AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene85076

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85076.t1 MTR_4g036615 64.463 121 32 2 78 198 1 110 7.00e-46 149
MS.gene85076.t1 MTR_3g408420 27.076 277 142 6 7 236 6 269 7.77e-20 86.3
MS.gene85076.t1 MTR_3g408380 28.462 260 152 7 6 234 5 261 4.95e-19 84.0
MS.gene85076.t1 MTR_4g100860 25.743 303 160 9 9 252 6 302 2.34e-18 82.8
MS.gene85076.t1 MTR_3g008310 28.517 263 154 8 6 234 5 267 4.95e-17 78.6
MS.gene85076.t1 MTR_0160s0030 38.835 103 38 4 174 252 237 338 4.84e-12 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85076.t1 AT1G02030 28.839 267 150 7 9 252 7 256 3.08e-21 90.1
MS.gene85076.t1 AT3G60580 29.097 299 130 10 9 252 6 277 2.68e-17 79.7
MS.gene85076.t1 AT2G45120 33.594 128 53 3 157 252 174 301 3.65e-13 68.6
MS.gene85076.t1 AT5G61470 43.836 73 29 3 174 234 225 297 7.74e-12 64.3

Find 62 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTGGATCGTTTGCGGGTT+GGG 0.196951 4.2:-67037149 None:intergenic
TTCTGTGTCTGTTGTTCTTC+AGG 0.213608 4.2:-67037045 None:intergenic
GATTGTTAGTCTCAAGCTTT+GGG 0.255553 4.2:-67036954 None:intergenic
TTGAACTCTCTGTTGCAATA+TGG 0.277005 4.2:-67037486 None:intergenic
AGTTGCTAGCCTCTTCATTT+AGG 0.305435 4.2:-67037600 None:intergenic
TGATTGTTAGTCTCAAGCTT+TGG 0.307297 4.2:-67036955 None:intergenic
ATCCAGATGTTATGATGTTA+TGG 0.316124 4.2:+67037220 MS.gene85076:CDS
ATTAAGTTTGCGGTGGCATT+TGG 0.323114 4.2:-67037166 None:intergenic
ATCATAACATCTGGATCTAT+TGG 0.340367 4.2:-67037213 None:intergenic
AGTGAGGAAGCAGTTTGATT+TGG 0.345105 4.2:-67037012 None:intergenic
CATTTGGATCGTTTGCGGGT+TGG 0.363193 4.2:-67037150 None:intergenic
GCCTCCAATGGCTTTCCAAC+TGG 0.371470 4.2:-67036896 None:intergenic
CGATCTTATCAAGCTCTTTG+TGG 0.375754 4.2:+67037405 MS.gene85076:CDS
GCACCTCTGGCACTTGAAGC+TGG 0.376849 4.2:-67037370 None:intergenic
GTGGCATTTGGATCGTTTGC+GGG 0.380859 4.2:-67037154 None:intergenic
GATCAAGAAACAAAATATAA+AGG 0.388263 4.2:+67037275 MS.gene85076:CDS
TGAACTCTCTGTTGCAATAT+GGG 0.395083 4.2:-67037485 None:intergenic
AGAAGTTGCGTTTCATAAAT+CGG 0.400917 4.2:-67037071 None:intergenic
AAGCAGTTTGATTTGGATGC+TGG 0.401835 4.2:-67037005 None:intergenic
TTTGGATCGTTTGCGGGTTG+GGG 0.405217 4.2:-67037148 None:intergenic
TAGCCTCTTCATTTAGGATC+TGG 0.419554 4.2:-67037594 None:intergenic
CCCCATAACATCATAACATC+TGG 0.429675 4.2:-67037222 None:intergenic
GATCTTATCAAGCTCTTTGT+GGG 0.431442 4.2:+67037406 MS.gene85076:CDS
GTGTCTGTTGTTCTTCAGGA+TGG 0.448149 4.2:-67037041 None:intergenic
TCCAGATGTTATGATGTTAT+GGG 0.452652 4.2:+67037221 MS.gene85076:CDS
GAAAACCCTGTGGGATTTGT+GGG 0.454964 4.2:+67036863 MS.gene85076:CDS
TTGCAATATGGGCACTGAAA+AGG 0.460303 4.2:-67037474 None:intergenic
ATTTGGATGCTGGGTTAAAT+CGG 0.461815 4.2:-67036995 None:intergenic
CCTGTGGGATTTGTGGGAAA+TGG 0.471689 4.2:+67036869 MS.gene85076:CDS
GGAAAACCCTGTGGGATTTG+TGG 0.474170 4.2:+67036862 MS.gene85076:CDS
CAGCCACCACATTAAGTTTG+CGG 0.491506 4.2:-67037176 None:intergenic
AGATCTCATGTGGCCTCCAA+TGG 0.503462 4.2:-67036908 None:intergenic
TTCGCCAGTTGGAAAGCCAT+TGG 0.506264 4.2:+67036892 MS.gene85076:CDS
GTGGGAAATGGTTCGCCAGT+TGG 0.519387 4.2:+67036881 MS.gene85076:CDS
AGCAGTTTGATTTGGATGCT+GGG 0.520346 4.2:-67037004 None:intergenic
GGTGGCATTTGGATCGTTTG+CGG 0.534803 4.2:-67037155 None:intergenic
AAAGGAAACTAACAAAATGA+AGG 0.534850 4.2:+67037293 MS.gene85076:CDS
TTCAAGACTGCTCAAGCACT+CGG 0.534991 4.2:+67037504 MS.gene85076:CDS
CCAGATGTTATGATGTTATG+GGG 0.550013 4.2:+67037222 MS.gene85076:CDS
GCCAGTTGGAAAGCCATTGG+AGG 0.552905 4.2:+67036895 MS.gene85076:CDS
CACAAAGAGCTTGATAAGAT+CGG 0.560648 4.2:-67037404 None:intergenic
GCAACAATGGAGAGGAGCAT+CGG 0.563031 4.2:+67036841 None:intergenic
CCATTTCCCACAAATCCCAC+AGG 0.574541 4.2:-67036869 None:intergenic
AGCTTCAAGTGCCAGAGGTG+CGG 0.578877 4.2:+67037372 MS.gene85076:CDS
AGGCCACATGAGATCTCACT+TGG 0.604186 4.2:+67036915 MS.gene85076:CDS
TTGTTAGTCTCAAGCTTTGG+GGG 0.604653 4.2:-67036952 None:intergenic
AAGCACTCGGTGGACACAAG+AGG 0.606213 4.2:+67037517 MS.gene85076:CDS
CATTTCCCACAAATCCCACA+GGG 0.615076 4.2:-67036868 None:intergenic
CAGATGTTATGATGTTATGG+GGG 0.618129 4.2:+67037223 MS.gene85076:CDS
ATGCCACCGCAAACTTAATG+TGG 0.625679 4.2:+67037170 MS.gene85076:CDS
ATTGTTAGTCTCAAGCTTTG+GGG 0.629340 4.2:-67036953 None:intergenic
AGCACTCGGTGGACACAAGA+GGG 0.633704 4.2:+67037518 MS.gene85076:CDS
CCACCACATTAAGTTTGCGG+TGG 0.634230 4.2:-67037173 None:intergenic
TGAATTTCGATGTGTGTCAG+TGG 0.639275 4.2:+67037560 MS.gene85076:CDS
AAGCCAGCTTCAAGTGCCAG+AGG 0.652459 4.2:+67037367 MS.gene85076:CDS
TACTGCAAAAGTGACAGCGA+TGG 0.663269 4.2:+67037438 MS.gene85076:CDS
GGAGCATCGGAAAACCCTGT+GGG 0.672394 4.2:+67036854 MS.gene85076:CDS
AAGACTGCTCAAGCACTCGG+TGG 0.680534 4.2:+67037507 MS.gene85076:CDS
TGACCAAGTGAGATCTCATG+TGG 0.681898 4.2:-67036918 None:intergenic
AGGAGCATCGGAAAACCCTG+TGG 0.684970 4.2:+67036853 MS.gene85076:CDS
CCACCGCAAACTTAATGTGG+TGG 0.693036 4.2:+67037173 MS.gene85076:CDS
TTCAGGATGGAAAGTCAGTG+AGG 0.717603 4.2:-67037028 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GATCAAGAAACAAAATATAA+AGG + chr4.2:67037275-67037294 MS.gene85076:CDS 20.0%
! AAAGGAAACTAACAAAATGA+AGG + chr4.2:67037293-67037312 MS.gene85076:CDS 25.0%
! TTACAAAGATGCACAAAAAA+GGG + chr4.2:67037248-67037267 MS.gene85076:CDS 25.0%
! TTTACAAAGATGCACAAAAA+AGG + chr4.2:67037247-67037266 MS.gene85076:CDS 25.0%
AGAAGTTGCGTTTCATAAAT+CGG - chr4.2:67037074-67037093 None:intergenic 30.0%
ATCATAACATCTGGATCTAT+TGG - chr4.2:67037216-67037235 None:intergenic 30.0%
ATCCAGATGTTATGATGTTA+TGG + chr4.2:67037220-67037239 MS.gene85076:CDS 30.0%
TCCAGATGTTATGATGTTAT+GGG + chr4.2:67037221-67037240 MS.gene85076:CDS 30.0%
ATTTGGATGCTGGGTTAAAT+CGG - chr4.2:67036998-67037017 None:intergenic 35.0%
CACAAAGAGCTTGATAAGAT+CGG - chr4.2:67037407-67037426 None:intergenic 35.0%
CAGATGTTATGATGTTATGG+GGG + chr4.2:67037223-67037242 MS.gene85076:CDS 35.0%
CCAGATGTTATGATGTTATG+GGG + chr4.2:67037222-67037241 MS.gene85076:CDS 35.0%
GATCTTATCAAGCTCTTTGT+GGG + chr4.2:67037406-67037425 MS.gene85076:CDS 35.0%
TGAACTCTCTGTTGCAATAT+GGG - chr4.2:67037488-67037507 None:intergenic 35.0%
TTGAACTCTCTGTTGCAATA+TGG - chr4.2:67037489-67037508 None:intergenic 35.0%
! ATTGTTAGTCTCAAGCTTTG+GGG - chr4.2:67036956-67036975 None:intergenic 35.0%
! GATTGTTAGTCTCAAGCTTT+GGG - chr4.2:67036957-67036976 None:intergenic 35.0%
! TGATTGTTAGTCTCAAGCTT+TGG - chr4.2:67036958-67036977 None:intergenic 35.0%
AGTGAGGAAGCAGTTTGATT+TGG - chr4.2:67037015-67037034 None:intergenic 40.0%
ATTAAGTTTGCGGTGGCATT+TGG - chr4.2:67037169-67037188 None:intergenic 40.0%
CCCCATAACATCATAACATC+TGG - chr4.2:67037225-67037244 None:intergenic 40.0%
CGATCTTATCAAGCTCTTTG+TGG + chr4.2:67037405-67037424 MS.gene85076:CDS 40.0%
TGAATTTCGATGTGTGTCAG+TGG + chr4.2:67037560-67037579 MS.gene85076:CDS 40.0%
TTCTGTGTCTGTTGTTCTTC+AGG - chr4.2:67037048-67037067 None:intergenic 40.0%
! TTGTTAGTCTCAAGCTTTGG+GGG - chr4.2:67036955-67036974 None:intergenic 40.0%
!! AAGCAGTTTGATTTGGATGC+TGG - chr4.2:67037008-67037027 None:intergenic 40.0%
!! AGCAGTTTGATTTGGATGCT+GGG - chr4.2:67037007-67037026 None:intergenic 40.0%
!! TTGCAATATGGGCACTGAAA+AGG - chr4.2:67037477-67037496 None:intergenic 40.0%
ATGCCACCGCAAACTTAATG+TGG + chr4.2:67037170-67037189 MS.gene85076:CDS 45.0%
ATTTGGATCGTTTGCGGGTT+GGG - chr4.2:67037152-67037171 None:intergenic 45.0%
CAGCCACCACATTAAGTTTG+CGG - chr4.2:67037179-67037198 None:intergenic 45.0%
CATTTCCCACAAATCCCACA+GGG - chr4.2:67036871-67036890 None:intergenic 45.0%
GAAAACCCTGTGGGATTTGT+GGG + chr4.2:67036863-67036882 MS.gene85076:CDS 45.0%
GTGTCTGTTGTTCTTCAGGA+TGG - chr4.2:67037044-67037063 None:intergenic 45.0%
TACTGCAAAAGTGACAGCGA+TGG + chr4.2:67037438-67037457 MS.gene85076:CDS 45.0%
TGACCAAGTGAGATCTCATG+TGG - chr4.2:67036921-67036940 None:intergenic 45.0%
TTCAAGACTGCTCAAGCACT+CGG + chr4.2:67037504-67037523 MS.gene85076:CDS 45.0%
TTCAGGATGGAAAGTCAGTG+AGG - chr4.2:67037031-67037050 None:intergenic 45.0%
AGATCTCATGTGGCCTCCAA+TGG - chr4.2:67036911-67036930 None:intergenic 50.0%
AGGCCACATGAGATCTCACT+TGG + chr4.2:67036915-67036934 MS.gene85076:CDS 50.0%
CATTTGGATCGTTTGCGGGT+TGG - chr4.2:67037153-67037172 None:intergenic 50.0%
CCACCACATTAAGTTTGCGG+TGG - chr4.2:67037176-67037195 None:intergenic 50.0%
CCACCGCAAACTTAATGTGG+TGG + chr4.2:67037173-67037192 MS.gene85076:CDS 50.0%
CCATTTCCCACAAATCCCAC+AGG - chr4.2:67036872-67036891 None:intergenic 50.0%
CCTGTGGGATTTGTGGGAAA+TGG + chr4.2:67036869-67036888 MS.gene85076:CDS 50.0%
GGAAAACCCTGTGGGATTTG+TGG + chr4.2:67036862-67036881 MS.gene85076:CDS 50.0%
GGTGGCATTTGGATCGTTTG+CGG - chr4.2:67037158-67037177 None:intergenic 50.0%
GTGGCATTTGGATCGTTTGC+GGG - chr4.2:67037157-67037176 None:intergenic 50.0%
TTCGCCAGTTGGAAAGCCAT+TGG + chr4.2:67036892-67036911 MS.gene85076:CDS 50.0%
! GGAACATTTTTCCGCACCTC+TGG - chr4.2:67037386-67037405 None:intergenic 50.0%
! TTTGGATCGTTTGCGGGTTG+GGG - chr4.2:67037151-67037170 None:intergenic 50.0%
!! GTCTCAAGCTTTGGGGGAAT+CGG - chr4.2:67036949-67036968 None:intergenic 50.0%
AAGACTGCTCAAGCACTCGG+TGG + chr4.2:67037507-67037526 MS.gene85076:CDS 55.0%
AAGCCAGCTTCAAGTGCCAG+AGG + chr4.2:67037367-67037386 MS.gene85076:CDS 55.0%
AGCTTCAAGTGCCAGAGGTG+CGG + chr4.2:67037372-67037391 MS.gene85076:CDS 55.0%
GCCAGTTGGAAAGCCATTGG+AGG + chr4.2:67036895-67036914 MS.gene85076:CDS 55.0%
GCCTCCAATGGCTTTCCAAC+TGG - chr4.2:67036899-67036918 None:intergenic 55.0%
GTGGGAAATGGTTCGCCAGT+TGG + chr4.2:67036881-67036900 MS.gene85076:CDS 55.0%
! AAGCACTCGGTGGACACAAG+AGG + chr4.2:67037517-67037536 MS.gene85076:CDS 55.0%
! AGCACTCGGTGGACACAAGA+GGG + chr4.2:67037518-67037537 MS.gene85076:CDS 55.0%
!! AGGAGCATCGGAAAACCCTG+TGG + chr4.2:67036853-67036872 MS.gene85076:CDS 55.0%
!! GGAGCATCGGAAAACCCTGT+GGG + chr4.2:67036854-67036873 MS.gene85076:CDS 55.0%
!!! CGTTTGCGGGTTGGGGTTTT+CGG - chr4.2:67037144-67037163 None:intergenic 55.0%
!!! GGGGTTTTCGGGTAAGACAC+AGG - chr4.2:67037132-67037151 None:intergenic 55.0%
!!! GTTTGCGGGTTGGGGTTTTC+GGG - chr4.2:67037143-67037162 None:intergenic 55.0%
GCACCTCTGGCACTTGAAGC+TGG - chr4.2:67037373-67037392 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 67036847 67037608 67036847 ID=MS.gene85076
chr4.2 mRNA 67036847 67037608 67036847 ID=MS.gene85076.t1;Parent=MS.gene85076
chr4.2 exon 67036847 67037608 67036847 ID=MS.gene85076.t1.exon1;Parent=MS.gene85076.t1
chr4.2 CDS 67036847 67037608 67036847 ID=cds.MS.gene85076.t1;Parent=MS.gene85076.t1
Gene Sequence

>MS.gene85076

ATGGAGAGGAGCATCGGAAAACCCTGTGGGATTTGTGGGAAATGGTTCGCCAGTTGGAAAGCCATTGGAGGCCACATGAGATCTCACTTGGTCATATTGCCGATTCCCCCAAAGCTTGAGACTAACAATCAAGCTCAAGATAATTCAGCCGATTTAACCCAGCATCCAAATCAAACTGCTTCCTCACTGACTTTCCATCCTGAAGAACAACAGACACAGAACTTCCGATTTATGAAACGCAACTTCTCTGCTTTCTCTGCAGACTCAAACAGAGAAAACGAACCTGTGTCTTACCCGAAAACCCCAACCCGCAAACGATCCAAATGCCACCGCAAACTTAATGTGGTGGCTGATACAAAAGATCTGCCAATAGATCCAGATGTTATGATGTTATGGGGGTTTTACAAAGATGCACAAAAAAGGGAAGAGATCAAGAAACAAAATATAAAGGAAACTAACAAAATGAAGGAAAAAGACACTGAAGACAGTAGAGATGACTCGATTATTCAAGCTCACACTCAAGCCAGCTTCAAGTGCCAGAGGTGCGGAAAAATGTTCCGATCTTATCAAGCTCTTTGTGGGCACAAAGCATACTGCAAAAGTGACAGCGATGGTGAAGATCAGAAACCTTTTCAGTGCCCATATTGCAACAGAGAGTTCAAGACTGCTCAAGCACTCGGTGGACACAAGAGGGTACACTTTTCAAGTGCTAATGAATTTCGATGTGTGTCAGTGGATCTCAATTTTCCAGATCCTAAATGA
Protein sequence

>MS.gene85076.t1

MERSIGKPCGICGKWFASWKAIGGHMRSHLVILPIPPKLETNNQAQDNSADLTQHPNQTASSLTFHPEEQQTQNFRFMKRNFSAFSADSNRENEPVSYPKTPTRKRSKCHRKLNVVADTKDLPIDPDVMMLWGFYKDAQKREEIKKQNIKETNKMKEKDTEDSRDDSIIQAHTQASFKCQRCGKMFRSYQALCGHKAYCKSDSDGEDQKPFQCPYCNREFKTAQALGGHKRVHFSSANEFRCVSVDLNFPDPK