AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480021464.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021464.01.T01 MTR_4g073590 72.848 151 33 2 1 151 1 143 3.53e-70 208
MsG0480021464.01.T01 MTR_7g096890 45.270 148 63 3 8 150 11 145 5.96e-38 126
MsG0480021464.01.T01 MTR_4g073590 98.214 56 1 0 1 56 1 56 2.44e-36 121
MsG0480021464.01.T01 MTR_5g010430 41.958 143 73 3 8 150 6 138 5.07e-31 108
MsG0480021464.01.T01 MTR_1g068950 40.816 147 69 3 8 149 4 137 1.99e-30 107
MsG0480021464.01.T01 MTR_8g088210 41.958 143 75 3 8 150 4 138 2.53e-30 107
MsG0480021464.01.T01 MTR_2g028670 40.541 148 70 3 8 150 4 138 2.61e-30 107
MsG0480021464.01.T01 MTR_1g076170 41.875 160 69 4 3 151 1 147 8.65e-29 103
MsG0480021464.01.T01 MTR_8g088210 41.727 139 73 3 12 150 1 131 2.01e-28 102
MsG0480021464.01.T01 MTR_8g098470 38.462 143 78 3 8 150 4 136 3.40e-27 99.0
MsG0480021464.01.T01 MTR_1g101190 41.958 143 73 4 8 150 465 597 1.32e-24 99.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021464.01.T01 AT2G16700 63.576 151 47 2 1 151 1 143 4.31e-58 177
MsG0480021464.01.T01 AT4G34970 56.579 152 52 3 3 151 1 141 4.41e-53 165
MsG0480021464.01.T01 AT2G16700 60.714 140 47 2 12 151 1 132 6.23e-50 156
MsG0480021464.01.T01 AT2G16700 60.714 140 47 2 12 151 1 132 6.23e-50 156
MsG0480021464.01.T01 AT1G01750 42.857 147 66 3 8 149 4 137 2.21e-32 112
MsG0480021464.01.T01 AT1G01750 42.857 147 66 3 8 149 9 142 2.61e-32 112
MsG0480021464.01.T01 AT5G59880 41.060 151 65 3 8 150 4 138 1.79e-31 110
MsG0480021464.01.T01 AT2G31200 42.177 147 71 3 8 151 11 146 3.76e-31 109
MsG0480021464.01.T01 AT4G00680 40.816 147 69 3 8 149 4 137 7.17e-31 108
MsG0480021464.01.T01 AT3G46010 41.958 143 75 3 8 150 4 138 1.31e-30 107
MsG0480021464.01.T01 AT4G00680 40.816 147 69 3 8 149 14 147 1.31e-30 108
MsG0480021464.01.T01 AT3G46010 41.958 143 75 3 8 150 15 149 2.05e-30 107
MsG0480021464.01.T01 AT5G59890 39.437 142 78 2 8 149 4 137 2.80e-29 104
MsG0480021464.01.T01 AT5G52360 40.541 148 68 4 8 150 4 136 2.34e-28 102
MsG0480021464.01.T01 AT4G25590 40.397 151 64 5 8 150 4 136 3.07e-28 102
MsG0480021464.01.T01 AT2G16700 83.929 56 9 0 1 56 1 56 4.81e-28 100
MsG0480021464.01.T01 AT5G59890 39.130 138 76 2 12 149 1 130 2.61e-27 99.4
MsG0480021464.01.T01 AT5G59890 39.130 138 76 2 12 149 1 130 2.61e-27 99.4
MsG0480021464.01.T01 AT4G25590 39.583 144 67 4 12 150 1 129 2.49e-26 96.7
MsG0480021464.01.T01 AT3G46000 39.437 142 76 3 8 149 4 135 3.21e-26 96.7
MsG0480021464.01.T01 AT3G46000 39.437 142 76 3 8 149 23 154 4.21e-26 97.1
MsG0480021464.01.T01 AT3G46000 39.130 138 74 3 12 149 1 128 2.25e-24 91.7
MsG0480021464.01.T01 AT5G59880 37.584 149 60 3 8 151 4 124 2.52e-23 89.0

Find 34 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTTAGAGGGGCATCTATT+TGG 0.270226 4:-58171645 None:intergenic
GTGAATGTGAGGGATAAATT+TGG 0.291195 4:+58171466 MsG0480021464.01.T01:intron
AATGGCGATGGCTTTCAAAA+TGG 0.335809 4:+58170684 MsG0480021464.01.T01:exon
GTTGACAAGGTTGGTGGTCC+TGG 0.380021 4:+58170980 MsG0480021464.01.T01:CDS
TCTCTTATTCTTGATGCTGT+TGG 0.381519 4:-58171506 None:intergenic
GGATGGGTTAAGAAGAGCTT+TGG 0.389969 4:+58171553 MsG0480021464.01.T01:CDS
GAATCTGAACAGGCTACTAC+TGG 0.427593 4:+58170851 MsG0480021464.01.T01:intron
TCTCAGTTGGATCGGTTGCT+TGG 0.449998 4:-58171595 None:intergenic
GCATATCTACAATCATCATT+AGG 0.474554 4:-58171033 None:intergenic
TGAATGTGAGGGATAAATTT+GGG 0.478393 4:+58171467 MsG0480021464.01.T01:intron
AACAGGCTACTACTGGGATG+TGG 0.527418 4:+58170858 MsG0480021464.01.T01:intron
AGCAACCGATCCAACTGAGA+TGG 0.533493 4:+58171598 MsG0480021464.01.T01:CDS
ACTCTTTCATGGAGATGAAG+TGG 0.533958 4:+58170900 MsG0480021464.01.T01:CDS
ACATCGAATCCCATCTCAGT+TGG 0.534338 4:-58171608 None:intergenic
CATGGAGATGAAGTGGAAGA+AGG 0.543453 4:+58170907 MsG0480021464.01.T01:CDS
GCAACCGATCCAACTGAGAT+GGG 0.549755 4:+58171599 MsG0480021464.01.T01:CDS
GCAAGATCTTCTTCATTGCA+TGG 0.552818 4:+58171100 MsG0480021464.01.T01:CDS
TGAAGAAGATCTTGCTCTTG+CGG 0.553047 4:-58171092 None:intergenic
GATACTATACGCAACATCAA+AGG 0.562150 4:+58171532 MsG0480021464.01.T01:CDS
AAGATCATCATAGTTTCTCC+AGG 0.564009 4:-58170998 None:intergenic
TCATCAGATAACAATGGCGA+TGG 0.569020 4:+58170672 MsG0480021464.01.T01:exon
GGGTTAAGAAGAGCTTTGGA+TGG 0.582337 4:+58171557 MsG0480021464.01.T01:CDS
TGATGAAAGAAGAACCAAGT+TGG 0.582420 4:-58170655 None:intergenic
CTTCTTTCATCAGATAACAA+TGG 0.583354 4:+58170666 MsG0480021464.01.T01:exon
GTGACCGTTGACAAGGTTGG+TGG 0.590709 4:+58170974 MsG0480021464.01.T01:CDS
GAATCCCATCTCAGTTGGAT+CGG 0.598606 4:-58171603 None:intergenic
TGAAGTGGAAGAAGGTGCAT+AGG 0.607407 4:+58170915 MsG0480021464.01.T01:CDS
CTATACGCAACATCAAAGGA+TGG 0.610779 4:+58171536 MsG0480021464.01.T01:CDS
AAGGCTTGTGACCGTTGACA+AGG 0.611864 4:+58170967 MsG0480021464.01.T01:CDS
ACAGGCTACTACTGGGATGT+GGG 0.613046 4:+58170859 MsG0480021464.01.T01:intron
TATACGCAACATCAAAGGAT+GGG 0.626471 4:+58171537 MsG0480021464.01.T01:CDS
AATCTGAACAGGCTACTACT+GGG 0.632062 4:+58170852 MsG0480021464.01.T01:intron
AGGACCACCAACCTTGTCAA+CGG 0.633960 4:-58170978 None:intergenic
CTTGTGACCGTTGACAAGGT+TGG 0.653631 4:+58170971 MsG0480021464.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAAGTCAATTTAGTAT+AGG - Chr4:58171306-58171325 None:intergenic 15.0%
!!! CTTTTTTTTTTACTTTTACT+TGG + Chr4:58171318-58171337 MsG0480021464.01.T01:intron 15.0%
!! TTTAATCCAACAATTGAAAT+TGG + Chr4:58171194-58171213 MsG0480021464.01.T01:intron 20.0%
!! TTTGTTTATACACATGTTTA+TGG + Chr4:58170798-58170817 MsG0480021464.01.T01:intron 20.0%
!!! TAAATTTGGGTAAAATTTTC+AGG + Chr4:58171480-58171499 MsG0480021464.01.T01:CDS 20.0%
! CATATATTATGAATCTGAAC+AGG + Chr4:58170841-58170860 MsG0480021464.01.T01:intron 25.0%
! TAAATTGTACTACTAGTACT+TGG - Chr4:58171350-58171369 None:intergenic 25.0%
! TATGAGTGAGATGATTTAAA+AGG - Chr4:58170720-58170739 None:intergenic 25.0%
! TCAATTGTTGGATTAAACAA+AGG - Chr4:58171191-58171210 None:intergenic 25.0%
ACCACATCATATGGTATTAT+TGG - Chr4:58171399-58171418 None:intergenic 30.0%
CATTGAGCAAACATTGTTAT+TGG - Chr4:58171167-58171186 None:intergenic 30.0%
CCACATCATATGGTATTATT+GGG - Chr4:58171398-58171417 None:intergenic 30.0%
CTTCTTTCATCAGATAACAA+TGG + Chr4:58170666-58170685 MsG0480021464.01.T01:exon 30.0%
GAAAAAAAGTAAGACCAACT+TGG + Chr4:58170641-58170660 MsG0480021464.01.T01:five_prime_UTR 30.0%
GCATATCTACAATCATCATT+AGG - Chr4:58171036-58171055 None:intergenic 30.0%
TAGAGTCCAATTTCAATTGT+TGG - Chr4:58171203-58171222 None:intergenic 30.0%
TCAAGATCGATGAAAAAACA+AGG + Chr4:58170948-58170967 MsG0480021464.01.T01:CDS 30.0%
TGAATGTGAGGGATAAATTT+GGG + Chr4:58171467-58171486 MsG0480021464.01.T01:intron 30.0%
AAGATCATCATAGTTTCTCC+AGG - Chr4:58171001-58171020 None:intergenic 35.0%
ACGATCTAATTGTGTGTGTT+TGG + Chr4:58171242-58171261 MsG0480021464.01.T01:intron 35.0%
CCCAATAATACCATATGATG+TGG + Chr4:58171395-58171414 MsG0480021464.01.T01:intron 35.0%
GATACTATACGCAACATCAA+AGG + Chr4:58171532-58171551 MsG0480021464.01.T01:CDS 35.0%
GATATGAGTCTAATACAAGC+TGG + Chr4:58171372-58171391 MsG0480021464.01.T01:intron 35.0%
GATGATGAATGTGAATGTGA+GGG + Chr4:58171456-58171475 MsG0480021464.01.T01:intron 35.0%
GTGAATGTGAGGGATAAATT+TGG + Chr4:58171466-58171485 MsG0480021464.01.T01:intron 35.0%
TATACGCAACATCAAAGGAT+GGG + Chr4:58171537-58171556 MsG0480021464.01.T01:CDS 35.0%
TCTCTTATTCTTGATGCTGT+TGG - Chr4:58171509-58171528 None:intergenic 35.0%
TGAGTGCAAAAACTCTTTCA+TGG + Chr4:58170889-58170908 MsG0480021464.01.T01:CDS 35.0%
TGATGAAAGAAGAACCAAGT+TGG - Chr4:58170658-58170677 None:intergenic 35.0%
TGTACATTCACCACATCATA+TGG - Chr4:58171408-58171427 None:intergenic 35.0%
! TGATGATGAATGTGAATGTG+AGG + Chr4:58171455-58171474 MsG0480021464.01.T01:intron 35.0%
AATCTGAACAGGCTACTACT+GGG + Chr4:58170852-58170871 MsG0480021464.01.T01:intron 40.0%
AATGGCGATGGCTTTCAAAA+TGG + Chr4:58170684-58170703 MsG0480021464.01.T01:exon 40.0%
ACTCTTTCATGGAGATGAAG+TGG + Chr4:58170900-58170919 MsG0480021464.01.T01:CDS 40.0%
CTATACGCAACATCAAAGGA+TGG + Chr4:58171536-58171555 MsG0480021464.01.T01:CDS 40.0%
GCAAGATCTTCTTCATTGCA+TGG + Chr4:58171100-58171119 MsG0480021464.01.T01:CDS 40.0%
TCATCAGATAACAATGGCGA+TGG + Chr4:58170672-58170691 MsG0480021464.01.T01:exon 40.0%
TGAAGAAGATCTTGCTCTTG+CGG - Chr4:58171095-58171114 None:intergenic 40.0%
AATTGGACTCTACAAAGCCG+TGG + Chr4:58171211-58171230 MsG0480021464.01.T01:intron 45.0%
ACATCGAATCCCATCTCAGT+TGG - Chr4:58171611-58171630 None:intergenic 45.0%
CATGGAGATGAAGTGGAAGA+AGG + Chr4:58170907-58170926 MsG0480021464.01.T01:CDS 45.0%
GAATCCCATCTCAGTTGGAT+CGG - Chr4:58171606-58171625 None:intergenic 45.0%
GAATCTGAACAGGCTACTAC+TGG + Chr4:58170851-58170870 MsG0480021464.01.T01:intron 45.0%
! TGAAGTGGAAGAAGGTGCAT+AGG + Chr4:58170915-58170934 MsG0480021464.01.T01:CDS 45.0%
!! GGATGGGTTAAGAAGAGCTT+TGG + Chr4:58171553-58171572 MsG0480021464.01.T01:CDS 45.0%
!! GGGTTAAGAAGAGCTTTGGA+TGG + Chr4:58171557-58171576 MsG0480021464.01.T01:CDS 45.0%
!!! AATTTATGATATTTTTATAA+TGG - Chr4:58170614-58170633 None:intergenic 5.0%
AACAGGCTACTACTGGGATG+TGG + Chr4:58170858-58170877 MsG0480021464.01.T01:intron 50.0%
AAGGCTTGTGACCGTTGACA+AGG + Chr4:58170967-58170986 MsG0480021464.01.T01:CDS 50.0%
ACAGGCTACTACTGGGATGT+GGG + Chr4:58170859-58170878 MsG0480021464.01.T01:intron 50.0%
AGCAACCGATCCAACTGAGA+TGG + Chr4:58171598-58171617 MsG0480021464.01.T01:CDS 50.0%
AGGACCACCAACCTTGTCAA+CGG - Chr4:58170981-58171000 None:intergenic 50.0%
CTTGTGACCGTTGACAAGGT+TGG + Chr4:58170971-58170990 MsG0480021464.01.T01:CDS 50.0%
GCAACCGATCCAACTGAGAT+GGG + Chr4:58171599-58171618 MsG0480021464.01.T01:CDS 50.0%
TCTCAGTTGGATCGGTTGCT+TGG - Chr4:58171598-58171617 None:intergenic 50.0%
TTAGATCGTCTACAGCGCCA+CGG - Chr4:58171231-58171250 None:intergenic 50.0%
GTGACCGTTGACAAGGTTGG+TGG + Chr4:58170974-58170993 MsG0480021464.01.T01:CDS 55.0%
!! GTTGACAAGGTTGGTGGTCC+TGG + Chr4:58170980-58170999 MsG0480021464.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr4 gene 58170598 58171652 58170598 ID=MsG0480021464.01;Name=MsG0480021464.01
Chr4 mRNA 58170598 58171652 58170598 ID=MsG0480021464.01.T01;Parent=MsG0480021464.01;Name=MsG0480021464.01.T01;_AED=0.49;_eAED=0.51;_QI=87|0.5|0.66|1|0.5|0.66|3|0|151
Chr4 exon 58170598 58170705 58170598 ID=MsG0480021464.01.T01:exon:19515;Parent=MsG0480021464.01.T01
Chr4 exon 58170863 58171121 58170863 ID=MsG0480021464.01.T01:exon:19516;Parent=MsG0480021464.01.T01
Chr4 exon 58171477 58171652 58171477 ID=MsG0480021464.01.T01:exon:19517;Parent=MsG0480021464.01.T01
Chr4 five_prime_UTR 58170598 58170684 58170598 ID=MsG0480021464.01.T01:five_prime_utr;Parent=MsG0480021464.01.T01
Chr4 CDS 58170685 58170705 58170685 ID=MsG0480021464.01.T01:cds;Parent=MsG0480021464.01.T01
Chr4 CDS 58170863 58171121 58170863 ID=MsG0480021464.01.T01:cds;Parent=MsG0480021464.01.T01
Chr4 CDS 58171477 58171652 58171477 ID=MsG0480021464.01.T01:cds;Parent=MsG0480021464.01.T01
Gene Sequence

>MsG0480021464.01.T01

ATGGCGATGGCTTTCAAAATGGCTACTACTGGGATGTGGGTAACAGATGAGTGCAAAAACTCTTTCATGGAGATGAAGTGGAAGAAGGTGCATAGGTACATAGTTTTCAAGATCGATGAAAAAACAAGGCTTGTGACCGTTGACAAGGTTGGTGGTCCTGGAGAAACTATGATGATCTTGCTGCTTCTTTGCCTAATGATGATTGTAGATATGCTGTCTTTGATTTTGATTTTGTCACTGTTGACAACTGCCGCAAGAGCAAGATCTTCTTCATTGCATGGGATAAATTTGGGTAAAATTTTCAGGTCACCAACAGCATCAAGAATAAGAGAAAAGATACTATACGCAACATCAAAGGATGGGTTAAGAAGAGCTTTGGATGGAATCTCATATGAACTCCAAGCAACCGATCCAACTGAGATGGGATTCGATGTAATTCAAGACAGAGCCAAATAG

Protein sequence

>MsG0480021464.01.T01

MAMAFKMATTGMWVTDECKNSFMEMKWKKVHRYIVFKIDEKTRLVTVDKVGGPGETMMILLLLCLMMIVDMLSLILILSLLTTAARARSSSLHGINLGKIFRSPTASRIREKILYATSKDGLRRALDGISYELQATDPTEMGFDVIQDRAK*