTTATACGCGCAAG+AGG - chr2.3:30013442-30013461 None:intergenic 35.0%
! CATGCTTTTGCAAATACAAC+TGG - chr2.3:30013508-30013527 None:intergenic 35.0%
! TGTGGTGGGACATAATAATA+TGG - chr2.3:30013745-30013764 None:intergenic 35.0%
! TTTTCTTTATACGCGCAAGA+GGG - chr2.3:30013441-30013460 None:intergenic 35.0%
AACATCCTTTAGGTCCTACA+GGG + chr2.3:30013764-30013783 MS.gene77621:CDS 40.0%
AATCATCCGGACATCTTCAT+CGG - chr2.3:30013473-30013492 None:intergenic 40.0%
ACAAAAGAATGACGTAGCAG+CGG + chr2.3:30013597-30013616 MS.gene77621:CDS 40.0%
ATCAGCAGCTTCAAATGTTC+TGG + chr2.3:30013362-30013381 MS.gene77621:CDS 40.0%
TCAGCAGCTTCAAATGTTCT+GGG + chr2.3:30013363-30013382 MS.gene77621:CDS 40.0%
TGCAAATACAACTGGAGCTT+CGG - chr2.3:30013500-30013519 None:intergenic 40.0%
! ACATTTGAAGCTGCTGATGT+TGG - chr2.3:30013360-30013379 None:intergenic 40.0%
! TAGAGTTGACTTTGCGATCT+TGG + chr2.3:30013542-30013561 MS.gene77621:CDS 40.0%
ATCATCCCTGTAGGACCTAA+AGG - chr2.3:30013772-30013791 None:intergenic 45.0%
CAACATCCTTTAGGTCCTAC+AGG + chr2.3:30013763-30013782 MS.gene77621:CDS 45.0%
GAATTGAAAGAAGAGGGGCT+TGG + chr2.3:30013673-30013692 MS.gene77621:CDS 45.0%
GACCTAAAGGATGTTGTGGT+GGG - chr2.3:30013759-30013778 None:intergenic 45.0%
GTAGGACCTAAAGGATGTTG+TGG - chr2.3:30013763-30013782 None:intergenic 45.0%
TAGACCATTTGGCTAGTACC+TGG - chr2.3:30013184-30013203 None:intergenic 45.0%
TCCACACTGAAGAGAACAAG+AGG + chr2.3:30013566-30013585 MS.gene77621:CDS 45.0%
TCCTCTTGTTCTCTTCAGTG+TGG - chr2.3:30013570-30013589 None:intergenic 45.0%
TGAAAGCCGATGAAGATGTC+CGG + chr2.3:30013464-30013483 MS.gene77621:CDS 45.0%
TTGCTGGTATGCGAATTGGT+GGG - chr2.3:30013305-30013324 None:intergenic 45.0%
TTTCCCATGATCATCCCTGT+AGG - chr2.3:30013781-30013800 None:intergenic 45.0%
!! GCACCGATTATCGGAATAGT+AGG - chr2.3:30013709-30013728 None:intergenic 45.0%
AAGCCAACATGGGAACAGTC+TGG - chr2.3:30013219-30013238 None:intergenic 50.0%
AGGTCCTACAGGGATGATCA+TGG + chr2.3:30013774-30013793 MS.gene77621:CDS 50.0%
CAGCACCAACAATCTGCGAT+CGG + chr2.3:30013151-30013170 MS.gene77621:CDS 50.0%
CTACCAGACTGTTCCCATGT+TGG + chr2.3:30013213-30013232 MS.gene77621:CDS 50.0%
CTTGCTGGTATGCGAATTGG+TGG - chr2.3:30013306-30013325 None:intergenic 50.0%
GAAAGAAGAGGGGCTTGGAA+TGG + chr2.3:30013678-30013697 MS.gene77621:CDS 50.0%
GAGCTTCGGCTGAAATCATC+CGG - chr2.3:30013486-30013505 None:intergenic 50.0%
GGACCTAAAGGATGTTGTGG+TGG - chr2.3:30013760-30013779 None:intergenic 50.0%
GGTCCTACAGGGATGATCAT+GGG + chr2.3:30013775-30013794 MS.gene77621:CDS 50.0%
GGTGGAAATGTTGTGCTTGC+TGG - chr2.3:30013321-30013340 None:intergenic 50.0%
GTCCCACCACAACATCCTTT+AGG + chr2.3:30013754-30013773 MS.gene77621:CDS 50.0%
TGGATGTGTGCACTTGACCA+TGG - chr2.3:30013865-30013884 None:intergenic 50.0%
! GTGCTTGCTGGTATGCGAAT+TGG - chr2.3:30013309-30013328 None:intergenic 50.0%
! TTGGTGGGCGGAATTAGAGA+AGG - chr2.3:30013290-30013309 None:intergenic 50.0%
!! ACTGTTCCCATGTTGGCTTC+TGG + chr2.3:30013220-30013239 MS.gene77621:CDS 50.0%
!! GTTGGTGTTGCTGCTGTTGA+TGG - chr2.3:30013342-30013361 None:intergenic 50.0%
!! TCAGCTGGAGCACCGATTAT+CGG - chr2.3:30013718-30013737 None:intergenic 50.0%
AGGTGTGCCAGAAGCCAACA+TGG - chr2.3:30013230-30013249 None:intergenic 55.0%
ATGAAAGCCACAGGAGGTCG+AGG - chr2.3:30013841-30013860 None:intergenic 55.0%
CATGGCATGAAAGCCACAGG+AGG - chr2.3:30013847-30013866 None:intergenic 55.0%
CGACTCCGATCGCAGATTGT+TGG - chr2.3:30013159-30013178 None:intergenic 55.0%
CGCACCAGGTACTAGCCAAA+TGG + chr2.3:30013177-30013196 MS.gene77621:CDS 55.0%
CTCCTGTGGCTTTCATGCCA+TGG + chr2.3:30013845-30013864 MS.gene77621:CDS 55.0%
CTGGTATGCGAATTGGTGGG+CGG - chr2.3:30013302-30013321 None:intergenic 55.0%
GAATTAGAGAAGGCGGCTGG+AGG - chr2.3:30013280-30013299 None:intergenic 55.0%
GACCATGGCATGAAAGCCAC+AGG - chr2.3:30013850-30013869 None:intergenic 55.0%
GAGTCTGTCTGTGGCTGTTG+TGG - chr2.3:30013901-30013920 None:intergenic 55.0%
GGTGTGCCAGAAGCCAACAT+GGG - chr2.3:30013229-30013248 None:intergenic 55.0%
GTGGGCGGAATTAGAGAAGG+CGG - chr2.3:30013287-30013306 None:intergenic 55.0%
TACGCGCAAGAGGGAGAGTA+TGG - chr2.3:30013432-30013451 None:intergenic 55.0%
TCTGTCTGTGGCTGTTGTGG+TGG - chr2.3:30013898-30013917 None:intergenic 55.0%
!! GGTGTTGCTGCTGTTGATGG+TGG - chr2.3:30013339-30013358 None:intergenic 55.0%
AAGGCGGCTGGAGGTTGTGT+TGG - chr2.3:30013271-30013290 None:intergenic 60.0%
AGGCGGCTGGAGGTTGTGTT+GGG - chr2.3:30013270-30013289 None:intergenic 60.0%
GCGGAATTAGAGAAGGCGGC+TGG - chr2.3:30013283-30013302 None:intergenic 60.0%
GCTGGAGGTTGTGTTGGGGT+AGG - chr2.3:30013265-30013284 None:intergenic 60.0%
GGGGTAGGAACAGCTACAGC+AGG - chr2.3:30013250-30013269 None:intergenic 60.0%
GTTGTGGTGGCTGCTGTTGC+TGG - chr2.3:30013885-30013904 None:intergenic 60.0%
GGCGGCTGGAGGTTGTGTTG+GGG - chr2.3:30013269-30013288 None:intergenic 65.0%
TCTGCGATCGGAGTCGCACC+AGG + chr2.3:30013163-30013182 MS.gene77621:CDS 65.0%
CCACAGGAGGTCGAGGCTGC+TGG - chr2.3:30013834-30013853 None:intergenic 70.0%
CCAGCAGCCTCGACCTCCTG+TGG + chr2.3:30013831-30013850 MS.gene77621:CDS 70.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 30013127 30013924 30013127 ID=MS.gene77621
chr2.3 mRNA 30013127 30013924 30013127 ID=MS.gene77621.t1;Parent=MS.gene77621
chr2.3 exon 30013127 30013924 30013127 ID=MS.gene77621.t1.exon1;Parent=MS.gene77621.t1
chr2.3 CDS 30013127 30013924 30013127 ID=cds.MS.gene77621.t1;Parent=MS.gene77621.t1
Gene Sequence

>MS.gene77621

ATGGATAATTCGGATCAGACTCAACAGCACCAACAATCTGCGATCGGAGTCGCACCAGGTACTAGCCAAATGGTCTATTCTTCTCACTACCAGACTGTTCCCATGTTGGCTTCTGGCACACCTGCTGTAGCTGTTCCTACCCCAACACAACCTCCAGCCGCCTTCTCTAATTCCGCCCACCAATTCGCATACCAGCAAGCACAACATTTCCACCATCAACAGCAGCAACACCAACATCAGCAGCTTCAAATGTTCTGGGCAAACCAAATGCAAGAAATTGAGCAAACATTCGACTTTAAAAACCATACTCTCCCTCTTGCGCGTATAAAGAAAATAATGAAAGCCGATGAAGATGTCCGGATGATTTCAGCCGAAGCTCCAGTTGTATTTGCAAAAGCATGCGAAATGTTTATATTAGAGTTGACTTTGCGATCTTGGATCCACACTGAAGAGAACAAGAGGAGAACGCTACAAAAGAATGACGTAGCAGCGGCTATTGCAAGAAATGATGTTTTTGATTTCTTGGTTGATATCATTCCAAGAGATGAATTGAAAGAAGAGGGGCTTGGAATGGCAAAGCCTACTATTCCGATAATCGGTGCTCCAGCTGATATGCCATATTATTATGTCCCACCACAACATCCTTTAGGTCCTACAGGGATGATCATGGGAAACCCAGTTGATCATGCAGCAATATATTCTAACCAGCAGCCTCGACCTCCTGTGGCTTTCATGCCATGGTCAAGTGCACACATCCAGCAACAGCAGCCACCACAACAGCCACAGACAGACTCTTAA
Protein sequence

>MS.gene77621.t1

MDNSDQTQQHQQSAIGVAPGTSQMVYSSHYQTVPMLASGTPAVAVPTPTQPPAAFSNSAHQFAYQQAQHFHHQQQQHQHQQLQMFWANQMQEIEQTFDFKNHTLPLARIKKIMKADEDVRMISAEAPVVFAKACEMFILELTLRSWIHTEENKRRTLQKNDVAAAIARNDVFDFLVDIIPRDELKEEGLGMAKPTIPIIGAPADMPYYYVPPQHPLGPTGMIMGNPVDHAAIYSNQQPRPPVAFMPWSSAHIQQQQPPQQPQTDS