AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007842.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007842.01.T01 MTR_2g033880 98.598 214 2 1 1 214 1 213 6.46e-151 417
MsG0280007842.01.T01 MTR_4g122500 58.937 207 77 5 1 205 1 201 7.48e-75 224
MsG0280007842.01.T01 MTR_1g084160 54.088 159 58 5 45 202 42 186 1.05e-43 145
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007842.01.T01 AT3G06590 54.913 173 59 4 43 197 46 217 4.54e-51 165
MsG0280007842.01.T01 AT3G06590 54.913 173 59 4 43 197 46 217 4.54e-51 165
MsG0280007842.01.T01 AT3G06590 54.913 173 59 4 43 197 46 217 4.54e-51 165
MsG0280007842.01.T01 AT3G06590 54.913 173 59 4 43 197 46 217 4.54e-51 165
MsG0280007842.01.T01 AT3G17100 57.143 161 57 2 41 189 46 206 1.02e-50 164
MsG0280007842.01.T01 AT3G17100 57.143 161 57 2 41 189 46 206 1.02e-50 164
MsG0280007842.01.T01 AT1G09250 45.763 177 81 5 20 186 17 188 4.04e-35 124
MsG0280007842.01.T01 AT3G05800 41.358 162 81 3 32 193 51 198 6.70e-30 110

Find 70 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCTCTTTGTTGTTGTTCT+TGG 0.145825 2:+21680423 None:intergenic
GTTGTTGTTCTTGGGCTTGC+TGG 0.207274 2:+21680432 None:intergenic
TTCTCTTTGTTGTTGTTCTT+GGG 0.288129 2:+21680424 None:intergenic
GCCGCTGCCGGCGGTGGCTC+CGG 0.302328 2:-21679915 MsG0280007842.01.T01:CDS
GCCGGAGCCACCGCCGGCAG+CGG 0.303506 2:+21679914 None:intergenic
CTGATCGATCACACAGAATA+AGG 0.304815 2:-21680481 MsG0280007842.01.T01:CDS
TCAGAGAAAAGTTAAAATTC+TGG 0.323992 2:-21680081 MsG0280007842.01.T01:CDS
TTGTAGAAAAGAACCGTTAC+CGG 0.347946 2:-21680042 MsG0280007842.01.T01:CDS
TCAGCCGCCGCTGCCGGCGG+TGG 0.374196 2:-21679921 MsG0280007842.01.T01:CDS
ATTCTGGGCCGGTTAGTTCC+CGG 0.395656 2:-21680065 MsG0280007842.01.T01:CDS
TTGTTGTTCTTGGGCTTGCT+GGG 0.415702 2:+21680433 None:intergenic
AGAAGAGTAGATTTGTTGTT+GGG 0.421940 2:+21680373 None:intergenic
GGAGCCACCGCCGGCAGCGG+CGG 0.422282 2:+21679917 None:intergenic
CAGAGAAAAGTTAAAATTCT+GGG 0.422386 2:-21680080 MsG0280007842.01.T01:CDS
AGAAGAGACATCAACAGAAC+CGG 0.424045 2:-21680178 MsG0280007842.01.T01:CDS
GAGAAAATAGCCGCGCCAAA+TGG 0.426280 2:-21680406 MsG0280007842.01.T01:CDS
ATCGATCAGTTGTTGATGTT+GGG 0.428948 2:+21680495 None:intergenic
GAGCTCTGTCAGCGGCTTCA+CGG 0.432560 2:+21680279 None:intergenic
TAGAAGAGTAGATTTGTTGT+TGG 0.434323 2:+21680372 None:intergenic
TGTTGACTCTCGCCAGAGCC+TGG 0.434529 2:+21680342 None:intergenic
ATAACTTCTTCAAGAATAAC+CGG 0.436434 2:+21680023 None:intergenic
TTGGGCTTGTGATCTCCATT+TGG 0.441641 2:+21680391 None:intergenic
GTCAACATCGGCGGCACTAC+AGG 0.442317 2:-21680326 MsG0280007842.01.T01:CDS
TTCTACAACCGGGAACTAAC+CGG 0.444536 2:+21680057 None:intergenic
TCTTCTTCAGCCGCCGCTGC+CGG 0.447675 2:-21679927 MsG0280007842.01.T01:CDS
CGGGATGCCGGAGCCACCGC+CGG 0.454166 2:+21679908 None:intergenic
ACAGAACCGGGCTGTTGGAC+CGG 0.471395 2:-21680165 MsG0280007842.01.T01:CDS
GCTCTTGCCGTCGCCGCAAA+AGG 0.473861 2:-21680260 MsG0280007842.01.T01:CDS
AAGACGTAAAACACCGAACC+GGG 0.476428 2:+21680127 None:intergenic
TTCTAAACTCCACCAGGCTC+TGG 0.479796 2:-21680354 MsG0280007842.01.T01:CDS
GATCGATCAGTTGTTGATGT+TGG 0.482481 2:+21680494 None:intergenic
CGGTGGCTCCGGCATCCCGC+CGG 0.487724 2:-21679904 MsG0280007842.01.T01:CDS
ATTATTATTAACTCGCCGGC+GGG 0.493897 2:+21679889 None:intergenic
TAAGACGTAAAACACCGAAC+CGG 0.500700 2:+21680126 None:intergenic
TTAACTCGCCGGCGGGATGC+CGG 0.501355 2:+21679896 None:intergenic
CATCAACAGAACCGGGCTGT+TGG 0.502089 2:-21680170 MsG0280007842.01.T01:CDS
GGCAGCGGCGGCTGAAGAAG+AGG 0.508139 2:+21679929 None:intergenic
CGGTCTAAGAAAGCCCGGTT+CGG 0.522688 2:-21680140 MsG0280007842.01.T01:CDS
ACCGGGCCGGTCCAACAGCC+CGG 0.523732 2:+21680159 None:intergenic
ACCGGGCTGTTGGACCGGCC+CGG 0.526477 2:-21680160 MsG0280007842.01.T01:CDS
GATGTTGGGTTTGAAATCAT+AGG 0.526495 2:+21680509 None:intergenic
CGAACCGGGCTTTCTTAGAC+CGG 0.529200 2:+21680141 None:intergenic
TCTTCAGCCGCCGCTGCCGG+CGG 0.534585 2:-21679924 MsG0280007842.01.T01:CDS
GCCCTAGCTGATTTACTCTA+CGG 0.534712 2:-21679957 MsG0280007842.01.T01:CDS
TAAATCAGCTAGGGCTGACA+TGG 0.543366 2:+21679965 None:intergenic
GAAAAGTTAAAATTCTGGGC+CGG 0.552295 2:-21680076 MsG0280007842.01.T01:CDS
CTACTCTTCTAAACTCCACC+AGG 0.553732 2:-21680360 MsG0280007842.01.T01:CDS
ACATATTATTATTAACTCGC+CGG 0.557681 2:+21679885 None:intergenic
CGGGCTTTCTTAGACCGGGC+CGG 0.563791 2:+21680146 None:intergenic
CGGCCCGGTCTAAGAAAGCC+CGG 0.564366 2:-21680145 MsG0280007842.01.T01:CDS
CACCGTAGAGTAAATCAGCT+AGG 0.565249 2:+21679955 None:intergenic
AGGAGGGCCTCGTCGAGGCA+AGG 0.566641 2:-21680306 MsG0280007842.01.T01:CDS
TCTTCAAGAATAACCGGTAA+CGG 0.570938 2:+21680029 None:intergenic
CGAACTTGCATCTCAAGAGC+TGG 0.578515 2:+21679990 None:intergenic
AACATCGGCGGCACTACAGG+AGG 0.583044 2:-21680323 MsG0280007842.01.T01:CDS
CCGCAAAAGGAAGAACAAGA+TGG 0.591003 2:-21680247 MsG0280007842.01.T01:CDS
TCTGTCAGCGGCTTCACGGA+CGG 0.593164 2:+21680283 None:intergenic
ACCGTAGAGTAAATCAGCTA+GGG 0.594354 2:+21679956 None:intergenic
GAACCGGGCTTTCTTAGACC+GGG 0.609048 2:+21680142 None:intergenic
TGACTCTCGCCAGAGCCTGG+TGG 0.618921 2:+21680345 None:intergenic
GAAGAGACATCAACAGAACC+GGG 0.630216 2:-21680177 MsG0280007842.01.T01:CDS
TATTATTATTAACTCGCCGG+CGG 0.645382 2:+21679888 None:intergenic
CTTGTGATCTCCATTTGGCG+CGG 0.657738 2:+21680396 None:intergenic
GACGGCAAGAGCTCTGTCAG+CGG 0.657747 2:+21680271 None:intergenic
ACTACAGGAGGGCCTCGTCG+AGG 0.669478 2:-21680311 MsG0280007842.01.T01:CDS
ACATCGGCGGCACTACAGGA+GGG 0.672715 2:-21680322 MsG0280007842.01.T01:CDS
CTGGCGAGAGTCAACATCGG+CGG 0.674997 2:-21680335 MsG0280007842.01.T01:CDS
CGGACGGCCTTGCCTCGACG+AGG 0.681881 2:+21680299 None:intergenic
TAAAGGAAAGACTCTACCAG+CGG 0.721324 2:-21680105 MsG0280007842.01.T01:CDS
GCTCTGGCGAGAGTCAACAT+CGG 0.751943 2:-21680338 MsG0280007842.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATAACTTCTTCAAGAATAAC+CGG + Chr2:21680394-21680413 None:intergenic 25.0%
! CAGAGAAAAGTTAAAATTCT+GGG - Chr2:21680334-21680353 MsG0280007842.01.T01:CDS 25.0%
! TCAGAGAAAAGTTAAAATTC+TGG - Chr2:21680333-21680352 MsG0280007842.01.T01:CDS 25.0%
!! AGAAGAGTAGATTTGTTGTT+GGG + Chr2:21680044-21680063 None:intergenic 30.0%
!! TAGAAGAGTAGATTTGTTGT+TGG + Chr2:21680045-21680064 None:intergenic 30.0%
!! TTCTCTTTGTTGTTGTTCTT+GGG + Chr2:21679993-21680012 None:intergenic 30.0%
!! TTTCTCTTTGTTGTTGTTCT+TGG + Chr2:21679994-21680013 None:intergenic 30.0%
!!! TCTGAGCTTGTTTTTTAGTA+TGG + Chr2:21680200-21680219 None:intergenic 30.0%
ATCGATCAGTTGTTGATGTT+GGG + Chr2:21679922-21679941 None:intergenic 35.0%
GAAAAGTTAAAATTCTGGGC+CGG - Chr2:21680338-21680357 MsG0280007842.01.T01:CDS 35.0%
TCTTCAAGAATAACCGGTAA+CGG + Chr2:21680388-21680407 None:intergenic 35.0%
TTGTAGAAAAGAACCGTTAC+CGG - Chr2:21680372-21680391 MsG0280007842.01.T01:CDS 35.0%
! GATGTTGGGTTTGAAATCAT+AGG + Chr2:21679908-21679927 None:intergenic 35.0%
! TAACGGTTCTTTTCTACAAC+CGG + Chr2:21680371-21680390 None:intergenic 35.0%
!!! TTCGGTGTTTTACGTCTTAA+AGG - Chr2:21680292-21680311 MsG0280007842.01.T01:CDS 35.0%
ACCGTAGAGTAAATCAGCTA+GGG + Chr2:21680461-21680480 None:intergenic 40.0%
AGAAGAGACATCAACAGAAC+CGG - Chr2:21680236-21680255 MsG0280007842.01.T01:CDS 40.0%
CTGATCGATCACACAGAATA+AGG - Chr2:21679933-21679952 MsG0280007842.01.T01:CDS 40.0%
GATCGATCAGTTGTTGATGT+TGG + Chr2:21679923-21679942 None:intergenic 40.0%
TAAAGGAAAGACTCTACCAG+CGG - Chr2:21680309-21680328 MsG0280007842.01.T01:CDS 40.0%
TAAGACGTAAAACACCGAAC+CGG + Chr2:21680291-21680310 None:intergenic 40.0%
! AACGGTTCTTTTCTACAACC+GGG + Chr2:21680370-21680389 None:intergenic 40.0%
! CCATCTTGTTCTTCCTTTTG+CGG + Chr2:21680170-21680189 None:intergenic 40.0%
! TTAACTTTTCTCTGAACCGC+TGG + Chr2:21680328-21680347 None:intergenic 40.0%
AAGACGTAAAACACCGAACC+GGG + Chr2:21680290-21680309 None:intergenic 45.0%
CACCGTAGAGTAAATCAGCT+AGG + Chr2:21680462-21680481 None:intergenic 45.0%
CCGCAAAAGGAAGAACAAGA+TGG - Chr2:21680167-21680186 MsG0280007842.01.T01:CDS 45.0%
CTACTCTTCTAAACTCCACC+AGG - Chr2:21680054-21680073 MsG0280007842.01.T01:CDS 45.0%
GAAGAGACATCAACAGAACC+GGG - Chr2:21680237-21680256 MsG0280007842.01.T01:CDS 45.0%
TAAATCAGCTAGGGCTGACA+TGG + Chr2:21680452-21680471 None:intergenic 45.0%
TTCTACAACCGGGAACTAAC+CGG + Chr2:21680360-21680379 None:intergenic 45.0%
TTGGGCTTGTGATCTCCATT+TGG + Chr2:21680026-21680045 None:intergenic 45.0%
! GCCCTAGCTGATTTACTCTA+CGG - Chr2:21680457-21680476 MsG0280007842.01.T01:CDS 45.0%
! TTGTTGTTCTTGGGCTTGCT+GGG + Chr2:21679984-21680003 None:intergenic 45.0%
!!! GGCTTGCTGGGTTTTTGATT+GGG + Chr2:21679972-21679991 None:intergenic 45.0%
CGAACTTGCATCTCAAGAGC+TGG + Chr2:21680427-21680446 None:intergenic 50.0%
CTTGTGATCTCCATTTGGCG+CGG + Chr2:21680021-21680040 None:intergenic 50.0%
GAGAAAATAGCCGCGCCAAA+TGG - Chr2:21680008-21680027 MsG0280007842.01.T01:CDS 50.0%
TTCTAAACTCCACCAGGCTC+TGG - Chr2:21680060-21680079 MsG0280007842.01.T01:CDS 50.0%
! GTTGTTGTTCTTGGGCTTGC+TGG + Chr2:21679985-21680004 None:intergenic 50.0%
! TGTTCTTCCTTTTGCGGCGA+CGG + Chr2:21680164-21680183 None:intergenic 50.0%
!!! GGGCTTGCTGGGTTTTTGAT+TGG + Chr2:21679973-21679992 None:intergenic 50.0%
CATCAACAGAACCGGGCTGT+TGG - Chr2:21680244-21680263 MsG0280007842.01.T01:CDS 55.0%
CGAACCGGGCTTTCTTAGAC+CGG + Chr2:21680276-21680295 None:intergenic 55.0%
CGGTCTAAGAAAGCCCGGTT+CGG - Chr2:21680274-21680293 MsG0280007842.01.T01:CDS 55.0%
GAACCGGGCTTTCTTAGACC+GGG + Chr2:21680275-21680294 None:intergenic 55.0%
GCTCTGGCGAGAGTCAACAT+CGG - Chr2:21680076-21680095 MsG0280007842.01.T01:CDS 55.0%
! ATTCTGGGCCGGTTAGTTCC+CGG - Chr2:21680349-21680368 MsG0280007842.01.T01:CDS 55.0%
AACATCGGCGGCACTACAGG+AGG - Chr2:21680091-21680110 MsG0280007842.01.T01:CDS 60.0%
ACAGAACCGGGCTGTTGGAC+CGG - Chr2:21680249-21680268 MsG0280007842.01.T01:CDS 60.0%
ACATCGGCGGCACTACAGGA+GGG - Chr2:21680092-21680111 MsG0280007842.01.T01:CDS 60.0%
CTGGCGAGAGTCAACATCGG+CGG - Chr2:21680079-21680098 MsG0280007842.01.T01:CDS 60.0%
GACGGCAAGAGCTCTGTCAG+CGG + Chr2:21680146-21680165 None:intergenic 60.0%
GAGCTCTGTCAGCGGCTTCA+CGG + Chr2:21680138-21680157 None:intergenic 60.0%
GTCAACATCGGCGGCACTAC+AGG - Chr2:21680088-21680107 MsG0280007842.01.T01:CDS 60.0%
TCTGTCAGCGGCTTCACGGA+CGG + Chr2:21680134-21680153 None:intergenic 60.0%
!! TGTTGACTCTCGCCAGAGCC+TGG + Chr2:21680075-21680094 None:intergenic 60.0%
ACTACAGGAGGGCCTCGTCG+AGG - Chr2:21680103-21680122 MsG0280007842.01.T01:CDS 65.0%
CGGCCCGGTCTAAGAAAGCC+CGG - Chr2:21680269-21680288 MsG0280007842.01.T01:CDS 65.0%
CGGGCTTTCTTAGACCGGGC+CGG + Chr2:21680271-21680290 None:intergenic 65.0%
GCTCTTGCCGTCGCCGCAAA+AGG - Chr2:21680154-21680173 MsG0280007842.01.T01:CDS 65.0%
TCTTCTTCAGCCGCCGCTGC+CGG - Chr2:21680487-21680506 MsG0280007842.01.T01:CDS 65.0%
TGACTCTCGCCAGAGCCTGG+TGG + Chr2:21680072-21680091 None:intergenic 65.0%
TTAACTCGCCGGCGGGATGC+CGG + Chr2:21680521-21680540 None:intergenic 65.0%
AGGAGGGCCTCGTCGAGGCA+AGG - Chr2:21680108-21680127 MsG0280007842.01.T01:CDS 70.0%
GGCAGCGGCGGCTGAAGAAG+AGG + Chr2:21680488-21680507 None:intergenic 70.0%
ACCGGGCCGGTCCAACAGCC+CGG + Chr2:21680258-21680277 None:intergenic 75.0%
ACCGGGCTGTTGGACCGGCC+CGG - Chr2:21680254-21680273 MsG0280007842.01.T01:CDS 75.0%
CGGACGGCCTTGCCTCGACG+AGG + Chr2:21680118-21680137 None:intergenic 75.0%
TCTTCAGCCGCCGCTGCCGG+CGG - Chr2:21680490-21680509 MsG0280007842.01.T01:CDS 75.0%
! CGGGATGCCGGAGCCACCGC+CGG + Chr2:21680509-21680528 None:intergenic 80.0%
! CGGTGGCTCCGGCATCCCGC+CGG - Chr2:21680510-21680529 MsG0280007842.01.T01:CDS 80.0%
! GCCGCTGCCGGCGGTGGCTC+CGG - Chr2:21680499-21680518 MsG0280007842.01.T01:CDS 85.0%
! GCCGGAGCCACCGCCGGCAG+CGG + Chr2:21680503-21680522 None:intergenic 85.0%
! GGAGCCACCGCCGGCAGCGG+CGG + Chr2:21680500-21680519 None:intergenic 85.0%
! TCAGCCGCCGCTGCCGGCGG+TGG - Chr2:21680493-21680512 MsG0280007842.01.T01:CDS 85.0%
Chromosome Type Strat End Strand Name
Chr2 gene 21679896 21680540 21679896 ID=MsG0280007842.01;Name=MsG0280007842.01
Chr2 mRNA 21679896 21680540 21679896 ID=MsG0280007842.01.T01;Parent=MsG0280007842.01;Name=MsG0280007842.01.T01;_AED=0.28;_eAED=0.28;_QI=0|-1|0|1|-1|1|1|0|214
Chr2 exon 21679896 21680540 21679896 ID=MsG0280007842.01.T01:exon:40160;Parent=MsG0280007842.01.T01
Chr2 CDS 21679896 21680540 21679896 ID=MsG0280007842.01.T01:cds;Parent=MsG0280007842.01.T01
Gene Sequence

>MsG0280007842.01.T01

ATGTCATCACCTATGATTTCAAACCCAACATCAACAACTGATCGATCACACAGAATAAGGAAAAAGAAGAAAGCCCAATCAAAAACCCAGCAAGCCCAAGAACAACAACAAAGAGAAAATAGCCGCGCCAAATGGAGATCACAAGCCCAACAACAAATCTACTCTTCTAAACTCCACCAGGCTCTGGCGAGAGTCAACATCGGCGGCACTACAGGAGGGCCTCGTCGAGGCAAGGCCGTCCGTGAAGCCGCTGACAGAGCTCTTGCCGTCGCCGCAAAAGGAAGAACAAGATGGAGTAGAGCCATACTAAAAAACAAGCTCAGACTAAAATTCAGAAAACAGAAGAGACATCAACAGAACCGGGCTGTTGGACCGGCCCGGTCTAAGAAAGCCCGGTTCGGTGTTTTACGTCTTAAAGGAAAGACTCTACCAGCGGTTCAGAGAAAAGTTAAAATTCTGGGCCGGTTAGTTCCCGGTTGTAGAAAAGAACCGTTACCGGTTATTCTTGAAGAAGTTATTGATTATATACCAGCTCTTGAGATGCAAGTTCGTGCCATGTCAGCCCTAGCTGATTTACTCTACGGTGCTTCCTCTTCTTCAGCCGCCGCTGCCGGCGGTGGCTCCGGCATCCCGCCGGCGAGTTAA
Protein sequence

>MsG0280007842.01.T01

MSSPMISNPTSTTDRSHRIRKKKKAQSKTQQAQEQQQRENSRAKWRSQAQQQIYSSKLHQALARVNIGGTTGGPRRGKAVREAADRALAVAAKGRTRWSRAILKNKLRLKFRKQKRHQQNRAVGPARSKKARFGVLRLKGKTLPAVQRKVKILGRLVPGCRKEPLPVILEEVIDYIPALEMQVRAMSALADLLYGASSSSAAAAGGGSGIPPAS*