AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene43407


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene43407.t1 MTR_4g133770 95.876 194 5 1 1 194 1 191 1.50e-131 367
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene43407.t1 AT4G16410 63.478 115 40 2 80 193 71 184 6.83e-44 144

Find 39 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAGAGGGGTTGGAGGAATT+TGG 0.164087 8.4:+1036497 None:intergenic
ATTCTCATCATTGCTATTCT+TGG 0.233178 8.4:-1036050 MS.gene43407:CDS
CACTTCTGGAAGAAGAGTTT+TGG 0.247345 8.4:-1036178 MS.gene43407:CDS
GAGCAAAAGGCATTGGCTTT+TGG 0.251573 8.4:-1036212 MS.gene43407:CDS
ATGATGAGAATTGCAGTAAT+TGG 0.254419 8.4:+1036062 None:intergenic
TGGACCTGAAGGACCACTTC+TGG 0.347564 8.4:-1036192 MS.gene43407:CDS
TCTTCCAGAAGTGGTCCTTC+AGG 0.352779 8.4:+1036188 None:intergenic
TTTAATGCCTAATACTTTGA+TGG 0.358229 8.4:+1036433 None:intergenic
AATTCAAAGATTGTGATAAT+AGG 0.375780 8.4:-1036278 MS.gene43407:CDS
AGAAATGGAAGTTTCATTGA+TGG 0.380684 8.4:+1036311 None:intergenic
ATCAAACCCATCAAAGTATT+AGG 0.381123 8.4:-1036440 MS.gene43407:CDS
CCACAGTTGGTGTGTGTTTG+AGG 0.388523 8.4:+1036351 None:intergenic
GGTGTGTGTTTGAGGAAAAT+TGG 0.393174 8.4:+1036359 None:intergenic
TTCTCAAGTCCTTACTGCTA+TGG 0.416025 8.4:-1036009 MS.gene43407:CDS
CTCATCATTGCTATTCTTGG+AGG 0.417146 8.4:-1036047 MS.gene43407:CDS
ATCATTGCTATTCTTGGAGG+TGG 0.422996 8.4:-1036044 MS.gene43407:CDS
CTTTGTGCATCTTCCACAGT+TGG 0.439217 8.4:+1036338 None:intergenic
GAAAAGAGAACAAGAGGGGT+TGG 0.443409 8.4:+1036487 None:intergenic
GAATGGAATGGATGAGCAAA+AGG 0.459747 8.4:-1036225 MS.gene43407:CDS
AAGAGAACAAGAGGGGTTGG+AGG 0.462285 8.4:+1036490 None:intergenic
TTAATGCCTAATACTTTGAT+GGG 0.463239 8.4:+1036434 None:intergenic
TGGGTTTGATAAATACTTGA+TGG 0.474365 8.4:+1036453 None:intergenic
TGGGACAACGTGAGAAGGTA+TGG 0.479294 8.4:-1036158 MS.gene43407:CDS
AACTGTGGAAGATGCACAAA+GGG 0.491879 8.4:-1036336 MS.gene43407:CDS
GGTTGGAGGAATTTGGAAGC+TGG 0.507532 8.4:+1036504 None:intergenic
TTCTTGAGAAGCTCAAATAT+AGG 0.508858 8.4:+1036086 None:intergenic
ATAATAGGAGCAGTTTCTGT+TGG 0.516609 8.4:-1036263 MS.gene43407:CDS
AGGTGCAATATACACAATCT+TGG 0.535873 8.4:-1036111 MS.gene43407:CDS
CAAGTCCTTACTGCTATGGT+TGG 0.540150 8.4:-1036005 MS.gene43407:CDS
CAAAACTCTTCTTCCAGAAG+TGG 0.542465 8.4:+1036179 None:intergenic
TTTGTTGGTTCTGAATGGAA+TGG 0.544407 8.4:-1036237 MS.gene43407:CDS
TGGAGTGAAAAGAGAACAAG+AGG 0.556434 8.4:+1036481 None:intergenic
TATGCACTAACTGTTAGTAC+AGG 0.569987 8.4:-1036131 MS.gene43407:CDS
AATGGATGAGCAAAAGGCAT+TGG 0.578741 8.4:-1036219 MS.gene43407:CDS
AAACGCCAACCATAGCAGTA+AGG 0.591938 8.4:+1036000 None:intergenic
CCTCAAACACACACCAACTG+TGG 0.606028 8.4:-1036351 MS.gene43407:CDS
GAGTGAAAAGAGAACAAGAG+GGG 0.620816 8.4:+1036483 None:intergenic
CAACTGTGGAAGATGCACAA+AGG 0.630847 8.4:-1036337 MS.gene43407:CDS
GGAGTGAAAAGAGAACAAGA+GGG 0.645371 8.4:+1036482 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTCAAAGATTGTGATAAT+AGG - chr8.4:1036226-1036245 MS.gene43407:CDS 20.0%
!!! AGTTTTATTGCATATTTTGA+AGG + chr8.4:1036112-1036131 None:intergenic 20.0%
!!! ATAAATACTTGATGGTTTTT+TGG + chr8.4:1036046-1036065 None:intergenic 20.0%
! TTAATGCCTAATACTTTGAT+GGG + chr8.4:1036073-1036092 None:intergenic 25.0%
! TTTAATGCCTAATACTTTGA+TGG + chr8.4:1036074-1036093 None:intergenic 25.0%
!!! GAATTCTCATTTTCAAGAAA+TGG + chr8.4:1036211-1036230 None:intergenic 25.0%
!!! TTATTGCATATTTTGAAGGT+GGG + chr8.4:1036108-1036127 None:intergenic 25.0%
!!! TTTATTGCATATTTTGAAGG+TGG + chr8.4:1036109-1036128 None:intergenic 25.0%
AGAAATGGAAGTTTCATTGA+TGG + chr8.4:1036196-1036215 None:intergenic 30.0%
ATGATGAGAATTGCAGTAAT+TGG + chr8.4:1036445-1036464 None:intergenic 30.0%
TGGGTTTGATAAATACTTGA+TGG + chr8.4:1036054-1036073 None:intergenic 30.0%
TTCTTGAGAAGCTCAAATAT+AGG + chr8.4:1036421-1036440 None:intergenic 30.0%
! AGTTTCTGTTGGAATTTTGT+TGG - chr8.4:1036252-1036271 MS.gene43407:CDS 30.0%
! ATCAAACCCATCAAAGTATT+AGG - chr8.4:1036064-1036083 MS.gene43407:CDS 30.0%
! ATTCTCATCATTGCTATTCT+TGG - chr8.4:1036454-1036473 MS.gene43407:CDS 30.0%
AGGTGCAATATACACAATCT+TGG - chr8.4:1036393-1036412 MS.gene43407:CDS 35.0%
ATAATAGGAGCAGTTTCTGT+TGG - chr8.4:1036241-1036260 MS.gene43407:CDS 35.0%
TATGCACTAACTGTTAGTAC+AGG - chr8.4:1036373-1036392 MS.gene43407:CDS 35.0%
!! ACTTCTGGAAGAAGAGTTTT+GGG - chr8.4:1036327-1036346 MS.gene43407:CDS 35.0%
!! TTTGTTGGTTCTGAATGGAA+TGG - chr8.4:1036267-1036286 MS.gene43407:CDS 35.0%
!!! GGAATTTTGTTGGTTCTGAA+TGG - chr8.4:1036262-1036281 MS.gene43407:CDS 35.0%
AACTGTGGAAGATGCACAAA+GGG - chr8.4:1036168-1036187 MS.gene43407:CDS 40.0%
CAAAACTCTTCTTCCAGAAG+TGG + chr8.4:1036328-1036347 None:intergenic 40.0%
GAATGGAATGGATGAGCAAA+AGG - chr8.4:1036279-1036298 MS.gene43407:CDS 40.0%
GAGTGAAAAGAGAACAAGAG+GGG + chr8.4:1036024-1036043 None:intergenic 40.0%
GGAGTGAAAAGAGAACAAGA+GGG + chr8.4:1036025-1036044 None:intergenic 40.0%
GGTGTGTGTTTGAGGAAAAT+TGG + chr8.4:1036148-1036167 None:intergenic 40.0%
TGGAGTGAAAAGAGAACAAG+AGG + chr8.4:1036026-1036045 None:intergenic 40.0%
TTCTCAAGTCCTTACTGCTA+TGG - chr8.4:1036495-1036514 MS.gene43407:CDS 40.0%
! AATGGATGAGCAAAAGGCAT+TGG - chr8.4:1036285-1036304 MS.gene43407:CDS 40.0%
! ATCATTGCTATTCTTGGAGG+TGG - chr8.4:1036460-1036479 MS.gene43407:CDS 40.0%
! CTCATCATTGCTATTCTTGG+AGG - chr8.4:1036457-1036476 MS.gene43407:CDS 40.0%
!! CACTTCTGGAAGAAGAGTTT+TGG - chr8.4:1036326-1036345 MS.gene43407:CDS 40.0%
AAACGCCAACCATAGCAGTA+AGG + chr8.4:1036507-1036526 None:intergenic 45.0%
CAACTGTGGAAGATGCACAA+AGG - chr8.4:1036167-1036186 MS.gene43407:CDS 45.0%
CAAGTCCTTACTGCTATGGT+TGG - chr8.4:1036499-1036518 MS.gene43407:CDS 45.0%
CTTTGTGCATCTTCCACAGT+TGG + chr8.4:1036169-1036188 None:intergenic 45.0%
GAAAAGAGAACAAGAGGGGT+TGG + chr8.4:1036020-1036039 None:intergenic 45.0%
!!! AGTTTTGGGACAACGTGAGA+AGG - chr8.4:1036341-1036360 MS.gene43407:CDS 45.0%
!!! GAGCAAAAGGCATTGGCTTT+TGG - chr8.4:1036292-1036311 MS.gene43407:CDS 45.0%
AAGAGAACAAGAGGGGTTGG+AGG + chr8.4:1036017-1036036 None:intergenic 50.0%
CAAGAGGGGTTGGAGGAATT+TGG + chr8.4:1036010-1036029 None:intergenic 50.0%
CCTCAAACACACACCAACTG+TGG - chr8.4:1036153-1036172 MS.gene43407:CDS 50.0%
GGTTGGAGGAATTTGGAAGC+TGG + chr8.4:1036003-1036022 None:intergenic 50.0%
TCTTCCAGAAGTGGTCCTTC+AGG + chr8.4:1036319-1036338 None:intergenic 50.0%
TGGGACAACGTGAGAAGGTA+TGG - chr8.4:1036346-1036365 MS.gene43407:CDS 50.0%
! CCACAGTTGGTGTGTGTTTG+AGG + chr8.4:1036156-1036175 None:intergenic 50.0%
!!! GCATTGGCTTTTGGACCTGA+AGG - chr8.4:1036301-1036320 MS.gene43407:CDS 50.0%
TGGACCTGAAGGACCACTTC+TGG - chr8.4:1036312-1036331 MS.gene43407:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 1035971 1036555 1035971 ID=MS.gene43407
chr8.4 mRNA 1035971 1036555 1035971 ID=MS.gene43407.t1;Parent=MS.gene43407
chr8.4 exon 1035971 1036555 1035971 ID=MS.gene43407.t1.exon1;Parent=MS.gene43407.t1
chr8.4 CDS 1035971 1036555 1035971 ID=cds.MS.gene43407.t1;Parent=MS.gene43407.t1
Gene Sequence

>MS.gene43407

ATGAAAAATCTTAGCTTGAAATTAAAGCTCCAGCTTCCAAATTCCTCCAACCCCTCTTGTTCTCTTTTCACTCCAAAAAACCATCAAGTATTTATCAAACCCATCAAAGTATTAGGCATTAAAAACTTCAAAAACCCACCTTCAAAATATGCAATAAAACTTAGAGAAGCTTCTCCAATTTTCCTCAAACACACACCAACTGTGGAAGATGCACAAAGGGCACCATCAATGAAACTTCCATTTCTTGAAAATGAGAATTCAAAGATTGTGATAATAGGAGCAGTTTCTGTTGGAATTTTGTTGGTTCTGAATGGAATGGATGAGCAAAAGGCATTGGCTTTTGGACCTGAAGGACCACTTCTGGAAGAAGAGTTTTGGGACAACGTGAGAAGGTATGGTTTGTATGCACTAACTGTTAGTACAGGTGCAATATACACAATCTTGGTGCCTATATTTGAGCTTCTCAAGAATCCAATTACTGCAATTCTCATCATTGCTATTCTTGGAGGTGGTTTCTACATTGTTTCTCAAGTCCTTACTGCTATGGTTGGCGTTTCTGATTTTAGTTATGATTATGCAAACTAG

Protein sequence

>MS.gene43407.t1

MKNLSLKLKLQLPNSSNPSCSLFTPKNHQVFIKPIKVLGIKNFKNPPSKYAIKLREASPIFLKHTPTVEDAQRAPSMKLPFLENENSKIVIIGAVSVGILLVLNGMDEQKALAFGPEGPLLEEEFWDNVRRYGLYALTVSTGAIYTILVPIFELLKNPITAILIIAILGGGFYIVSQVLTAMVGVSDFSYDYAN