AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene056071


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056071.t1 MTR_1g083420 97.778 90 0 1 1 88 1 90 2.16e-59 176
MS.gene056071.t1 MTR_3g072170 46.575 73 38 1 8 79 1 73 1.99e-18 73.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056071.t1 AT3G05550 83.544 79 13 0 1 79 1 79 8.00e-34 112
MS.gene056071.t1 AT5G27760 78.205 78 17 0 1 78 1 78 1.14e-31 106
MS.gene056071.t1 AT5G27760 72.222 54 15 0 1 54 1 54 6.60e-27 94.0

Find 22 sgRNAs with CRISPR-Local

Find 100 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTCCTGAGAGATTCGATT+TGG 0.327609 1.4:-67490033 None:intergenic
AAATCGAATCTCTCAGGAAA+TGG 0.335949 1.4:+67490035 MS.gene056071:CDS
AAAAGGCTGCAAGGGATTCT+AGG 0.341872 1.4:+67491784 MS.gene056071:CDS
TTGTGGCTTAGCGGTATTAC+GGG 0.371274 1.4:+67490199 MS.gene056071:CDS
TTTGTGGCTTAGCGGTATTA+CGG 0.376845 1.4:+67490198 MS.gene056071:CDS
CGGGTTCAATTGCGTACAAT+TGG 0.387745 1.4:+67490218 MS.gene056071:CDS
CTTACACTGGGAGCATTAGC+TGG 0.431990 1.4:+67491723 MS.gene056071:CDS
TTTCCTGAGAGATTCGATTT+GGG 0.436962 1.4:-67490032 None:intergenic
TGATCACAAGTCTGAAGAAA+AGG 0.467242 1.4:+67491767 MS.gene056071:CDS
TTTCTCGATTAGGTTGTTTG+TGG 0.469318 1.4:+67490182 MS.gene056071:intron
AATCGAATCTCTCAGGAAAT+GGG 0.471588 1.4:+67490036 MS.gene056071:CDS
AAACCCAAATCGAATCTCTC+AGG 0.502597 1.4:+67490029 MS.gene056071:CDS
GCATGCTCAAGCTCTTACAC+TGG 0.522809 1.4:+67491710 MS.gene056071:CDS
GTCTGAAGAAAAGGCTGCAA+GGG 0.524443 1.4:+67491776 MS.gene056071:CDS
TTAGGTTGTTTGTGGCTTAG+CGG 0.532960 1.4:+67490190 MS.gene056071:intron
GTGTTAAGATTATTCACGCC+AGG 0.537077 1.4:+67490263 MS.gene056071:CDS
AGCATTAGCTGGAGCTGCAG+TGG 0.578637 1.4:+67491734 MS.gene056071:CDS
CATGCTCAAGCTCTTACACT+GGG 0.582325 1.4:+67491711 MS.gene056071:CDS
AGTCTGAAGAAAAGGCTGCA+AGG 0.589757 1.4:+67491775 MS.gene056071:CDS
GAACACAAACTCCGTACTGT+TGG 0.612045 1.4:+67490064 MS.gene056071:CDS
ATGGAAATTTACCAACAGTA+CGG 0.620884 1.4:-67490075 None:intergenic
GGCGTGAATAATCTTAACAC+TGG 0.626108 1.4:-67490260 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTATATTATTATTATTATTT+TGG + chr1.4:67490599-67490618 MS.gene056071:intron 0.0%
!! ATCATATCATCATAAAATAA+AGG - chr1.4:67490121-67490140 None:intergenic 15.0%
!! TATATATTTACTTGAATTGA+TGG - chr1.4:67490455-67490474 None:intergenic 15.0%
!! TTTCTATACATATTATTATC+TGG + chr1.4:67490304-67490323 MS.gene056071:intron 15.0%
!!! AATGAATTTTATACAGTTTA+GGG - chr1.4:67490487-67490506 None:intergenic 15.0%
!!! ATTTTATGATGATATGATTT+AGG + chr1.4:67490123-67490142 MS.gene056071:intron 15.0%
!!! TAATGAATTTTATACAGTTT+AGG - chr1.4:67490488-67490507 None:intergenic 15.0%
!! ACAATAATAATTAACAAACC+TGG - chr1.4:67490284-67490303 None:intergenic 20.0%
!! TATCATCATAAAATAAAGGA+AGG - chr1.4:67490117-67490136 None:intergenic 20.0%
!!! AAATTCTTCTTTTTGGTAAA+CGG + chr1.4:67491069-67491088 MS.gene056071:intron 20.0%
!!! TTCAAGTTAGAATCTATTTT+GGG + chr1.4:67490894-67490913 MS.gene056071:intron 20.0%
!!! TTTAATTTGTTTTCTCGATT+AGG + chr1.4:67490172-67490191 MS.gene056071:intron 20.0%
!!! TTTTTGAGTTATTTTGTATC+AGG + chr1.4:67491685-67491704 MS.gene056071:intron 20.0%
! AATAAAAAGGATACACTTCA+AGG - chr1.4:67491332-67491351 None:intergenic 25.0%
! AGGAAATTGATTGATTGATA+TGG - chr1.4:67490097-67490116 None:intergenic 25.0%
! ATAAAAAGGATACACTTCAA+GGG - chr1.4:67491331-67491350 None:intergenic 25.0%
! ATAATCGCCATACAATTAAT+CGG - chr1.4:67491540-67491559 None:intergenic 25.0%
! TTTAGTCCTAAGATCTTAAT+AGG - chr1.4:67490522-67490541 None:intergenic 25.0%
!! AACACAATTTTTCTATGACT+TGG - chr1.4:67491134-67491153 None:intergenic 25.0%
!! ACAGATTTTCATATACTTGT+GGG + chr1.4:67490545-67490564 MS.gene056071:intron 25.0%
!! ATAAACACCGATTAATTGTA+TGG + chr1.4:67491530-67491549 MS.gene056071:intron 25.0%
!! TCAAGTGAACAATTAATTTG+AGG + chr1.4:67490829-67490848 MS.gene056071:intron 25.0%
!! TCAAGTTAGAATCTATTTTG+GGG + chr1.4:67490895-67490914 MS.gene056071:intron 25.0%
!! TCTGAGATTTGGAAATAAAA+AGG - chr1.4:67491345-67491364 None:intergenic 25.0%
!! TTTCTTTTTCTTATTGTCCT+TGG + chr1.4:67491490-67491509 MS.gene056071:intron 25.0%
!!! CTTCAAGTTAGAATCTATTT+TGG + chr1.4:67490893-67490912 MS.gene056071:intron 25.0%
!!! TTTTATTTCCAAATCTCAGA+TGG + chr1.4:67491345-67491364 MS.gene056071:intron 25.0%
AAAGTGAAAACTACAGCAAA+AGG - chr1.4:67490723-67490742 None:intergenic 30.0%
AGAAGTTCACTATTCAATTG+AGG - chr1.4:67491588-67491607 None:intergenic 30.0%
ATGGAAATTTACCAACAGTA+CGG - chr1.4:67490078-67490097 None:intergenic 30.0%
TAAAAAGGATACACTTCAAG+GGG - chr1.4:67491330-67491349 None:intergenic 30.0%
TCATGGCAAAATGAAAGTAA+GGG - chr1.4:67491297-67491316 None:intergenic 30.0%
TTCATGGCAAAATGAAAGTA+AGG - chr1.4:67491298-67491317 None:intergenic 30.0%
TTTCATATAACAAAGAGCCA+AGG - chr1.4:67491510-67491529 None:intergenic 30.0%
! CAATTGATGTTCATTTTCAC+GGG + chr1.4:67491454-67491473 MS.gene056071:intron 30.0%
! GACAGATTTTCATATACTTG+TGG + chr1.4:67490544-67490563 MS.gene056071:intron 30.0%
! GCAATTGATGTTCATTTTCA+CGG + chr1.4:67491453-67491472 MS.gene056071:intron 30.0%
! GGGTAAGAAATTCTTCTTTT+TGG + chr1.4:67491062-67491081 MS.gene056071:intron 30.0%
! TGTTTGATTATTTTCGTTGC+AGG + chr1.4:67490391-67490410 MS.gene056071:intron 30.0%
!!! TTAACACTGGTTTTCATGTT+AGG - chr1.4:67490250-67490269 None:intergenic 30.0%
AAATCGAATCTCTCAGGAAA+TGG + chr1.4:67490035-67490054 MS.gene056071:CDS 35.0%
AATCGAATCTCTCAGGAAAT+GGG + chr1.4:67490036-67490055 MS.gene056071:CDS 35.0%
AATTTCGTTGCATTGCATGA+AGG + chr1.4:67490367-67490386 MS.gene056071:intron 35.0%
ATTTCCTGAGAGATTCGATT+TGG - chr1.4:67490036-67490055 None:intergenic 35.0%
ATTTCGTTGCATTGCATGAA+GGG + chr1.4:67490368-67490387 MS.gene056071:intron 35.0%
GAAAAATTGTGTTTCGCAAC+AGG + chr1.4:67491141-67491160 MS.gene056071:intron 35.0%
GTCTCTCCTATTAAGATCTT+AGG + chr1.4:67490513-67490532 MS.gene056071:intron 35.0%
TGATCACAAGTCTGAAGAAA+AGG + chr1.4:67491767-67491786 MS.gene056071:CDS 35.0%
TTTAACGAAGCAAGTCATCA+TGG - chr1.4:67490699-67490718 None:intergenic 35.0%
TTTCCTGAGAGATTCGATTT+GGG - chr1.4:67490035-67490054 None:intergenic 35.0%
! TGTTGTTTGATTCTAGTGCA+TGG + chr1.4:67491385-67491404 MS.gene056071:intron 35.0%
! TTTCTCGATTAGGTTGTTTG+TGG + chr1.4:67490182-67490201 MS.gene056071:intron 35.0%
! TTTTGACGAGGGTTACTATA+GGG + chr1.4:67490660-67490679 MS.gene056071:intron 35.0%
!! AGATTGTGAAGTTTTGACGA+GGG + chr1.4:67490649-67490668 MS.gene056071:intron 35.0%
!! AGTTTTCACTTTTGCCTGAT+TGG + chr1.4:67490731-67490750 MS.gene056071:intron 35.0%
!!! CCTTTTTAGAGTCCTCAATT+GGG + chr1.4:67491029-67491048 MS.gene056071:intron 35.0%
!!! CTTTTTAGAGTCCTCAATTG+GGG + chr1.4:67491030-67491049 MS.gene056071:intron 35.0%
!!! TCCTTTTTAGAGTCCTCAAT+TGG + chr1.4:67491028-67491047 MS.gene056071:intron 35.0%
!!! TGCGTTGTAGAAGCTTTTTT+TGG + chr1.4:67491092-67491111 MS.gene056071:intron 35.0%
AAACCCAAATCGAATCTCTC+AGG + chr1.4:67490029-67490048 MS.gene056071:CDS 40.0%
ATGAAAGTAAGGGAGATGTG+AGG - chr1.4:67491287-67491306 None:intergenic 40.0%
CAAGGGGAAACTTGAATTCA+TGG - chr1.4:67491314-67491333 None:intergenic 40.0%
CACTATTCAATTGAGGAGAC+AGG - chr1.4:67491581-67491600 None:intergenic 40.0%
GCATGGCAAAACGAAAGTAA+GGG - chr1.4:67491244-67491263 None:intergenic 40.0%
GGCGTGAATAATCTTAACAC+TGG - chr1.4:67490263-67490282 None:intergenic 40.0%
GTGTTAAGATTATTCACGCC+AGG + chr1.4:67490263-67490282 MS.gene056071:CDS 40.0%
TCCAAATCTCAGATGGCAAT+TGG + chr1.4:67491352-67491371 MS.gene056071:intron 40.0%
TGCATGGCAAAACGAAAGTA+AGG - chr1.4:67491245-67491264 None:intergenic 40.0%
TTTGTGGCTTAGCGGTATTA+CGG + chr1.4:67490198-67490217 MS.gene056071:CDS 40.0%
! ATGTTCATTTTCACGGGTCT+TGG + chr1.4:67491460-67491479 MS.gene056071:intron 40.0%
! CAGGTTGAGCGAATAAATCA+AGG - chr1.4:67491206-67491225 None:intergenic 40.0%
! CCCAATTGAGGACTCTAAAA+AGG - chr1.4:67491032-67491051 None:intergenic 40.0%
! TCCAATTGCCATCTGAGATT+TGG - chr1.4:67491356-67491375 None:intergenic 40.0%
! TTAGGTTGTTTGTGGCTTAG+CGG + chr1.4:67490190-67490209 MS.gene056071:intron 40.0%
!! GAGATTGTGAAGTTTTGACG+AGG + chr1.4:67490648-67490667 MS.gene056071:intron 40.0%
!! GTTTTGACGAGGGTTACTAT+AGG + chr1.4:67490659-67490678 MS.gene056071:intron 40.0%
!! TCACTTTTGCCTGATTGGTT+CGG + chr1.4:67490736-67490755 MS.gene056071:intron 40.0%
AAAAGGCTGCAAGGGATTCT+AGG + chr1.4:67491784-67491803 MS.gene056071:CDS 45.0%
ACGAAAGTAAGGGAGATGCA+AGG - chr1.4:67491234-67491253 None:intergenic 45.0%
AGGGAGATGCAAGGTATAAC+AGG - chr1.4:67491225-67491244 None:intergenic 45.0%
AGTCTGAAGAAAAGGCTGCA+AGG + chr1.4:67491775-67491794 MS.gene056071:CDS 45.0%
CATGCTCAAGCTCTTACACT+GGG + chr1.4:67491711-67491730 MS.gene056071:CDS 45.0%
CGAGAGAAAACTCGAATGCA+TGG - chr1.4:67491261-67491280 None:intergenic 45.0%
CGGGTTCAATTGCGTACAAT+TGG + chr1.4:67490218-67490237 MS.gene056071:CDS 45.0%
CTCAATTGGGGTAGTTGGAA+GGG + chr1.4:67491042-67491061 MS.gene056071:intron 45.0%
GAACACAAACTCCGTACTGT+TGG + chr1.4:67490064-67490083 MS.gene056071:CDS 45.0%
GTCTGAAGAAAAGGCTGCAA+GGG + chr1.4:67491776-67491795 MS.gene056071:CDS 45.0%
TGAAACAATGCTGACGTGCT+TGG + chr1.4:67491431-67491450 MS.gene056071:intron 45.0%
TTGTGGCTTAGCGGTATTAC+GGG + chr1.4:67490199-67490218 MS.gene056071:CDS 45.0%
!! CACTTTTGCCTGATTGGTTC+GGG + chr1.4:67490737-67490756 MS.gene056071:intron 45.0%
!!! ACTTTTGCCTGATTGGTTCG+GGG + chr1.4:67490738-67490757 MS.gene056071:intron 45.0%
CCTCAATTGGGGTAGTTGGA+AGG + chr1.4:67491041-67491060 MS.gene056071:intron 50.0%
CCTTCCAACTACCCCAATTG+AGG - chr1.4:67491044-67491063 None:intergenic 50.0%
GAGTCCTCAATTGGGGTAGT+TGG + chr1.4:67491037-67491056 MS.gene056071:intron 50.0%
GCATGCTCAAGCTCTTACAC+TGG + chr1.4:67491710-67491729 MS.gene056071:CDS 50.0%
!! ATTGGTTCGGGGACGAGAAT+TGG + chr1.4:67490749-67490768 MS.gene056071:intron 50.0%
!! CTTACACTGGGAGCATTAGC+TGG + chr1.4:67491723-67491742 MS.gene056071:CDS 50.0%
!! TCGGGGACGAGAATTGGTTT+TGG + chr1.4:67490755-67490774 MS.gene056071:intron 50.0%
AGCATTAGCTGGAGCTGCAG+TGG + chr1.4:67491734-67491753 MS.gene056071:CDS 55.0%
TTCTCGTCCCCGAACCAATC+AGG - chr1.4:67490748-67490767 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 67490016 67491812 67490016 ID=MS.gene056071
chr1.4 mRNA 67490016 67491812 67490016 ID=MS.gene056071.t1;Parent=MS.gene056071
chr1.4 exon 67490016 67490085 67490016 ID=MS.gene056071.t1.exon1;Parent=MS.gene056071.t1
chr1.4 CDS 67490016 67490085 67490016 ID=cds.MS.gene056071.t1;Parent=MS.gene056071.t1
chr1.4 exon 67490194 67490284 67490194 ID=MS.gene056071.t1.exon2;Parent=MS.gene056071.t1
chr1.4 CDS 67490194 67490284 67490194 ID=cds.MS.gene056071.t1;Parent=MS.gene056071.t1
chr1.4 exon 67491707 67491812 67491707 ID=MS.gene056071.t1.exon3;Parent=MS.gene056071.t1
chr1.4 CDS 67491707 67491812 67491707 ID=cds.MS.gene056071.t1;Parent=MS.gene056071.t1
Gene Sequence

>MS.gene056071

ATGTCGGATGCTAAAACCCAAATCGAATCTCTCAGGAAATGGGTCGTCGAACACAAACTCCGTACTGTTGGTAAATTTCCATATCAATCAATCAATTTCCTTCCTTTATTTTATGATGATATGATTTAGGTCATTGTTTTTTGTTCAATAATAATGTTTAATTTGTTTTCTCGATTAGGTTGTTTGTGGCTTAGCGGTATTACGGGTTCAATTGCGTACAATTGGTCTCGTCCTAACATGAAAACCAGTGTTAAGATTATTCACGCCAGGTTTGTTAATTATTATTGTTTTCTATACATATTATTATCTGGATTTATCATTCAAAATTGTGCAATCTATATTTGATTCAGAAATTTCGTTGCATTGCATGAAGGGTGTTTGATTATTTTCGTTGCAGGAATAGTTGATTTTTATAATATAATAATAATTGAATAAACCATCAATTCAAGTAAATATATATCAAGTAATCCCTAAACTGTATAAAATTCATTAATTTAGTCTCTCCTATTAAGATCTTAGGACTAAATTGACAGATTTTCATATACTTGTGGGAACACATTGATTGTTTATTCAACTAGAATTATTATATTATTATTATTATTTTGGTGTTCTGTGTTCATCTTATAAGCAATGAGATTGTGAAGTTTTGACGAGGGTTACTATAGGGTTGATGTTTTGTTCCATGATGACTTGCTTCGTTAAATCCTTTTGCTGTAGTTTTCACTTTTGCCTGATTGGTTCGGGGACGAGAATTGGTTTTGGTTAATGAGTTGAATGTAGAGTAGTTAATGTTTCTATACGTTTAGATAAAAGTCAAGTGAACAATTAATTTGAGGTTAGAATTGCTTACTCTTCATAAAAACACTACAATTCTCAGCTTCAAGTTAGAATCTATTTTGGGGTTAGAATCACTTTCTCTTCACAAATTGTCAAACACTCAAATTTGTATCAAAATTGATTTTATGATTCAAATTACTTTTATCTTTCACAAAAGTGAATCTAAACACATTTTTCCTTTTTAGAGTCCTCAATTGGGGTAGTTGGAAGGGTAAGAAATTCTTCTTTTTGGTAAACGGTGCGTTGTAGAAGCTTTTTTTGGAATCTAAAACAAACTGCCAAGTCATAGAAAAATTGTGTTTCGCAACAGGTTACACTTTTTCTATGTCATTTCTGAGTAAACACTGTTTCCTTGATTTATTCGCTCAACCTGTTATACCTTGCATCTCCCTTACTTTCGTTTTGCCATGCATTCGAGTTTTCTCTCGATACCTCACATCTCCCTTACTTTCATTTTGCCATGAATTCAAGTTTCCCCTTGAAGTGTATCCTTTTTATTTCCAAATCTCAGATGGCAATTGGAAAAGTCAATTGTTGTTTGATTCTAGTGCATGGATTGATTGTAATTTTTATTGTTTTGAAACAATGCTGACGTGCTTGGCAATTGATGTTCATTTTCACGGGTCTTGGTTTCTGTTTTCTTTTTCTTATTGTCCTTGGCTCTTTGTTATATGAAAATAAACACCGATTAATTGTATGGCGATTATTCTGTCATCTTTTTATCTCCTGTCTCCTCAATTGAATAGTGAACTTCTGTAATTTTATTTGATATATGTTGTAATTAAAACTTCACTTTTTCTTGTGCTGAATTTTTTCTTTGAAATTGCTAATCTTTTTGAGTTATTTTGTATCAGGTTGCATGCTCAAGCTCTTACACTGGGAGCATTAGCTGGAGCTGCAGTGGTAGAATATTATGATCACAAGTCTGAAGAAAAGGCTGCAAGGGATTCTAGGCGATAA

Protein sequence

>MS.gene056071.t1

MSDAKTQIESLRKWVVEHKLRTVGCLWLSGITGSIAYNWSRPNMKTSVKIIHARLHAQALTLGALAGAAVVEYYDHKSEEKAARDSRR