AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017812.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017812.01.T01 MTR_3g112420 98.299 294 4 1 1 293 1 294 0.0 584
MsG0380017812.01.T01 MTR_3g037230 30.556 216 133 5 61 260 204 418 1.65e-18 85.5
MsG0380017812.01.T01 MTR_3g037230 30.556 216 133 5 61 260 251 465 2.29e-18 85.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017812.01.T01 AT1G75460 82.222 225 36 3 64 286 56 278 1.59e-122 352
MsG0380017812.01.T01 AT1G19740 73.123 253 61 4 37 284 26 276 9.73e-114 329
MsG0380017812.01.T01 AT1G18660 30.233 215 135 5 61 260 257 471 2.09e-20 91.3
MsG0380017812.01.T01 AT1G18660 30.233 215 135 5 61 260 257 471 2.09e-20 91.3
MsG0380017812.01.T01 AT1G18660 30.233 215 135 5 61 260 257 471 2.09e-20 91.3
MsG0380017812.01.T01 AT1G18660 30.047 213 134 5 61 258 257 469 5.09e-19 87.4

Find 75 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAACAAGCTTTGCTGGAAT+TGG 0.287787 3:+100890467 MsG0380017812.01.T01:CDS
CTACCTCTGGTTCTCTTTCC+CGG 0.298646 3:+100889985 MsG0380017812.01.T01:CDS
CCCTTTGTTCCCTCTACCTC+TGG 0.342814 3:+100889972 MsG0380017812.01.T01:CDS
ATCTACAACGACGCCGTTAC+CGG 0.361966 3:+100890093 MsG0380017812.01.T01:CDS
GAATGGATAAGCTGTGGAAT+TGG 0.380189 3:-100889745 None:intergenic
TAGAGAGCAACAAGCTTTGC+TGG 0.387344 3:+100890461 MsG0380017812.01.T01:CDS
GGAAAGAGAACCAGAGGTAG+AGG 0.403920 3:-100889982 None:intergenic
TTCTGTTACATCGTCGGAGT+TGG 0.409875 3:-100889947 None:intergenic
AATGGATAAGCTGTGGAATT+GGG 0.420732 3:-100889744 None:intergenic
ATTCGGTTATCGAATCGATT+AGG 0.434648 3:+100890345 MsG0380017812.01.T01:CDS
AGCAAAGCTTGTTGCTCTCT+AGG 0.438130 3:-100890459 None:intergenic
CTGGAGAGGGAGGATTGCTC+CGG 0.459586 3:-100890004 None:intergenic
GAGTTAGCGTGGTGCTTCTC+CGG 0.461263 3:-100889922 None:intergenic
TTGCTGGAATTGGAAGATAC+TGG 0.465086 3:+100890477 MsG0380017812.01.T01:CDS
TCTGTTACATCGTCGGAGTT+GGG 0.466042 3:-100889946 None:intergenic
GGAAAAGCAGAGAAAGAAGT+TGG 0.471044 3:+100890369 MsG0380017812.01.T01:CDS
CGCCGAATCTGAGATCGGTT+TGG 0.472867 3:-100890068 None:intergenic
ATTTAACAAAGGTGAATTTG+AGG 0.472885 3:-100889767 None:intergenic
ACGATTCCGCATCACGAAAG+TGG 0.474726 3:+100890203 MsG0380017812.01.T01:CDS
CGTATATGAAAGACGTGATT+CGG 0.475568 3:+100890328 MsG0380017812.01.T01:CDS
TAACTCCCTTCTCCGATGTT+CGG 0.477101 3:+100889888 MsG0380017812.01.T01:CDS
TCTGCTGACGTGGATGTTGA+CGG 0.485829 3:+100890285 MsG0380017812.01.T01:CDS
ACCAGAGGTAGAGGGAACAA+AGG 0.502855 3:-100889973 None:intergenic
AAGAAGTTGGTGATTTGAGA+AGG 0.506570 3:+100890382 MsG0380017812.01.T01:CDS
CTCCAAACCGATCTCAGATT+CGG 0.513016 3:+100890066 MsG0380017812.01.T01:CDS
CGATTCTTCTTGATCTGCAA+AGG 0.513629 3:+100890174 MsG0380017812.01.T01:CDS
TGACGTGGATGTTGACGGTT+TGG 0.523603 3:+100890290 MsG0380017812.01.T01:CDS
ACAAAGGTGAATTTGAGGAA+TGG 0.524563 3:-100889762 None:intergenic
CCAGAGGTAGAGGGAACAAA+GGG 0.525038 3:-100889972 None:intergenic
AAGACGCCGAACATCGGAGA+AGG 0.526361 3:-100889894 None:intergenic
GGTAGCGAAACTCGAAGATC+TGG 0.526389 3:-100890023 None:intergenic
GCCACACGAGCGACGAGATA+AGG 0.527547 3:-100890237 None:intergenic
ACCTTCACCTTCTGCTGACG+TGG 0.537960 3:+100890275 MsG0380017812.01.T01:CDS
ATCTCGTCGCTCGTGTGGCG+TGG 0.545377 3:+100890241 MsG0380017812.01.T01:CDS
CGAAACTCGAAGATCTGGAG+AGG 0.546555 3:-100890018 None:intergenic
CGAATCTGAGATCGGTTTGG+AGG 0.550475 3:-100890065 None:intergenic
CATCATGATGATGGTGATGA+AGG 0.550733 3:-100890597 None:intergenic
TGCAAGATTGATGAGGGAAA+AGG 0.552398 3:+100890500 MsG0380017812.01.T01:CDS
AGAACATTCAGATGCGGCGG+CGG 0.552805 3:-100889841 None:intergenic
TGGAGAGGGAGGATTGCTCC+GGG 0.558531 3:-100890003 None:intergenic
TTATCTGAAGTCGGTTGCGT+CGG 0.560429 3:+100890117 MsG0380017812.01.T01:CDS
TTCAGATGCGGCGGCGGAGT+AGG 0.564966 3:-100889835 None:intergenic
GAAAGAGAACCAGAGGTAGA+GGG 0.565057 3:-100889981 None:intergenic
GCAACCGACTTCAGATAATC+CGG 0.567100 3:-100890112 None:intergenic
TGCGAACCACTTTCGTGATG+CGG 0.567359 3:-100890209 None:intergenic
GAAAAGAAGACGCCGAACAT+CGG 0.578682 3:-100889900 None:intergenic
GATGAAGGAGAAGATGAAGA+TGG 0.583790 3:-100890582 None:intergenic
GAATCCATACATCATGATGA+TGG 0.586174 3:-100890606 None:intergenic
ACCTTATCTCGTCGCTCGTG+TGG 0.587657 3:+100890236 MsG0380017812.01.T01:CDS
TAGAGTTACGGCGGCGAGAG+TGG 0.592773 3:-100889867 None:intergenic
AGTGGAGTGAGATTTAACAA+AGG 0.593394 3:-100889778 None:intergenic
AGACGCCGAACATCGGAGAA+GGG 0.600938 3:-100889893 None:intergenic
AGTTACGGCGGCGAGAGTGG+TGG 0.605508 3:-100889864 None:intergenic
GGAGAAGGGAGTTAGAGTTA+CGG 0.606713 3:-100889879 None:intergenic
TACTGGTGCAAGATTGATGA+GGG 0.609439 3:+100890494 MsG0380017812.01.T01:CDS
ACTCGAAGATCTGGAGAGGG+AGG 0.612614 3:-100890014 None:intergenic
CGGTTATCGAATCGATTAGG+TGG 0.619832 3:+100890348 MsG0380017812.01.T01:CDS
AGGGAGTTCTGTTACATCGT+CGG 0.622473 3:-100889953 None:intergenic
CGGCGGCGGAGTAGGTGTTG+AGG 0.626773 3:-100889827 None:intergenic
TCCACGTCAGCAGAAGGTGA+AGG 0.630346 3:-100890276 None:intergenic
TCAACATCCACGTCAGCAGA+AGG 0.631046 3:-100890282 None:intergenic
GATGACGCCGAATCTGAGAT+CGG 0.634713 3:-100890073 None:intergenic
GAAACTCGAAGATCTGGAGA+GGG 0.638580 3:-100890017 None:intergenic
TGACGGTTTGGCGAACGAGG+TGG 0.639770 3:+100890302 MsG0380017812.01.T01:CDS
GACTTCAGATAATCCGGTAA+CGG 0.642423 3:-100890106 None:intergenic
TGTTGACGGTTTGGCGAACG+AGG 0.649491 3:+100890299 MsG0380017812.01.T01:CDS
TGGAGAACATTCAGATGCGG+CGG 0.651359 3:-100889844 None:intergenic
GTTACCGGATTATCTGAAGT+CGG 0.652627 3:+100890108 MsG0380017812.01.T01:CDS
TTTGAGGAATGGATAAGCTG+TGG 0.652982 3:-100889751 None:intergenic
CGGAGTTGGGAGAGTTAGCG+TGG 0.657208 3:-100889933 None:intergenic
TGGTGGAGAACATTCAGATG+CGG 0.673867 3:-100889847 None:intergenic
GCTCCGGGAAAGAGAACCAG+AGG 0.685811 3:-100889988 None:intergenic
ATACTGGTGCAAGATTGATG+AGG 0.686122 3:+100890493 MsG0380017812.01.T01:CDS
GGAGCGTGTGCATCATGACG+CGG 0.716824 3:-100890044 None:intergenic
GAAGGGAGTTAGAGTTACGG+CGG 0.725021 3:-100889876 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATTTAACAAAGGTGAATTTG+AGG - Chr3:100889770-100889789 None:intergenic 25.0%
!! TTGAGGATTGAAAGATTTTA+GGG - Chr3:100889813-100889832 None:intergenic 25.0%
!!! TTGAAAGATTTTAGGGTTTA+AGG - Chr3:100889806-100889825 None:intergenic 25.0%
CTTCCAACAAAAAACGAAAA+CGG - Chr3:100890423-100890442 None:intergenic 30.0%
! GTTGAGGATTGAAAGATTTT+AGG - Chr3:100889814-100889833 None:intergenic 30.0%
AATGGATAAGCTGTGGAATT+GGG - Chr3:100889747-100889766 None:intergenic 35.0%
ACAAAGGTGAATTTGAGGAA+TGG - Chr3:100889765-100889784 None:intergenic 35.0%
AGTGGAGTGAGATTTAACAA+AGG - Chr3:100889781-100889800 None:intergenic 35.0%
ATTCGGTTATCGAATCGATT+AGG + Chr3:100890345-100890364 MsG0380017812.01.T01:CDS 35.0%
CGTATATGAAAGACGTGATT+CGG + Chr3:100890328-100890347 MsG0380017812.01.T01:CDS 35.0%
!! AAGAAGTTGGTGATTTGAGA+AGG + Chr3:100890382-100890401 MsG0380017812.01.T01:CDS 35.0%
!!! ATTTTAGGGTTTAAGGAGAG+TGG - Chr3:100889799-100889818 None:intergenic 35.0%
!!! TTTGTTGGAAGCACTTTTGA+AGG + Chr3:100890432-100890451 MsG0380017812.01.T01:CDS 35.0%
ACAAAAAACGAAAACGGCGT+TGG - Chr3:100890417-100890436 None:intergenic 40.0%
ATACTGGTGCAAGATTGATG+AGG + Chr3:100890493-100890512 MsG0380017812.01.T01:CDS 40.0%
CAAAAAACGAAAACGGCGTT+GGG - Chr3:100890416-100890435 None:intergenic 40.0%
CGATTCTTCTTGATCTGCAA+AGG + Chr3:100890174-100890193 MsG0380017812.01.T01:CDS 40.0%
GAATGGATAAGCTGTGGAAT+TGG - Chr3:100889748-100889767 None:intergenic 40.0%
GACTTCAGATAATCCGGTAA+CGG - Chr3:100890109-100890128 None:intergenic 40.0%
GATGAAGGAGAAGATGAAGA+TGG - Chr3:100890585-100890604 None:intergenic 40.0%
GGAAAAGCAGAGAAAGAAGT+TGG + Chr3:100890369-100890388 MsG0380017812.01.T01:CDS 40.0%
TACTGGTGCAAGATTGATGA+GGG + Chr3:100890494-100890513 MsG0380017812.01.T01:CDS 40.0%
TGCAAGATTGATGAGGGAAA+AGG + Chr3:100890500-100890519 MsG0380017812.01.T01:CDS 40.0%
TTGCTGGAATTGGAAGATAC+TGG + Chr3:100890477-100890496 MsG0380017812.01.T01:CDS 40.0%
TTTGAGGAATGGATAAGCTG+TGG - Chr3:100889754-100889773 None:intergenic 40.0%
! GTTACCGGATTATCTGAAGT+CGG + Chr3:100890108-100890127 MsG0380017812.01.T01:CDS 40.0%
!!! ACGCCGTTTTCGTTTTTTGT+TGG + Chr3:100890417-100890436 MsG0380017812.01.T01:CDS 40.0%
AGGGAGTTCTGTTACATCGT+CGG - Chr3:100889956-100889975 None:intergenic 45.0%
CGGTTATCGAATCGATTAGG+TGG + Chr3:100890348-100890367 MsG0380017812.01.T01:CDS 45.0%
CTCCAAACCGATCTCAGATT+CGG + Chr3:100890066-100890085 MsG0380017812.01.T01:CDS 45.0%
GAAAAGAAGACGCCGAACAT+CGG - Chr3:100889903-100889922 None:intergenic 45.0%
GAAACTCGAAGATCTGGAGA+GGG - Chr3:100890020-100890039 None:intergenic 45.0%
GAAAGAGAACCAGAGGTAGA+GGG - Chr3:100889984-100890003 None:intergenic 45.0%
GCAACAAGCTTTGCTGGAAT+TGG + Chr3:100890467-100890486 MsG0380017812.01.T01:CDS 45.0%
GGAGAAGGGAGTTAGAGTTA+CGG - Chr3:100889882-100889901 None:intergenic 45.0%
TAACTCCCTTCTCCGATGTT+CGG + Chr3:100889888-100889907 MsG0380017812.01.T01:CDS 45.0%
TAGAGAGCAACAAGCTTTGC+TGG + Chr3:100890461-100890480 MsG0380017812.01.T01:CDS 45.0%
TCTGTTACATCGTCGGAGTT+GGG - Chr3:100889949-100889968 None:intergenic 45.0%
TGGTGGAGAACATTCAGATG+CGG - Chr3:100889850-100889869 None:intergenic 45.0%
TTCTGTTACATCGTCGGAGT+TGG - Chr3:100889950-100889969 None:intergenic 45.0%
! ATGTTCGGCGTCTTCTTTTC+CGG + Chr3:100889903-100889922 MsG0380017812.01.T01:CDS 45.0%
! GCAACCGACTTCAGATAATC+CGG - Chr3:100890115-100890134 None:intergenic 45.0%
! TTATCTGAAGTCGGTTGCGT+CGG + Chr3:100890117-100890136 MsG0380017812.01.T01:CDS 45.0%
!! AGCAAAGCTTGTTGCTCTCT+AGG - Chr3:100890462-100890481 None:intergenic 45.0%
ACCAGAGGTAGAGGGAACAA+AGG - Chr3:100889976-100889995 None:intergenic 50.0%
ACGATTCCGCATCACGAAAG+TGG + Chr3:100890203-100890222 MsG0380017812.01.T01:CDS 50.0%
ATCTACAACGACGCCGTTAC+CGG + Chr3:100890093-100890112 MsG0380017812.01.T01:CDS 50.0%
CCAGAGGTAGAGGGAACAAA+GGG - Chr3:100889975-100889994 None:intergenic 50.0%
CGAAACTCGAAGATCTGGAG+AGG - Chr3:100890021-100890040 None:intergenic 50.0%
GAAGGGAGTTAGAGTTACGG+CGG - Chr3:100889879-100889898 None:intergenic 50.0%
GGAAAGAGAACCAGAGGTAG+AGG - Chr3:100889985-100890004 None:intergenic 50.0%
GGTAGCGAAACTCGAAGATC+TGG - Chr3:100890026-100890045 None:intergenic 50.0%
TCAACATCCACGTCAGCAGA+AGG - Chr3:100890285-100890304 None:intergenic 50.0%
TCTGCTGACGTGGATGTTGA+CGG + Chr3:100890285-100890304 MsG0380017812.01.T01:CDS 50.0%
TGACGTGGATGTTGACGGTT+TGG + Chr3:100890290-100890309 MsG0380017812.01.T01:CDS 50.0%
TGCGAACCACTTTCGTGATG+CGG - Chr3:100890212-100890231 None:intergenic 50.0%
TGGAGAACATTCAGATGCGG+CGG - Chr3:100889847-100889866 None:intergenic 50.0%
! GATGACGCCGAATCTGAGAT+CGG - Chr3:100890076-100890095 None:intergenic 50.0%
!! CGAATCTGAGATCGGTTTGG+AGG - Chr3:100890068-100890087 None:intergenic 50.0%
!! CTACCTCTGGTTCTCTTTCC+CGG + Chr3:100889985-100890004 MsG0380017812.01.T01:CDS 50.0%
AAGACGCCGAACATCGGAGA+AGG - Chr3:100889897-100889916 None:intergenic 55.0%
ACCTTATCTCGTCGCTCGTG+TGG + Chr3:100890236-100890255 MsG0380017812.01.T01:CDS 55.0%
ACCTTCACCTTCTGCTGACG+TGG + Chr3:100890275-100890294 MsG0380017812.01.T01:CDS 55.0%
ACTCGAAGATCTGGAGAGGG+AGG - Chr3:100890017-100890036 None:intergenic 55.0%
AGAACATTCAGATGCGGCGG+CGG - Chr3:100889844-100889863 None:intergenic 55.0%
AGACGCCGAACATCGGAGAA+GGG - Chr3:100889896-100889915 None:intergenic 55.0%
CCCTTTGTTCCCTCTACCTC+TGG + Chr3:100889972-100889991 MsG0380017812.01.T01:CDS 55.0%
GAGTTAGCGTGGTGCTTCTC+CGG - Chr3:100889925-100889944 None:intergenic 55.0%
TCCACGTCAGCAGAAGGTGA+AGG - Chr3:100890279-100890298 None:intergenic 55.0%
! CGCCGAATCTGAGATCGGTT+TGG - Chr3:100890071-100890090 None:intergenic 55.0%
! TGTTGACGGTTTGGCGAACG+AGG + Chr3:100890299-100890318 MsG0380017812.01.T01:CDS 55.0%
CGGAGTTGGGAGAGTTAGCG+TGG - Chr3:100889936-100889955 None:intergenic 60.0%
CTGGAGAGGGAGGATTGCTC+CGG - Chr3:100890007-100890026 None:intergenic 60.0%
GCCACACGAGCGACGAGATA+AGG - Chr3:100890240-100890259 None:intergenic 60.0%
GCTCCGGGAAAGAGAACCAG+AGG - Chr3:100889991-100890010 None:intergenic 60.0%
GGAGCGTGTGCATCATGACG+CGG - Chr3:100890047-100890066 None:intergenic 60.0%
TAGAGTTACGGCGGCGAGAG+TGG - Chr3:100889870-100889889 None:intergenic 60.0%
TGGAGAGGGAGGATTGCTCC+GGG - Chr3:100890006-100890025 None:intergenic 60.0%
! TGACGGTTTGGCGAACGAGG+TGG + Chr3:100890302-100890321 MsG0380017812.01.T01:CDS 60.0%
AGTTACGGCGGCGAGAGTGG+TGG - Chr3:100889867-100889886 None:intergenic 65.0%
ATCTCGTCGCTCGTGTGGCG+TGG + Chr3:100890241-100890260 MsG0380017812.01.T01:CDS 65.0%
TTCAGATGCGGCGGCGGAGT+AGG - Chr3:100889838-100889857 None:intergenic 65.0%
! CGGCGGCGGAGTAGGTGTTG+AGG - Chr3:100889830-100889849 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr3 gene 100889736 100890617 100889736 ID=MsG0380017812.01;Name=MsG0380017812.01
Chr3 mRNA 100889736 100890617 100889736 ID=MsG0380017812.01.T01;Parent=MsG0380017812.01;Name=MsG0380017812.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|293
Chr3 exon 100889736 100890617 100889736 ID=MsG0380017812.01.T01:exon:25051;Parent=MsG0380017812.01.T01
Chr3 CDS 100889736 100890617 100889736 ID=MsG0380017812.01.T01:cds;Parent=MsG0380017812.01.T01
Gene Sequence

>MsG0380017812.01.T01

ATGGCATTCCCAATTCCACAGCTTATCCATTCCTCAAATTCACCTTTGTTAAATCTCACTCCACTCTCCTTAAACCCTAAAATCTTTCAATCCTCAACACCTACTCCGCCGCCGCATCTGAATGTTCTCCACCACTCTCGCCGCCGTAACTCTAACTCCCTTCTCCGATGTTCGGCGTCTTCTTTTCCGGAGAAGCACCACGCTAACTCTCCCAACTCCGACGATGTAACAGAACTCCCTTTGTTCCCTCTACCTCTGGTTCTCTTTCCCGGAGCAATCCTCCCTCTCCAGATCTTCGAGTTTCGCTACCGCGTCATGATGCACACGCTCCTCCAAACCGATCTCAGATTCGGCGTCATCTACAACGACGCCGTTACCGGATTATCTGAAGTCGGTTGCGTCGGAGAAGTAATCAAACACGAAAGACTCGTCGATGATCGATTCTTCTTGATCTGCAAAGGTCAAGAACGATTCCGCATCACGAAAGTGGTTCGCACGAAACCTTATCTCGTCGCTCGTGTGGCGTGGCTTGAAGATAGACCTTCACCTTCTGCTGACGTGGATGTTGACGGTTTGGCGAACGAGGTGGAGACGTATATGAAAGACGTGATTCGGTTATCGAATCGATTAGGTGGAAAAGCAGAGAAAGAAGTTGGTGATTTGAGAAGGAACTTATTCCCAACGCCGTTTTCGTTTTTTGTTGGAAGCACTTTTGAAGGTGCGCCTAGAGAGCAACAAGCTTTGCTGGAATTGGAAGATACTGGTGCAAGATTGATGAGGGAAAAGGAAACTTTGAAGAATACGCTTAATTATCTATCTGCTGCTTCTGCTGTTAAAGATGTTTTTCCATCTTCATCTTCTCCTTCATCACCATCATCATGA

Protein sequence

>MsG0380017812.01.T01

MAFPIPQLIHSSNSPLLNLTPLSLNPKIFQSSTPTPPPHLNVLHHSRRRNSNSLLRCSASSFPEKHHANSPNSDDVTELPLFPLPLVLFPGAILPLQIFEFRYRVMMHTLLQTDLRFGVIYNDAVTGLSEVGCVGEVIKHERLVDDRFFLICKGQERFRITKVVRTKPYLVARVAWLEDRPSPSADVDVDGLANEVETYMKDVIRLSNRLGGKAEKEVGDLRRNLFPTPFSFFVGSTFEGAPREQQALLELEDTGARLMREKETLKNTLNYLSAASAVKDVFPSSSSPSSPSS*