AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880042689.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880042689.01.T01 MTR_8g019510 58.889 180 10 2 1 132 146 309 4.05e-61 190
MsG0880042689.01.T01 MTR_8g019510 79.612 103 5 1 30 132 197 283 4.64e-51 163
MsG0880042689.01.T01 MTR_8g019490 93.333 60 4 0 73 132 23 82 4.80e-36 119
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880042689.01.T01 AT1G72640 34.091 176 52 2 2 129 151 310 3.54e-26 100
MsG0880042689.01.T01 AT1G72640 34.091 176 52 2 2 129 152 311 4.62e-26 99.8

Find 33 sgRNAs with CRISPR-Local

Find 88 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGTATGTGTTTACGATTAC+AGG 0.243989 8:-12641931 MsG0880042689.01.T01:CDS
TAATTCACCGGTCCTGATTA+TGG 0.316455 8:+12642618 None:intergenic
TCCAGATTGGAAAGAGTGTT+TGG 0.362088 8:-12641790 MsG0880042689.01.T01:CDS
CTGGAGTTTGTCTTACAAAC+TGG 0.374654 8:-12641849 MsG0880042689.01.T01:CDS
GCCAAACACTCTTTCCAATC+TGG 0.411933 8:+12641789 None:intergenic
AGAGTGTTTGGCCACATTGA+TGG 0.413646 8:-12641778 MsG0880042689.01.T01:CDS
TGAGAGAAGTTATTTGTCTC+AGG 0.417456 8:-12642652 MsG0880042689.01.T01:intron
ATCTTCTTTGCTAATACTTC+CGG 0.425322 8:+12641896 None:intergenic
TCGTATTTGAAGTGGCCAAT+GGG 0.453319 8:-12641824 MsG0880042689.01.T01:CDS
GAATTGCTTACACCATAATC+AGG 0.482073 8:-12642630 MsG0880042689.01.T01:CDS
GGGAAAATAAAATTCCAGAT+TGG 0.508417 8:-12641803 MsG0880042689.01.T01:CDS
CTTGTTGCAAAGTCAATGAC+AGG 0.518360 8:-12643319 None:intergenic
CTCGTATTTGAAGTGGCCAA+TGG 0.523878 8:-12641825 MsG0880042689.01.T01:CDS
AATAAGATATCCGCGTCTGC+TGG 0.531520 8:-12641958 MsG0880042689.01.T01:intron
GTTCGTATGTATAAAAGCAC+TGG 0.540947 8:-12641868 MsG0880042689.01.T01:CDS
CTTATGAATGTTCATTGAAG+AGG 0.559175 8:+12641738 None:intergenic
GTAAAGCCTTGCTTCCCACC+AGG 0.563520 8:+12642586 None:intergenic
GATACACCTGGTGGGAAGCA+AGG 0.563577 8:-12642592 MsG0880042689.01.T01:CDS
CTCCTCTCAGAGCTTTCTTG+AGG 0.571425 8:+12643275 None:intergenic
AGGTGTATCTTGTAATTCAC+CGG 0.575204 8:+12642606 None:intergenic
TTACAGGGTTGTGCAGCTAC+CGG 0.577793 8:-12641915 MsG0880042689.01.T01:CDS
TGTATGTGTTTACGATTACA+GGG 0.578600 8:-12641930 MsG0880042689.01.T01:CDS
AACTGGACTCGTATTTGAAG+TGG 0.599321 8:-12641832 MsG0880042689.01.T01:CDS
GATAGACTGTACCTTGTCAA+AGG 0.604887 8:+12642564 None:intergenic
GCTTACACCATAATCAGGAC+CGG 0.626827 8:-12642625 MsG0880042689.01.T01:CDS
GCAAGGCTTTACCTTTGACA+AGG 0.631220 8:-12642575 MsG0880042689.01.T01:CDS
CGTATTTGAAGTGGCCAATG+GGG 0.647950 8:-12641823 MsG0880042689.01.T01:CDS
TTCCTCAAGAAAGCTCTGAG+AGG 0.667438 8:-12643277 MsG0880042689.01.T01:CDS
ACTTGATTTCTCCATCAATG+TGG 0.680574 8:+12641767 None:intergenic
ATACATATAACCAGCAGACG+CGG 0.694932 8:+12641948 None:intergenic
GAATTACAAGATACACCTGG+TGG 0.711342 8:-12642601 MsG0880042689.01.T01:CDS
AATTACAAGATACACCTGGT+GGG 0.712001 8:-12642600 MsG0880042689.01.T01:CDS
GGTGAATTACAAGATACACC+TGG 0.728213 8:-12642604 MsG0880042689.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGAAGTTTATTTCAACTTAT+GGG - Chr8:12642253-12642272 MsG0880042689.01.T01:intron 20.0%
!! ATAGAAACATGTATATAGAA+AGG + Chr8:12641846-12641865 None:intergenic 20.0%
!! CAGTTTCTAATATTTAACTA+CGG + Chr8:12642227-12642246 None:intergenic 20.0%
!! GATTATGAAATAAGCAAATT+AGG + Chr8:12641900-12641919 None:intergenic 20.0%
!! TAGTTAAATATTAGAAACTG+AGG - Chr8:12642227-12642246 MsG0880042689.01.T01:intron 20.0%
!! TTGAATATGAGTTTATAAAG+TGG + Chr8:12642632-12642651 None:intergenic 20.0%
! AAATAAGCAAATTAGGTTTG+TGG + Chr8:12641893-12641912 None:intergenic 25.0%
! AATATGAGTTTATAAAGTGG+TGG + Chr8:12642629-12642648 None:intergenic 25.0%
! AGACAAAGCTTAAACTTATA+AGG + Chr8:12642012-12642031 None:intergenic 25.0%
! ATATGAGTTTATAAAGTGGT+GGG + Chr8:12642628-12642647 None:intergenic 25.0%
! CAGAAGTTTATTTCAACTTA+TGG - Chr8:12642252-12642271 MsG0880042689.01.T01:intron 25.0%
! CATTTCATTAAAAGAAGTTG+TGG + Chr8:12642315-12642334 None:intergenic 25.0%
! GGATAAACACTATAAACTTA+CGG + Chr8:12642206-12642225 None:intergenic 25.0%
!!! ACGTTCTAGAAATCTAATTT+TGG + Chr8:12642698-12642717 None:intergenic 25.0%
!!! GATGTGACTTTTTTATCTAA+TGG + Chr8:12642084-12642103 None:intergenic 25.0%
!!! TTTTTATCTAATGGTGGAAA+AGG + Chr8:12642075-12642094 None:intergenic 25.0%
AACATGTATATAGAAAGGCA+TGG + Chr8:12641841-12641860 None:intergenic 30.0%
ATAGATGCGTACTGAAATTT+GGG - Chr8:12642838-12642857 MsG0880042689.01.T01:intron 30.0%
ATCTTCTTTGCTAATACTTC+CGG + Chr8:12643160-12643179 None:intergenic 30.0%
ATGTATGTGTTTACGATTAC+AGG - Chr8:12643122-12643141 MsG0880042689.01.T01:intron 30.0%
CAAATGATATCACAAGTCTA+AGG - Chr8:12642357-12642376 MsG0880042689.01.T01:intron 30.0%
CTAACCCTTCCTTATAAAAT+CGG - Chr8:12642584-12642603 MsG0880042689.01.T01:CDS 30.0%
GGGAAAATAAAATTCCAGAT+TGG - Chr8:12643250-12643269 MsG0880042689.01.T01:intron 30.0%
TATAGATGCGTACTGAAATT+TGG - Chr8:12642837-12642856 MsG0880042689.01.T01:intron 30.0%
TGGATTTCTGATATCATTGA+AGG + Chr8:12642295-12642314 None:intergenic 30.0%
TGTATGTGTTTACGATTACA+GGG - Chr8:12643123-12643142 MsG0880042689.01.T01:intron 30.0%
TTAATAATCGCGCATTAAAC+AGG - Chr8:12642938-12642957 MsG0880042689.01.T01:intron 30.0%
! GAAATCTAATTTTGGATGTG+AGG + Chr8:12642690-12642709 None:intergenic 30.0%
!! GATTTTGAGCCGATTTTATA+AGG + Chr8:12642797-12642816 None:intergenic 30.0%
!!! GTGACTTTTTTATCTAATGG+TGG + Chr8:12642081-12642100 None:intergenic 30.0%
!!! TGAAGTTTAGCTTTTTGTCA+AGG - Chr8:12641927-12641946 MsG0880042689.01.T01:CDS 30.0%
!!! TGGAATTTTATTTTCCCCAT+TGG + Chr8:12643247-12643266 None:intergenic 30.0%
AAGTCTATCCAAGATCCATT+AGG + Chr8:12642738-12642757 None:intergenic 35.0%
AATTACAAGATACACCTGGT+GGG - Chr8:12642453-12642472 MsG0880042689.01.T01:intron 35.0%
ACTTGATTTCTCCATCAATG+TGG + Chr8:12643289-12643308 None:intergenic 35.0%
AGGTGTATCTTGTAATTCAC+CGG + Chr8:12642450-12642469 None:intergenic 35.0%
CTAACCCGTCCTTATAAAAT+CGG - Chr8:12642785-12642804 MsG0880042689.01.T01:intron 35.0%
GAATTGCTTACACCATAATC+AGG - Chr8:12642423-12642442 MsG0880042689.01.T01:intron 35.0%
GAGATTTATTGATCCAGTGA+TGG - Chr8:12642126-12642145 MsG0880042689.01.T01:intron 35.0%
GGCAAGTTATACATACGTTT+GGG + Chr8:12641820-12641839 None:intergenic 35.0%
TAAACTTACGGCGAATTCTA+TGG + Chr8:12642194-12642213 None:intergenic 35.0%
TCTAACATGCACAAGCAAAA+TGG - Chr8:12642029-12642048 MsG0880042689.01.T01:intron 35.0%
TGAGAGAAGTTATTTGTCTC+AGG - Chr8:12642401-12642420 MsG0880042689.01.T01:intron 35.0%
TGGCAAGTTATACATACGTT+TGG + Chr8:12641821-12641840 None:intergenic 35.0%
TTATAAGGAAGGGTTAGACT+CGG + Chr8:12642581-12642600 None:intergenic 35.0%
! AGCTTTTTGTCAAGGCTTTA+TGG - Chr8:12641935-12641954 MsG0880042689.01.T01:CDS 35.0%
! ATCTAATTTTGGATGTGAGG+AGG + Chr8:12642687-12642706 None:intergenic 35.0%
! GTTCGTATGTATAAAAGCAC+TGG - Chr8:12643185-12643204 MsG0880042689.01.T01:intron 35.0%
! TACTGAAATTTGGGAAGCAT+GGG - Chr8:12642847-12642866 MsG0880042689.01.T01:intron 35.0%
!! TTGAGCCGATTTTATAAGGA+CGG + Chr8:12642793-12642812 None:intergenic 35.0%
AACTGGACTCGTATTTGAAG+TGG - Chr8:12643221-12643240 MsG0880042689.01.T01:intron 40.0%
ACCTTAGCTCATCTAATGTG+AGG - Chr8:12642652-12642671 MsG0880042689.01.T01:intron 40.0%
ATACATATAACCAGCAGACG+CGG + Chr8:12643108-12643127 None:intergenic 40.0%
CTGGAGTTTGTCTTACAAAC+TGG - Chr8:12643204-12643223 MsG0880042689.01.T01:intron 40.0%
GAATTACAAGATACACCTGG+TGG - Chr8:12642452-12642471 MsG0880042689.01.T01:intron 40.0%
GATAGACTGTACCTTGTCAA+AGG + Chr8:12642492-12642511 None:intergenic 40.0%
GGTGAATTACAAGATACACC+TGG - Chr8:12642449-12642468 MsG0880042689.01.T01:intron 40.0%
GTACTGAAATTTGGGAAGCA+TGG - Chr8:12642846-12642865 MsG0880042689.01.T01:intron 40.0%
TAATTCACCGGTCCTGATTA+TGG + Chr8:12642438-12642457 None:intergenic 40.0%
! TCGTATTTGAAGTGGCCAAT+GGG - Chr8:12643229-12643248 MsG0880042689.01.T01:intron 40.0%
! TCTAGAACGTAACCCAATAG+CGG - Chr8:12642708-12642727 MsG0880042689.01.T01:intron 40.0%
!! ACGAGCCGATTTTATAAGGA+AGG + Chr8:12642592-12642611 None:intergenic 40.0%
!! CCTTACGAGCCGATTTTATA+AGG + Chr8:12642596-12642615 None:intergenic 40.0%
!! CCTTATAAAATCGGCTCGTA+AGG - Chr8:12642593-12642612 MsG0880042689.01.T01:CDS 40.0%
!! CGAGCCGATTTTATAAGGAA+GGG + Chr8:12642591-12642610 None:intergenic 40.0%
!! TCCAGATTGGAAAGAGTGTT+TGG - Chr8:12643263-12643282 MsG0880042689.01.T01:CDS 40.0%
!! TGAGCCGATTTTATAAGGAC+GGG + Chr8:12642792-12642811 None:intergenic 40.0%
AATAAGATATCCGCGTCTGC+TGG - Chr8:12643095-12643114 MsG0880042689.01.T01:intron 45.0%
CTAGAACGTAACCCAATAGC+GGG - Chr8:12642709-12642728 MsG0880042689.01.T01:intron 45.0%
GCAAGGCTTTACCTTTGACA+AGG - Chr8:12642478-12642497 MsG0880042689.01.T01:intron 45.0%
GCCAAACACTCTTTCCAATC+TGG + Chr8:12643267-12643286 None:intergenic 45.0%
GCCTCACATTAGATGAGCTA+AGG + Chr8:12642656-12642675 None:intergenic 45.0%
GCTTACACCATAATCAGGAC+CGG - Chr8:12642428-12642447 MsG0880042689.01.T01:intron 45.0%
! AGAGTGTTTGGCCACATTGA+TGG - Chr8:12643275-12643294 MsG0880042689.01.T01:CDS 45.0%
! CACAAGCTAGTTTCCATCAC+TGG + Chr8:12642142-12642161 None:intergenic 45.0%
! CGTATTTGAAGTGGCCAATG+GGG - Chr8:12643230-12643249 MsG0880042689.01.T01:intron 45.0%
! CTCGTATTTGAAGTGGCCAA+TGG - Chr8:12643228-12643247 MsG0880042689.01.T01:intron 45.0%
!! TTCCTCAAGAAAGCTCTGAG+AGG - Chr8:12641776-12641795 MsG0880042689.01.T01:CDS 45.0%
CTCCTCTCAGAGCTTTCTTG+AGG + Chr8:12641781-12641800 None:intergenic 50.0%
TTACAGGGTTGTGCAGCTAC+CGG - Chr8:12643138-12643157 MsG0880042689.01.T01:intron 50.0%
!! GTGGAAAAGGCACTTGTGCA+TGG + Chr8:12642062-12642081 None:intergenic 50.0%
CCATTAGGCCACCCGCTATT+GGG + Chr8:12642723-12642742 None:intergenic 55.0%
GATACACCTGGTGGGAAGCA+AGG - Chr8:12642461-12642480 MsG0880042689.01.T01:intron 55.0%
GTAAAGCCTTGCTTCCCACC+AGG + Chr8:12642470-12642489 None:intergenic 55.0%
TCCATTAGGCCACCCGCTAT+TGG + Chr8:12642724-12642743 None:intergenic 55.0%
! GAACGTAACCCAATAGCGGG+TGG - Chr8:12642712-12642731 MsG0880042689.01.T01:intron 55.0%
! GCGGGTGGCCTAATGGATCT+TGG - Chr8:12642727-12642746 MsG0880042689.01.T01:intron 60.0%
!! CCCAATAGCGGGTGGCCTAA+TGG - Chr8:12642720-12642739 MsG0880042689.01.T01:intron 60.0%
Chromosome Type Strat End Strand Name
Chr8 gene 12641749 12643326 12641749 ID=MsG0880042689.01;Name=MsG0880042689.01
Chr8 mRNA 12641749 12643326 12641749 ID=MsG0880042689.01.T01;Parent=MsG0880042689.01;Name=MsG0880042689.01.T01;_AED=0.54;_eAED=0.55;_QI=0|0|0|1|0|0|3|0|132
Chr8 exon 12643252 12643326 12643252 ID=MsG0880042689.01.T01:exon:3674;Parent=MsG0880042689.01.T01
Chr8 exon 12642571 12642668 12642571 ID=MsG0880042689.01.T01:exon:3673;Parent=MsG0880042689.01.T01
Chr8 exon 12641749 12641974 12641749 ID=MsG0880042689.01.T01:exon:3672;Parent=MsG0880042689.01.T01
Chr8 CDS 12643252 12643326 12643252 ID=MsG0880042689.01.T01:cds;Parent=MsG0880042689.01.T01
Chr8 CDS 12642571 12642668 12642571 ID=MsG0880042689.01.T01:cds;Parent=MsG0880042689.01.T01
Chr8 CDS 12641749 12641974 12641749 ID=MsG0880042689.01.T01:cds;Parent=MsG0880042689.01.T01
Gene Sequence

>MsG0880042689.01.T01

ATGACAGGAGATACAAGCGACAATCGATTCCTCAAGAAAGCTCTGAGAGGAGTTCGCACAATTATATGCCCAAACAAGTTATTTGTCTCAGGAATTGCTTACACCATAATCAGGACCGGTGAATTACAAGATACACCTGGTGGGAAGCAAGGCTTTACCTTTGACAAGGTACAATATCCGCGTCTGCTGGTTATATGTATGTGTTTACGATTACAGGGTTGTGCAGCTACCGGAAGTATTAGCAAAGAAGATGTCGCGTTCGTATGTATAAAAGCACTGGAGTTTGTCTTACAAACTGGACTCGTATTTGAAGTGGCCAATGGGGAAAATAAAATTCCAGATTGGAAAGAGTGTTTGGCCACATTGATGGAGAAATCAAGTCAGCAACCTCTTCAATGA

Protein sequence

>MsG0880042689.01.T01

MTGDTSDNRFLKKALRGVRTIICPNKLFVSGIAYTIIRTGELQDTPGGKQGFTFDKVQYPRLLVICMCLRLQGCAATGSISKEDVAFVCIKALEFVLQTGLVFEVANGENKIPDWKECLATLMEKSSQQPLQ*