AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene95795

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95795.t1 MTR_1g103640 89.954 219 16 3 1 218 1 214 7.40e-120 340
MS.gene95795.t1 MTR_1g072110 47.059 136 50 2 69 183 102 236 8.29e-34 121
MS.gene95795.t1 MTR_7g095150 42.138 159 60 6 43 182 56 201 6.05e-31 113
MS.gene95795.t1 MTR_2g102140 36.986 73 43 1 119 188 208 280 4.63e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95795.t1 AT2G32100 31.579 247 96 7 1 183 1 238 2.42e-24 97.4
MS.gene95795.t1 AT1G05420 45.299 117 60 2 72 185 107 222 2.75e-24 96.7
MS.gene95795.t1 AT1G05420 45.299 117 60 2 72 185 123 238 3.42e-24 96.7
MS.gene95795.t1 AT4G14860 48.718 78 40 0 110 187 99 176 6.17e-17 76.3
MS.gene95795.t1 AT1G79960 36.170 94 52 1 88 181 175 260 7.49e-12 63.9

Find 71 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAGGATTTACTGAGTATTT+TGG 0.196000 1.1:+74102488 None:intergenic
TCTTGGTATCAACGAGTTGC+AGG 0.322625 1.1:+74102532 None:intergenic
TATAGCCACGGTAGTTTCTC+AGG 0.368480 1.1:-74102210 MS.gene95795:CDS
GAGAAACTACCGTGGCTATA+TGG 0.370290 1.1:+74102213 None:intergenic
AGCTGTTTAGAGAATAGTTT+TGG 0.372531 1.1:+74102833 None:intergenic
CTTCGTCGTGGTGGTGGTGG+TGG 0.391180 1.1:+74102690 None:intergenic
AAGTGGTAGTAGTGTGTTGC+GGG 0.401469 1.1:+74102759 None:intergenic
GGGTGAAGGTGGTGTTGAAA+TGG 0.403095 1.1:+74102711 None:intergenic
TGGCGTTGGTTATTGAGCTT+TGG 0.405576 1.1:+74102233 None:intergenic
TGAGGTTGAGAGAGACTTGT+AGG 0.432145 1.1:+74102782 None:intergenic
TGTTGGATGTTACTAATGAT+TGG 0.438510 1.1:-74102415 MS.gene95795:CDS
GGGAGACTCTGTGATGGAAT+TGG 0.443453 1.1:+74102571 None:intergenic
TGTGATGGAATTGGAGCTGC+CGG 0.453476 1.1:+74102580 None:intergenic
GTGGTGGTGGTGGGTGAAGG+TGG 0.456710 1.1:+74102700 None:intergenic
GTGATGGAATTGGAGCTGCC+GGG 0.463677 1.1:+74102581 None:intergenic
GGAGAATGATGAAGAGGAGG+AGG 0.466907 1.1:+74102286 None:intergenic
TGATTTCCTCCGTTCTATGC+AGG 0.467753 1.1:-74102462 MS.gene95795:CDS
GTTGGATGTTACTAATGATT+GGG 0.473633 1.1:-74102414 MS.gene95795:CDS
GTAGTAGTGTGTTGCGGGTG+AGG 0.480198 1.1:+74102764 None:intergenic
CTTCTTCTTCGTCGTGGTGG+TGG 0.488298 1.1:+74102684 None:intergenic
CGGTTCTTCTTCTCCTCCCC+CGG 0.489732 1.1:-74102599 MS.gene95795:CDS
CTTCTTCGTCGTGGTGGTGG+TGG 0.490802 1.1:+74102687 None:intergenic
CTCTTCACACTACCTCCTCT+TGG 0.503844 1.1:+74102515 None:intergenic
TTCGTCGTGGTGGTGGTGGT+GGG 0.507089 1.1:+74102691 None:intergenic
CTTCGGTCTTCGCCTCCCAA+CGG 0.512619 1.1:-74102619 MS.gene95795:CDS
TCAATCTCAACAACAAGTGT+TGG 0.514277 1.1:-74102432 MS.gene95795:CDS
TGATGGAATTGGAGCTGCCG+GGG 0.520934 1.1:+74102582 None:intergenic
AAGAGGAGGTAGTGTGAAGA+GGG 0.521773 1.1:-74102513 MS.gene95795:CDS
ACCGAAGAAAAGTCCGGTGG+TGG 0.525748 1.1:+74102635 None:intergenic
CACCACGGAGCTTCCACCAC+CGG 0.528976 1.1:-74102648 MS.gene95795:CDS
CGGTAGTTTCTCAGGGAAGT+TGG 0.530160 1.1:-74102202 MS.gene95795:CDS
GGAGGAGAATGATGAAGAGG+AGG 0.534241 1.1:+74102283 None:intergenic
AGAGGAGGAGAATGATGAAG+AGG 0.539046 1.1:+74102280 None:intergenic
TGGAAAGTGCAAGGTGGTGA+TGG 0.545872 1.1:+74102731 None:intergenic
TAGCGGTGGCAGAGATGAAG+AGG 0.553957 1.1:+74102262 None:intergenic
GCAGGGTAGAGTGTCGTTGG+AGG 0.565052 1.1:+74102550 None:intergenic
GTTGCAGGGTAGAGTGTCGT+TGG 0.566571 1.1:+74102547 None:intergenic
GAATCATTTCCTGCATAGAA+CGG 0.567536 1.1:+74102453 None:intergenic
GGGAGGAGAAGAAGAACCGT+TGG 0.568788 1.1:+74102603 None:intergenic
AAGATAAAATATCAACAAGA+AGG 0.574451 1.1:+74102309 None:intergenic
GAGGTTGAGAGAGACTTGTA+GGG 0.579961 1.1:+74102783 None:intergenic
CAAGAGGAGGTAGTGTGAAG+AGG 0.579972 1.1:-74102514 MS.gene95795:CDS
GGAGGAGAAGAAGAACCGTT+GGG 0.582961 1.1:+74102604 None:intergenic
CTACCGTGGCTATATGGCGT+TGG 0.590481 1.1:+74102219 None:intergenic
AGTCTTCTTCTTCGTCGTGG+TGG 0.595367 1.1:+74102681 None:intergenic
GATGGAATTGGAGCTGCCGG+GGG 0.596484 1.1:+74102583 None:intergenic
CGGTGGCAGAGATGAAGAGG+AGG 0.598051 1.1:+74102265 None:intergenic
GCGAAGACCGAAGAAAAGTC+CGG 0.599717 1.1:+74102629 None:intergenic
CAGGGTAGAGTGTCGTTGGA+GGG 0.605780 1.1:+74102551 None:intergenic
AGGTGGTGATGGTGATGAAG+TGG 0.616233 1.1:+74102742 None:intergenic
CTTGGTATCAACGAGTTGCA+GGG 0.621057 1.1:+74102533 None:intergenic
AATAGTCTTCTTCTTCGTCG+TGG 0.621504 1.1:+74102678 None:intergenic
TTGAGCTTTGGAGAAGATAG+CGG 0.632157 1.1:+74102245 None:intergenic
GAAGTGGTAGTAGTGTGTTG+CGG 0.634718 1.1:+74102758 None:intergenic
ATATACTTGTGAGTATGCGT+AGG 0.648661 1.1:+74102350 None:intergenic
ATAGCCACGGTAGTTTCTCA+GGG 0.653695 1.1:-74102209 MS.gene95795:CDS
GGAGAAGAAGAACCGTTGGG+AGG 0.663874 1.1:+74102607 None:intergenic
GAACGGAGGAAATCAACGCA+AGG 0.665066 1.1:+74102470 None:intergenic
AGCTTTGGAGAAGATAGCGG+TGG 0.665519 1.1:+74102248 None:intergenic
ATTTGAGCTTGAAGAAACAG+AGG 0.670569 1.1:+74102807 None:intergenic
GTTGGAGGGAGACTCTGTGA+TGG 0.673435 1.1:+74102565 None:intergenic
TGCAACTCGTTGATACCAAG+AGG 0.674695 1.1:-74102530 MS.gene95795:CDS
GTCCGGTGGTGGAAGCTCCG+TGG 0.684749 1.1:+74102646 None:intergenic
TAACCAACGCCATATAGCCA+CGG 0.685032 1.1:-74102222 MS.gene95795:CDS
GTGTTGAAATGGAAAGTGCA+AGG 0.689570 1.1:+74102722 None:intergenic
TCATTTCCTGCATAGAACGG+AGG 0.700476 1.1:+74102456 None:intergenic
AGACTATTTCTACGACACCA+CGG 0.705726 1.1:-74102663 MS.gene95795:CDS
AACTCGTTGATACCAAGAGG+AGG 0.706068 1.1:-74102527 MS.gene95795:CDS
TTGAAATGGAAAGTGCAAGG+TGG 0.743911 1.1:+74102725 None:intergenic
AAGACCGAAGAAAAGTCCGG+TGG 0.752089 1.1:+74102632 None:intergenic
ACTTCCCTGAGAAACTACCG+TGG 0.784562 1.1:+74102205 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGTAAAAATATTAAATGTCA+AGG - chr1.1:74102826-74102845 MS.gene95795:CDS 15.0%
!! AAGATAAAATATCAACAAGA+AGG + chr1.1:74102699-74102718 None:intergenic 20.0%
GTTGGATGTTACTAATGATT+GGG - chr1.1:74102591-74102610 MS.gene95795:CDS 30.0%
TGTTGGATGTTACTAATGAT+TGG - chr1.1:74102590-74102609 MS.gene95795:CDS 30.0%
! AGCTGTTTAGAGAATAGTTT+TGG + chr1.1:74102175-74102194 None:intergenic 30.0%
! CAAGGATTTACTGAGTATTT+TGG + chr1.1:74102520-74102539 None:intergenic 30.0%
ATATACTTGTGAGTATGCGT+AGG + chr1.1:74102658-74102677 None:intergenic 35.0%
ATTTGAGCTTGAAGAAACAG+AGG + chr1.1:74102201-74102220 None:intergenic 35.0%
GAATCATTTCCTGCATAGAA+CGG + chr1.1:74102555-74102574 None:intergenic 35.0%
TCAATCTCAACAACAAGTGT+TGG - chr1.1:74102573-74102592 MS.gene95795:CDS 35.0%
AATAGTCTTCTTCTTCGTCG+TGG + chr1.1:74102330-74102349 None:intergenic 40.0%
! GTGTTGAAATGGAAAGTGCA+AGG + chr1.1:74102286-74102305 None:intergenic 40.0%
! TTGAAATGGAAAGTGCAAGG+TGG + chr1.1:74102283-74102302 None:intergenic 40.0%
!! AGACTATTTCTACGACACCA+CGG - chr1.1:74102342-74102361 MS.gene95795:CDS 40.0%
!! TTGAGCTTTGGAGAAGATAG+CGG + chr1.1:74102763-74102782 None:intergenic 40.0%
AACTCGTTGATACCAAGAGG+AGG - chr1.1:74102478-74102497 MS.gene95795:CDS 45.0%
AAGAGGAGGTAGTGTGAAGA+GGG - chr1.1:74102492-74102511 MS.gene95795:CDS 45.0%
AAGTGGTAGTAGTGTGTTGC+GGG + chr1.1:74102249-74102268 None:intergenic 45.0%
AGAGGAGGAGAATGATGAAG+AGG + chr1.1:74102728-74102747 None:intergenic 45.0%
ATAGCCACGGTAGTTTCTCA+GGG - chr1.1:74102796-74102815 MS.gene95795:CDS 45.0%
CTTGGTATCAACGAGTTGCA+GGG + chr1.1:74102475-74102494 None:intergenic 45.0%
GAAGTGGTAGTAGTGTGTTG+CGG + chr1.1:74102250-74102269 None:intergenic 45.0%
GAGAAACTACCGTGGCTATA+TGG + chr1.1:74102795-74102814 None:intergenic 45.0%
GAGGTTGAGAGAGACTTGTA+GGG + chr1.1:74102225-74102244 None:intergenic 45.0%
TAACCAACGCCATATAGCCA+CGG - chr1.1:74102783-74102802 MS.gene95795:CDS 45.0%
TATAGCCACGGTAGTTTCTC+AGG - chr1.1:74102795-74102814 MS.gene95795:CDS 45.0%
TCATTTCCTGCATAGAACGG+AGG + chr1.1:74102552-74102571 None:intergenic 45.0%
TCTTGGTATCAACGAGTTGC+AGG + chr1.1:74102476-74102495 None:intergenic 45.0%
TGAGGTTGAGAGAGACTTGT+AGG + chr1.1:74102226-74102245 None:intergenic 45.0%
TGATTTCCTCCGTTCTATGC+AGG - chr1.1:74102543-74102562 MS.gene95795:CDS 45.0%
TGCAACTCGTTGATACCAAG+AGG - chr1.1:74102475-74102494 MS.gene95795:CDS 45.0%
!! TGGCGTTGGTTATTGAGCTT+TGG + chr1.1:74102775-74102794 None:intergenic 45.0%
AAGACCGAAGAAAAGTCCGG+TGG + chr1.1:74102376-74102395 None:intergenic 50.0%
ACTTCCCTGAGAAACTACCG+TGG + chr1.1:74102803-74102822 None:intergenic 50.0%
AGTCTTCTTCTTCGTCGTGG+TGG + chr1.1:74102327-74102346 None:intergenic 50.0%
CAAGAGGAGGTAGTGTGAAG+AGG - chr1.1:74102491-74102510 MS.gene95795:CDS 50.0%
CGGTAGTTTCTCAGGGAAGT+TGG - chr1.1:74102803-74102822 MS.gene95795:CDS 50.0%
CTCTTCACACTACCTCCTCT+TGG + chr1.1:74102493-74102512 None:intergenic 50.0%
GAACGGAGGAAATCAACGCA+AGG + chr1.1:74102538-74102557 None:intergenic 50.0%
GCGAAGACCGAAGAAAAGTC+CGG + chr1.1:74102379-74102398 None:intergenic 50.0%
GGAGAATGATGAAGAGGAGG+AGG + chr1.1:74102722-74102741 None:intergenic 50.0%
GGAGGAGAAGAAGAACCGTT+GGG + chr1.1:74102404-74102423 None:intergenic 50.0%
GGAGGAGAATGATGAAGAGG+AGG + chr1.1:74102725-74102744 None:intergenic 50.0%
! GGGAGACTCTGTGATGGAAT+TGG + chr1.1:74102437-74102456 None:intergenic 50.0%
! GGGTGAAGGTGGTGTTGAAA+TGG + chr1.1:74102297-74102316 None:intergenic 50.0%
! TCCACCACCGGACTTTTCTT+CGG - chr1.1:74102369-74102388 MS.gene95795:CDS 50.0%
! TGGAAAGTGCAAGGTGGTGA+TGG + chr1.1:74102277-74102296 None:intergenic 50.0%
! TGTGATGGAATTGGAGCTGC+CGG + chr1.1:74102428-74102447 None:intergenic 50.0%
!! AGCTTTGGAGAAGATAGCGG+TGG + chr1.1:74102760-74102779 None:intergenic 50.0%
!! AGGTGGTGATGGTGATGAAG+TGG + chr1.1:74102266-74102285 None:intergenic 50.0%
ACCGAAGAAAAGTCCGGTGG+TGG + chr1.1:74102373-74102392 None:intergenic 55.0%
CTACCGTGGCTATATGGCGT+TGG + chr1.1:74102789-74102808 None:intergenic 55.0%
CTTCTTCTTCGTCGTGGTGG+TGG + chr1.1:74102324-74102343 None:intergenic 55.0%
GGAGAAGAAGAACCGTTGGG+AGG + chr1.1:74102401-74102420 None:intergenic 55.0%
GGGAGGAGAAGAAGAACCGT+TGG + chr1.1:74102405-74102424 None:intergenic 55.0%
GTAGTAGTGTGTTGCGGGTG+AGG + chr1.1:74102244-74102263 None:intergenic 55.0%
GTTGGAGGGAGACTCTGTGA+TGG + chr1.1:74102443-74102462 None:intergenic 55.0%
TAGCGGTGGCAGAGATGAAG+AGG + chr1.1:74102746-74102765 None:intergenic 55.0%
TGATGGAATTGGAGCTGCCG+GGG + chr1.1:74102426-74102445 None:intergenic 55.0%
! GTGATGGAATTGGAGCTGCC+GGG + chr1.1:74102427-74102446 None:intergenic 55.0%
!! CAGGGTAGAGTGTCGTTGGA+GGG + chr1.1:74102457-74102476 None:intergenic 55.0%
!! GTTGCAGGGTAGAGTGTCGT+TGG + chr1.1:74102461-74102480 None:intergenic 55.0%
CGGTGGCAGAGATGAAGAGG+AGG + chr1.1:74102743-74102762 None:intergenic 60.0%
CGGTTCTTCTTCTCCTCCCC+CGG - chr1.1:74102406-74102425 MS.gene95795:CDS 60.0%
CTTCGGTCTTCGCCTCCCAA+CGG - chr1.1:74102386-74102405 MS.gene95795:CDS 60.0%
GATGGAATTGGAGCTGCCGG+GGG + chr1.1:74102425-74102444 None:intergenic 60.0%
!! CTTCTTCGTCGTGGTGGTGG+TGG + chr1.1:74102321-74102340 None:intergenic 60.0%
!! GCAGGGTAGAGTGTCGTTGG+AGG + chr1.1:74102458-74102477 None:intergenic 60.0%
!! TTCGTCGTGGTGGTGGTGGT+GGG + chr1.1:74102317-74102336 None:intergenic 60.0%
CACCACGGAGCTTCCACCAC+CGG - chr1.1:74102357-74102376 MS.gene95795:CDS 65.0%
!! CTTCGTCGTGGTGGTGGTGG+TGG + chr1.1:74102318-74102337 None:intergenic 65.0%
!! GTGGTGGTGGTGGGTGAAGG+TGG + chr1.1:74102308-74102327 None:intergenic 65.0%
!! GTGGTGGTGGTGGTGGGTGA+AGG + chr1.1:74102311-74102330 None:intergenic 65.0%
GGAATTGGAGCTGCCGGGGG+AGG + chr1.1:74102422-74102441 None:intergenic 70.0%
!! GTCCGGTGGTGGAAGCTCCG+TGG + chr1.1:74102362-74102381 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 74102169 74102858 74102169 ID=MS.gene95795
chr1.1 mRNA 74102169 74102858 74102169 ID=MS.gene95795.t1;Parent=MS.gene95795
chr1.1 exon 74102169 74102858 74102169 ID=MS.gene95795.t1.exon1;Parent=MS.gene95795.t1
chr1.1 CDS 74102169 74102858 74102169 ID=cds.MS.gene95795.t1;Parent=MS.gene95795.t1
Gene Sequence

>MS.gene95795

ATGCCAAAACTATTCTCTAAACAGCTACACCTCTGTTTCTTCAAGCTCAAATACCCTACAAGTCTCTCTCAACCTCACCCGCAACACACTACTACCACTTCATCACCATCACCACCTTGCACTTTCCATTTCAACACCACCTTCACCCACCACCACCACCACGACGAAGAAGAAGACTATTTCTACGACACCACGGAGCTTCCACCACCGGACTTTTCTTCGGTCTTCGCCTCCCAACGGTTCTTCTTCTCCTCCCCCGGCAGCTCCAATTCCATCACAGAGTCTCCCTCCAACGACACTCTACCCTGCAACTCGTTGATACCAAGAGGAGGTAGTGTGAAGAGGGTGCCAAAATACTCAGTAAATCCTTGCGTTGATTTCCTCCGTTCTATGCAGGAAATGATTCAATCTCAACAACAAGTGTTGGATGTTACTAATGATTGGGATTATCTTCATGAGCTTCTCTTATGCTATCTTGCTCTTAATCCTACGCATACTCACAAGTATATTGTTCAAGCTTTCACTCACCTTCTTGTTGATATTTTATCTTCCTCCTCCTCTTCATCATTCTCCTCCTCTTCATCTCTGCCACCGCTATCTTCTCCAAAGCTCAATAACCAACGCCATATAGCCACGGTAGTTTCTCAGGGAAGTTGGTGTAAAAATATTAAATGTCAAGGTTTTAAATAG
Protein sequence

>MS.gene95795.t1

MPKLFSKQLHLCFFKLKYPTSLSQPHPQHTTTTSSPSPPCTFHFNTTFTHHHHHDEEEDYFYDTTELPPPDFSSVFASQRFFFSSPGSSNSITESPSNDTLPCNSLIPRGGSVKRVPKYSVNPCVDFLRSMQEMIQSQQQVLDVTNDWDYLHELLLCYLALNPTHTHKYIVQAFTHLLVDILSSSSSSSFSSSSSLPPLSSPKLNNQRHIATVVSQGSWCKNIKCQGFK