AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280009550.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280009550.01.T01 MTR_7g113680 56.226 265 94 8 5 260 53 304 2.82e-80 244
MsG0280009550.01.T01 MTR_1g082660 59.657 233 76 10 5 226 2 227 6.67e-74 226
MsG0280009550.01.T01 MTR_3g099180 67.361 144 37 3 84 226 36 170 7.84e-62 194
MsG0280009550.01.T01 MTR_3g099180 67.361 144 37 3 84 226 36 170 9.55e-62 194
MsG0280009550.01.T01 MTR_2g023340 55.034 149 52 3 85 224 67 209 3.98e-52 170
MsG0280009550.01.T01 MTR_2g081630 60.241 83 32 1 102 183 21 103 2.23e-30 110
MsG0280009550.01.T01 MTR_2g081600 60.241 83 32 1 102 183 21 103 2.60e-30 110
MsG0280009550.01.T01 MTR_3g012030 41.026 78 46 0 104 181 9 86 3.98e-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
MsG0280009550.01.T01 AT1G56170 86.154 130 14 2 82 210 55 181 2.61e-78 235
MsG0280009550.01.T01 AT1G56170 86.154 130 14 2 82 210 55 181 2.61e-78 235
MsG0280009550.01.T01 AT1G08970 71.528 144 38 3 85 226 62 204 5.98e-69 213
MsG0280009550.01.T01 AT1G08970 71.528 144 38 3 85 226 62 204 5.98e-69 213
MsG0280009550.01.T01 AT1G08970 71.528 144 38 3 85 226 62 204 5.98e-69 213
MsG0280009550.01.T01 AT1G08970 71.528 144 38 3 85 226 62 204 5.98e-69 213
MsG0280009550.01.T01 AT5G63470 57.635 203 67 5 41 234 20 212 1.10e-68 213
MsG0280009550.01.T01 AT5G63470 57.635 203 67 5 41 234 20 212 1.10e-68 213
MsG0280009550.01.T01 AT1G54830 69.388 147 33 3 85 226 52 191 4.15e-68 210
MsG0280009550.01.T01 AT1G54830 69.388 147 33 3 85 226 52 191 4.15e-68 210
MsG0280009550.01.T01 AT1G54830 69.388 147 33 3 85 226 52 191 4.15e-68 210
MsG0280009550.01.T01 AT3G48590 65.060 166 52 3 71 233 33 195 1.43e-67 209
MsG0280009550.01.T01 AT5G50480 47.879 165 70 4 81 243 35 185 3.31e-47 156
MsG0280009550.01.T01 AT5G27910 41.667 180 85 6 79 256 15 176 7.81e-40 137
MsG0280009550.01.T01 AT5G50490 39.429 175 93 4 72 244 8 171 1.02e-35 126
MsG0280009550.01.T01 AT5G50470 48.148 108 47 2 81 182 44 148 2.83e-30 113
MsG0280009550.01.T01 AT5G38140 45.000 100 51 2 82 180 48 144 2.14e-26 102

Find 71 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGTGGTGGCTGCTGTTGC+TGG 0.226796 2:+54181533 None:intergenic
TAGAGTTGACTTTGCGATCT+TGG 0.263614 2:-54181873 MsG0280009550.01.T01:CDS
ACTGTTCCCATGTTGGCTTC+TGG 0.263791 2:-54182195 MsG0280009550.01.T01:CDS
TTTGCTCAATTTCTTGCATT+TGG 0.264134 2:+54182025 None:intergenic
TCTTCTTTCAATTCATCTCT+TGG 0.282962 2:+54181751 None:intergenic
GTGCTTGCTGGTATGCAAAT+TGG 0.301348 2:+54182109 None:intergenic
TATATTGCTGCATGATCAAC+TGG 0.341302 2:+54181613 None:intergenic
ATCAGCAGCTTCAAATGTTC+TGG 0.343397 2:-54182053 MsG0280009550.01.T01:CDS
TGCAAATACAACTGGAGCTT+CGG 0.352437 2:+54181918 None:intergenic
GTTGGTGTTGCTGCTGTTGA+TGG 0.352589 2:+54182076 None:intergenic
TACGCGCAAGAGGGAGAGTA+TGG 0.358081 2:+54181986 None:intergenic
TTAACTTGTCATGGATAATT+CGG 0.369534 2:-54182298 None:intergenic
GGTGGAAATGTTGTGCTTGC+TGG 0.393054 2:+54182097 None:intergenic
GTCCCACCACAACATCCTTT+AGG 0.406073 2:-54181661 MsG0280009550.01.T01:CDS
TCAGCTGGAGCACCGATTAT+CGG 0.426072 2:+54181700 None:intergenic
GCTGGAGGCTGTGTTGGAGT+GGG 0.426690 2:+54182153 None:intergenic
GGCTGGAGGCTGTGTTGGAG+TGG 0.428307 2:+54182152 None:intergenic
CAACATCCTTTAGGTCCTAC+AGG 0.429195 2:-54181652 MsG0280009550.01.T01:CDS
AAGCCTACTATTCCGATAAT+CGG 0.435007 2:-54181712 MsG0280009550.01.T01:CDS
AGTGAGAAGAATAGACCATT+TGG 0.446634 2:+54182223 None:intergenic
TGTGGTGGGACATAATAATA+TGG 0.447642 2:+54181673 None:intergenic
CCACAGGAGGTCGAGGCTGC+TGG 0.460527 2:+54181584 None:intergenic
TCAGCAGCTTCAAATGTTCT+GGG 0.497192 2:-54182052 MsG0280009550.01.T01:CDS
CTCCTGTGGCTTTCATGCCA+TGG 0.498225 2:-54181570 MsG0280009550.01.T01:CDS
CGCACCAGGTACTAGCCAAA+TGG 0.499512 2:-54182238 MsG0280009550.01.T01:CDS
GCACCGATTATCGGAATAGT+AGG 0.501513 2:+54181709 None:intergenic
ATCATCCCTGTAGGACCTAA+AGG 0.501857 2:+54181646 None:intergenic
GCGGAATTAGCGAAGGTGGC+TGG 0.502140 2:+54182135 None:intergenic
GAGTCTGTCTGTGGCTGTTG+TGG 0.506073 2:+54181517 None:intergenic
GAGCTTCGGCTGAAATCATC+CGG 0.506392 2:+54181932 None:intergenic
TAATAATATGGCATATCAGC+TGG 0.509819 2:+54181685 None:intergenic
AGGTCCTACAGGGATGATCA+TGG 0.513342 2:-54181641 MsG0280009550.01.T01:CDS
ATGAAAGCCACAGGAGGTCG+AGG 0.520693 2:+54181577 None:intergenic
AAGGTGGCTGGAGGCTGTGT+TGG 0.525022 2:+54182147 None:intergenic
AGAGATGAATTGAAAGAAGA+GGG 0.526767 2:-54181748 MsG0280009550.01.T01:CDS
CTACCAGACTGTTCCCATGT+TGG 0.533936 2:-54182202 MsG0280009550.01.T01:CDS
TCCTCTTGTTCTCTTCAGTG+TGG 0.538251 2:+54181848 None:intergenic
TCTGTCTGTGGCTGTTGTGG+TGG 0.546304 2:+54181520 None:intergenic
AAGCCAACATGGGAACAGTC+TGG 0.547744 2:+54182199 None:intergenic
TGAAAGCCGATGAAGATGTC+CGG 0.548255 2:-54181951 MsG0280009550.01.T01:CDS
GAATTGAAAGAAGAGGGGCT+TGG 0.553111 2:-54181742 MsG0280009550.01.T01:CDS
GGTGTTGCTGCTGTTGATGG+TGG 0.572770 2:+54182079 None:intergenic
AATCATCCGGACATCTTCAT+CGG 0.573019 2:+54181945 None:intergenic
AAGAGATGAATTGAAAGAAG+AGG 0.576346 2:-54181749 MsG0280009550.01.T01:CDS
TAGACCATTTGGCTAGTACC+TGG 0.582406 2:+54182234 None:intergenic
TCTGCGATCGGAGTCGCACC+AGG 0.583461 2:-54182252 MsG0280009550.01.T01:CDS
AGGTGTGCCAGAAGCCAACA+TGG 0.583596 2:+54182188 None:intergenic
GACCATGGCATGAAAGCCAC+AGG 0.584151 2:+54181568 None:intergenic
GGAGTGGGAACAGCTATAGC+AGG 0.584801 2:+54182168 None:intergenic
GAAAGAAGAGGGGCTTGGAA+TGG 0.586004 2:-54181737 MsG0280009550.01.T01:CDS
GACCTAAAGGATGTTGTGGT+GGG 0.590318 2:+54181659 None:intergenic
CCAGCAGCCTCGACCTCCTG+TGG 0.590845 2:-54181584 MsG0280009550.01.T01:CDS
GGTCCTACAGGGATGATCAT+GGG 0.598225 2:-54181640 MsG0280009550.01.T01:CDS
TTTCCCATGATCATCCCTGT+AGG 0.601110 2:+54181637 None:intergenic
ACATTTGAAGCTGCTGATGT+TGG 0.603398 2:+54182058 None:intergenic
TCCACACTGAAGAGAACAAG+AGG 0.607941 2:-54181849 MsG0280009550.01.T01:CDS
CATCAGCAACAATCTGCGAT+CGG 0.623433 2:-54182264 MsG0280009550.01.T01:CDS
ATTTATTAAGAGTCTGTCTG+TGG 0.628344 2:+54181508 None:intergenic
GTGTGCGGAATTAGCGAAGG+TGG 0.632190 2:+54182131 None:intergenic
GTAGGACCTAAAGGATGTTG+TGG 0.634993 2:+54181655 None:intergenic
GAATTAGCGAAGGTGGCTGG+AGG 0.640092 2:+54182138 None:intergenic
GGACCTAAAGGATGTTGTGG+TGG 0.645250 2:+54181658 None:intergenic
TGGATGTGTGCACTTGACCA+TGG 0.646696 2:+54181553 None:intergenic
TTGGTGTGCGGAATTAGCGA+AGG 0.665812 2:+54182128 None:intergenic
AACATCCTTTAGGTCCTACA+GGG 0.669689 2:-54181651 MsG0280009550.01.T01:CDS
CATGGCATGAAAGCCACAGG+AGG 0.683115 2:+54181571 None:intergenic
GAGATGAATTGAAAGAAGAG+GGG 0.683256 2:-54181747 MsG0280009550.01.T01:CDS
GGTGTGCCAGAAGCCAACAT+GGG 0.687320 2:+54182189 None:intergenic
ACAAAAGAATGACGTAGCAG+CGG 0.689374 2:-54181818 MsG0280009550.01.T01:CDS
ATATTGCTGCATGATCAACT+GGG 0.690297 2:+54181614 None:intergenic
CTGGTATGCAAATTGGTGTG+CGG 0.691899 2:+54182116 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATGATGTTTTTGATTTCT+TGG - Chr2:54182016-54182035 MsG0280009550.01.T01:CDS 20.0%
AAGAGATGAATTGAAAGAAG+AGG - Chr2:54182052-54182071 MsG0280009550.01.T01:CDS 30.0%
AGAGATGAATTGAAAGAAGA+GGG - Chr2:54182053-54182072 MsG0280009550.01.T01:CDS 30.0%
TAATAATATGGCATATCAGC+TGG + Chr2:54182119-54182138 None:intergenic 30.0%
TCTTCTTTCAATTCATCTCT+TGG + Chr2:54182053-54182072 None:intergenic 30.0%
TTTGCTCAATTTCTTGCATT+TGG + Chr2:54181779-54181798 None:intergenic 30.0%
AAGCCTACTATTCCGATAAT+CGG - Chr2:54182089-54182108 MsG0280009550.01.T01:CDS 35.0%
AGTGAGAAGAATAGACCATT+TGG + Chr2:54181581-54181600 None:intergenic 35.0%
ATATTGCTGCATGATCAACT+GGG + Chr2:54182190-54182209 None:intergenic 35.0%
GAGATGAATTGAAAGAAGAG+GGG - Chr2:54182054-54182073 MsG0280009550.01.T01:CDS 35.0%
TATATTGCTGCATGATCAAC+TGG + Chr2:54182191-54182210 None:intergenic 35.0%
! ATTTTCTTTATACGCGCAAG+AGG + Chr2:54181828-54181847 None:intergenic 35.0%
! CATGCTTTTGCAAATACAAC+TGG + Chr2:54181894-54181913 None:intergenic 35.0%
! TGTGGTGGGACATAATAATA+TGG + Chr2:54182131-54182150 None:intergenic 35.0%
! TTTTCTTTATACGCGCAAGA+GGG + Chr2:54181827-54181846 None:intergenic 35.0%
AACATCCTTTAGGTCCTACA+GGG - Chr2:54182150-54182169 MsG0280009550.01.T01:CDS 40.0%
AATCATCCGGACATCTTCAT+CGG + Chr2:54181859-54181878 None:intergenic 40.0%
ACAAAAGAATGACGTAGCAG+CGG - Chr2:54181983-54182002 MsG0280009550.01.T01:CDS 40.0%
ATCAGCAGCTTCAAATGTTC+TGG - Chr2:54181748-54181767 MsG0280009550.01.T01:CDS 40.0%
TCAGCAGCTTCAAATGTTCT+GGG - Chr2:54181749-54181768 MsG0280009550.01.T01:CDS 40.0%
TGCAAATACAACTGGAGCTT+CGG + Chr2:54181886-54181905 None:intergenic 40.0%
! ACATTTGAAGCTGCTGATGT+TGG + Chr2:54181746-54181765 None:intergenic 40.0%
! TAGAGTTGACTTTGCGATCT+TGG - Chr2:54181928-54181947 MsG0280009550.01.T01:CDS 40.0%
ATCATCCCTGTAGGACCTAA+AGG + Chr2:54182158-54182177 None:intergenic 45.0%
CAACATCCTTTAGGTCCTAC+AGG - Chr2:54182149-54182168 MsG0280009550.01.T01:CDS 45.0%
CATCAGCAACAATCTGCGAT+CGG - Chr2:54181537-54181556 MsG0280009550.01.T01:CDS 45.0%
CTGGTATGCAAATTGGTGTG+CGG + Chr2:54181688-54181707 None:intergenic 45.0%
GAATTGAAAGAAGAGGGGCT+TGG - Chr2:54182059-54182078 MsG0280009550.01.T01:CDS 45.0%
GACCTAAAGGATGTTGTGGT+GGG + Chr2:54182145-54182164 None:intergenic 45.0%
GTAGGACCTAAAGGATGTTG+TGG + Chr2:54182149-54182168 None:intergenic 45.0%
TAGACCATTTGGCTAGTACC+TGG + Chr2:54181570-54181589 None:intergenic 45.0%
TCCACACTGAAGAGAACAAG+AGG - Chr2:54181952-54181971 MsG0280009550.01.T01:CDS 45.0%
TCCTCTTGTTCTCTTCAGTG+TGG + Chr2:54181956-54181975 None:intergenic 45.0%
TGAAAGCCGATGAAGATGTC+CGG - Chr2:54181850-54181869 MsG0280009550.01.T01:CDS 45.0%
TTTCCCATGATCATCCCTGT+AGG + Chr2:54182167-54182186 None:intergenic 45.0%
! GTGCTTGCTGGTATGCAAAT+TGG + Chr2:54181695-54181714 None:intergenic 45.0%
!! GCACCGATTATCGGAATAGT+AGG + Chr2:54182095-54182114 None:intergenic 45.0%
AAGCCAACATGGGAACAGTC+TGG + Chr2:54181605-54181624 None:intergenic 50.0%
AGGTCCTACAGGGATGATCA+TGG - Chr2:54182160-54182179 MsG0280009550.01.T01:CDS 50.0%
CTACCAGACTGTTCCCATGT+TGG - Chr2:54181599-54181618 MsG0280009550.01.T01:CDS 50.0%
GAAAGAAGAGGGGCTTGGAA+TGG - Chr2:54182064-54182083 MsG0280009550.01.T01:CDS 50.0%
GAGCTTCGGCTGAAATCATC+CGG + Chr2:54181872-54181891 None:intergenic 50.0%
GGACCTAAAGGATGTTGTGG+TGG + Chr2:54182146-54182165 None:intergenic 50.0%
GGTCCTACAGGGATGATCAT+GGG - Chr2:54182161-54182180 MsG0280009550.01.T01:CDS 50.0%
GGTGGAAATGTTGTGCTTGC+TGG + Chr2:54181707-54181726 None:intergenic 50.0%
GTCCCACCACAACATCCTTT+AGG - Chr2:54182140-54182159 MsG0280009550.01.T01:CDS 50.0%
TGGATGTGTGCACTTGACCA+TGG + Chr2:54182251-54182270 None:intergenic 50.0%
TTGGTGTGCGGAATTAGCGA+AGG + Chr2:54181676-54181695 None:intergenic 50.0%
!! ACTGTTCCCATGTTGGCTTC+TGG - Chr2:54181606-54181625 MsG0280009550.01.T01:CDS 50.0%
!! GTTGGTGTTGCTGCTGTTGA+TGG + Chr2:54181728-54181747 None:intergenic 50.0%
!! TCAGCTGGAGCACCGATTAT+CGG + Chr2:54182104-54182123 None:intergenic 50.0%
AGGTGTGCCAGAAGCCAACA+TGG + Chr2:54181616-54181635 None:intergenic 55.0%
ATGAAAGCCACAGGAGGTCG+AGG + Chr2:54182227-54182246 None:intergenic 55.0%
CATGGCATGAAAGCCACAGG+AGG + Chr2:54182233-54182252 None:intergenic 55.0%
CGCACCAGGTACTAGCCAAA+TGG - Chr2:54181563-54181582 MsG0280009550.01.T01:CDS 55.0%
CTCCTGTGGCTTTCATGCCA+TGG - Chr2:54182231-54182250 MsG0280009550.01.T01:CDS 55.0%
GAATTAGCGAAGGTGGCTGG+AGG + Chr2:54181666-54181685 None:intergenic 55.0%
GACCATGGCATGAAAGCCAC+AGG + Chr2:54182236-54182255 None:intergenic 55.0%
GAGTCTGTCTGTGGCTGTTG+TGG + Chr2:54182287-54182306 None:intergenic 55.0%
GGAGTGGGAACAGCTATAGC+AGG + Chr2:54181636-54181655 None:intergenic 55.0%
GGTGTGCCAGAAGCCAACAT+GGG + Chr2:54181615-54181634 None:intergenic 55.0%
GTGTGCGGAATTAGCGAAGG+TGG + Chr2:54181673-54181692 None:intergenic 55.0%
TACGCGCAAGAGGGAGAGTA+TGG + Chr2:54181818-54181837 None:intergenic 55.0%
TCTGTCTGTGGCTGTTGTGG+TGG + Chr2:54182284-54182303 None:intergenic 55.0%
!! GGTGTTGCTGCTGTTGATGG+TGG + Chr2:54181725-54181744 None:intergenic 55.0%
AAGGTGGCTGGAGGCTGTGT+TGG + Chr2:54181657-54181676 None:intergenic 60.0%
GCGGAATTAGCGAAGGTGGC+TGG + Chr2:54181669-54181688 None:intergenic 60.0%
GCTGGAGGCTGTGTTGGAGT+GGG + Chr2:54181651-54181670 None:intergenic 60.0%
GTTGTGGTGGCTGCTGTTGC+TGG + Chr2:54182271-54182290 None:intergenic 60.0%
GGCTGGAGGCTGTGTTGGAG+TGG + Chr2:54181652-54181671 None:intergenic 65.0%
TCTGCGATCGGAGTCGCACC+AGG - Chr2:54181549-54181568 MsG0280009550.01.T01:CDS 65.0%
CCACAGGAGGTCGAGGCTGC+TGG + Chr2:54182220-54182239 None:intergenic 70.0%
CCAGCAGCCTCGACCTCCTG+TGG - Chr2:54182217-54182236 MsG0280009550.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr2 gene 54181513 54182310 54181513 ID=MsG0280009550.01;Name=MsG0280009550.01
Chr2 mRNA 54181513 54182310 54181513 ID=MsG0280009550.01.T01;Parent=MsG0280009550.01;Name=MsG0280009550.01.T01;_AED=0.39;_eAED=0.39;_QI=0|-1|0|1|-1|1|1|0|265
Chr2 exon 54181513 54182310 54181513 ID=MsG0280009550.01.T01:exon:20742;Parent=MsG0280009550.01.T01
Chr2 CDS 54181513 54182310 54181513 ID=MsG0280009550.01.T01:cds;Parent=MsG0280009550.01.T01
Gene Sequence

>MsG0280009550.01.T01

ATGGATAATTCGGATCAGATTCAACATCAGCAACAATCTGCGATCGGAGTCGCACCAGGTACTAGCCAAATGGTCTATTCTTCTCACTACCAGACTGTTCCCATGTTGGCTTCTGGCACACCTGCTATAGCTGTTCCCACTCCAACACAGCCTCCAGCCACCTTCGCTAATTCCGCACACCAATTTGCATACCAGCAAGCACAACATTTCCACCATCAACAGCAGCAACACCAACATCAGCAGCTTCAAATGTTCTGGGCAAACCAAATGCAAGAAATTGAGCAAACATTCGACTTTAAAAACCATACTCTCCCTCTTGCGCGTATAAAGAAAATAATGAAAGCCGATGAAGATGTCCGGATGATTTCAGCCGAAGCTCCAGTTGTATTTGCAAAAGCATGCGAAATGTTTATATTAGAGTTGACTTTGCGATCTTGGATCCACACTGAAGAGAACAAGAGGAGAACGCTACAAAAGAATGACGTAGCAGCGGCTATTGCAAGAAATGATGTTTTTGATTTCTTGGTTGATATCATTCCAAGAGATGAATTGAAAGAAGAGGGGCTTGGAATGGCAAAGCCTACTATTCCGATAATCGGTGCTCCAGCTGATATGCCATATTATTATGTCCCACCACAACATCCTTTAGGTCCTACAGGGATGATCATGGGAAACCCAGTTGATCATGCAGCAATATATTCTAACCAGCAGCCTCGACCTCCTGTGGCTTTCATGCCATGGTCAAGTGCACACATCCAGCAACAGCAGCCACCACAACAGCCACAGACAGACTCTTAA
Protein sequence

>MsG0280009550.01.T01

MDNSDQIQHQQQSAIGVAPGTSQMVYSSHYQTVPMLASGTPAIAVPTPTQPPATFANSAHQFAYQQAQHFHHQQQQHQHQQLQMFWANQMQEIEQTFDFKNHTLPLARIKKIMKADEDVRMISAEAPVVFAKACEMFILELTLRSWIHTEENKRRTLQKNDVAAAIARNDVFDFLVDIIPRDELKEEGLGMAKPTIPIIGAPADMPYYYVPPQHPLGPTGMIMGNPVDHAAIYSNQQPRPPVAFMPWSSAHIQQQQPPQQPQTDS*