AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene036751

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene036751.t1 MTR_3g084720 47.347 245 99 4 1 231 1 229 7.83e-60 188
MS.gene036751.t1 MTR_6g465230 62.602 123 41 3 1 120 98 218 1.21e-34 123
MS.gene036751.t1 MTR_7g010470 65.000 80 28 0 155 234 1 80 3.92e-29 105
MS.gene036751.t1 MTR_6g055180 54.945 91 33 2 1 87 1 87 1.67e-18 77.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene036751.t1 AT2G18490 63.158 57 21 0 122 178 155 211 1.14e-20 87.8
MS.gene036751.t1 AT2G18490 63.158 57 21 0 122 178 205 261 1.85e-20 88.2
MS.gene036751.t1 AT2G15740 59.701 67 23 1 121 187 229 291 4.97e-20 87.4
MS.gene036751.t1 AT5G22990 65.079 63 21 1 117 178 227 289 5.58e-20 87.0
MS.gene036751.t1 AT5G42640 42.478 113 47 4 78 178 179 285 1.24e-19 85.9

Find 50 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATCATTGAGCTTTAGAATC+TGG 0.282776 8.3:-12952524 None:intergenic
GTTTATTGTGGGGTAGACTA+TGG 0.293623 8.3:-12952356 None:intergenic
AACAATATTGTTGCGACTAA+TGG 0.347097 8.3:+12952261 MS.gene036751:CDS
CAAATGCTTAAAACACAGTT+TGG 0.350424 8.3:+12952090 MS.gene036751:CDS
CATCTGATAATAATAATAAT+AGG 0.353038 8.3:+12952136 MS.gene036751:CDS
CGACTAATGGTGATGAAGTT+CGG 0.362539 8.3:+12952274 MS.gene036751:CDS
GACTAATGGTGATGAAGTTC+GGG 0.387698 8.3:+12952275 MS.gene036751:CDS
TCTGGAGATCTGGTCTCTTT+CGG 0.392995 8.3:-12952506 None:intergenic
AGCTTTAGAATCTGGAGATC+TGG 0.424493 8.3:-12952516 None:intergenic
TCAGCCGATAGTAACAATTT+CGG 0.440639 8.3:+12952036 MS.gene036751:CDS
TGTATTGATTTGATGATGCC+TGG 0.446641 8.3:-12952069 None:intergenic
GCTATTACCTTGTTGCACTT+TGG 0.453373 8.3:-12952396 None:intergenic
TTGCACTTTGGACATATGTA+TGG 0.455080 8.3:-12952384 None:intergenic
GACGAGCCTCCAAGGAGATC+AGG 0.458143 8.3:-12952216 None:intergenic
TTATTATTATTATCAGATGA+TGG 0.465331 8.3:-12952132 None:intergenic
ACAATATTGTTTGCCTCAGA+TGG 0.469502 8.3:-12952249 None:intergenic
CAACCACCATGAGTTCTGAT+AGG 0.471836 8.3:+12951974 None:intergenic
TACGCTCATCCTGATCTCCT+TGG 0.478788 8.3:+12952207 MS.gene036751:CDS
ACCCCACTTAGAGGAGGAGC+AGG 0.481368 8.3:-12952633 None:intergenic
TCCCTGCTCCTCCTCTAAGT+GGG 0.487095 8.3:+12952631 MS.gene036751:CDS
AAAGAAGAAATTGTTGATGA+TGG 0.494936 8.3:+12952327 MS.gene036751:CDS
GTCCCTGCTCCTCCTCTAAG+TGG 0.497357 8.3:+12952630 MS.gene036751:CDS
TGTATGGTCCATGTTTATTG+TGG 0.503637 8.3:-12952368 None:intergenic
GTTCTGATAGGTTGATGAAA+TGG 0.508320 8.3:+12951986 MS.gene036751:CDS
TATTGTTTGCCTCAGATGGC+GGG 0.510054 8.3:-12952245 None:intergenic
CTATCGGCTGATGATGTGGT+TGG 0.515511 8.3:-12952024 None:intergenic
CAGATTCTAAAGCTCAATGA+TGG 0.517574 8.3:+12952525 MS.gene036751:CDS
GTATGGTCCATGTTTATTGT+GGG 0.530171 8.3:-12952367 None:intergenic
TATCGGCTGATGATGTGGTT+GGG 0.534054 8.3:-12952023 None:intergenic
GCTCATCCTGATCTCCTTGG+AGG 0.534371 8.3:+12952210 MS.gene036751:CDS
CATCAACCTATCAGAACTCA+TGG 0.543143 8.3:-12951980 None:intergenic
AATATATATTAATTATCAGC+CGG 0.551956 8.3:-12952672 None:intergenic
CAAATAGTACCAACATGAAG+AGG 0.557023 8.3:+12952301 MS.gene036751:CDS
GGTGTGATGACGAGCCTCCA+AGG 0.564529 8.3:-12952224 None:intergenic
AATTTCGGTAGTCATGCTCC+AGG 0.573474 8.3:+12952051 MS.gene036751:CDS
ACTACCGAAATTGTTACTAT+CGG 0.574375 8.3:-12952040 None:intergenic
GGTAAAAGTTAAACATGAGC+CGG 0.581268 8.3:+12952653 MS.gene036751:CDS
CCCTGCTCCTCCTCTAAGTG+GGG 0.591604 8.3:+12952632 MS.gene036751:CDS
ATATTGTTTGCCTCAGATGG+CGG 0.593923 8.3:-12952246 None:intergenic
TGAGTATCATAACTGACAGA+AGG 0.596005 8.3:-12952597 None:intergenic
GTCATCACACCCGCCATCTG+AGG 0.607113 8.3:+12952236 MS.gene036751:CDS
GTTACTATCGGCTGATGATG+TGG 0.609878 8.3:-12952028 None:intergenic
TATGGTCCATGTTTATTGTG+GGG 0.620016 8.3:-12952366 None:intergenic
CATATGTCCAAAGTGCAACA+AGG 0.620267 8.3:+12952389 MS.gene036751:CDS
TGTTATCAACAACAACAAGA+TGG 0.620498 8.3:+12952164 MS.gene036751:CDS
TGATCAGTAGAAGCAATGAC+AGG 0.628764 8.3:-12952564 None:intergenic
TGTATCAAGTCACTACAAGT+CGG 0.647352 8.3:+12952443 MS.gene036751:CDS
AGTCTACCCCACAATAAACA+TGG 0.648429 8.3:+12952360 MS.gene036751:CDS
CCCCACTTAGAGGAGGAGCA+GGG 0.660323 8.3:-12952632 None:intergenic
AGGTTGATGAAATGGTTGTG+TGG 0.707031 8.3:+12951994 MS.gene036751:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CATCTGATAATAATAATAAT+AGG + chr8.3:12952136-12952155 MS.gene036751:CDS 15.0%
!! TTATTATTATTATCAGATGA+TGG - chr8.3:12952135-12952154 None:intergenic 15.0%
!! AAAGAAGAAATTGTTGATGA+TGG + chr8.3:12952327-12952346 MS.gene036751:CDS 25.0%
AACAATATTGTTGCGACTAA+TGG + chr8.3:12952261-12952280 MS.gene036751:CDS 30.0%
ACTACCGAAATTGTTACTAT+CGG - chr8.3:12952043-12952062 None:intergenic 30.0%
CAAATGCTTAAAACACAGTT+TGG + chr8.3:12952090-12952109 MS.gene036751:CDS 30.0%
GAAAAAAGAGATACATGTCT+AGG + chr8.3:12952481-12952500 MS.gene036751:CDS 30.0%
TGTTATCAACAACAACAAGA+TGG + chr8.3:12952164-12952183 MS.gene036751:CDS 30.0%
!!! TTCTTTTTTCCTCTTCATGT+TGG - chr8.3:12952313-12952332 None:intergenic 30.0%
ACAATATTGTTTGCCTCAGA+TGG - chr8.3:12952252-12952271 None:intergenic 35.0%
CAAATAGTACCAACATGAAG+AGG + chr8.3:12952301-12952320 MS.gene036751:CDS 35.0%
GGTAAAAGTTAAACATGAGC+CGG + chr8.3:12952653-12952672 MS.gene036751:CDS 35.0%
GTATGGTCCATGTTTATTGT+GGG - chr8.3:12952370-12952389 None:intergenic 35.0%
TATGGTCCATGTTTATTGTG+GGG - chr8.3:12952369-12952388 None:intergenic 35.0%
TCAGCCGATAGTAACAATTT+CGG + chr8.3:12952036-12952055 MS.gene036751:CDS 35.0%
TGAGTATCATAACTGACAGA+AGG - chr8.3:12952600-12952619 None:intergenic 35.0%
TGTATCAAGTCACTACAAGT+CGG + chr8.3:12952443-12952462 MS.gene036751:CDS 35.0%
TGTATGGTCCATGTTTATTG+TGG - chr8.3:12952371-12952390 None:intergenic 35.0%
TTGCACTTTGGACATATGTA+TGG - chr8.3:12952387-12952406 None:intergenic 35.0%
! TTAACTTTTACCCCACTTAG+AGG - chr8.3:12952645-12952664 None:intergenic 35.0%
!! CAGATTCTAAAGCTCAATGA+TGG + chr8.3:12952525-12952544 MS.gene036751:CDS 35.0%
!! CATCATTGAGCTTTAGAATC+TGG - chr8.3:12952527-12952546 None:intergenic 35.0%
!! GTTCTGATAGGTTGATGAAA+TGG + chr8.3:12951986-12952005 MS.gene036751:CDS 35.0%
!! TGTATTGATTTGATGATGCC+TGG - chr8.3:12952072-12952091 None:intergenic 35.0%
AGTCTACCCCACAATAAACA+TGG + chr8.3:12952360-12952379 MS.gene036751:CDS 40.0%
ATATTGTTTGCCTCAGATGG+CGG - chr8.3:12952249-12952268 None:intergenic 40.0%
CATATGTCCAAAGTGCAACA+AGG + chr8.3:12952389-12952408 MS.gene036751:CDS 40.0%
GCTATTACCTTGTTGCACTT+TGG - chr8.3:12952399-12952418 None:intergenic 40.0%
GTTTATTGTGGGGTAGACTA+TGG - chr8.3:12952359-12952378 None:intergenic 40.0%
TGATCAGTAGAAGCAATGAC+AGG - chr8.3:12952567-12952586 None:intergenic 40.0%
! CGACTAATGGTGATGAAGTT+CGG + chr8.3:12952274-12952293 MS.gene036751:CDS 40.0%
! GACTAATGGTGATGAAGTTC+GGG + chr8.3:12952275-12952294 MS.gene036751:CDS 40.0%
!! AGCTTTAGAATCTGGAGATC+TGG - chr8.3:12952519-12952538 None:intergenic 40.0%
!! AGGTTGATGAAATGGTTGTG+TGG + chr8.3:12951994-12952013 MS.gene036751:CDS 40.0%
AATTTCGGTAGTCATGCTCC+AGG + chr8.3:12952051-12952070 MS.gene036751:CDS 45.0%
TATTGTTTGCCTCAGATGGC+GGG - chr8.3:12952248-12952267 None:intergenic 45.0%
TCTGGAGATCTGGTCTCTTT+CGG - chr8.3:12952509-12952528 None:intergenic 45.0%
! ACTTTTACCCCACTTAGAGG+AGG - chr8.3:12952642-12952661 None:intergenic 45.0%
! GTTACTATCGGCTGATGATG+TGG - chr8.3:12952031-12952050 None:intergenic 45.0%
! TATCGGCTGATGATGTGGTT+GGG - chr8.3:12952026-12952045 None:intergenic 45.0%
TACGCTCATCCTGATCTCCT+TGG + chr8.3:12952207-12952226 MS.gene036751:CDS 50.0%
! CTATCGGCTGATGATGTGGT+TGG - chr8.3:12952027-12952046 None:intergenic 50.0%
GCTCATCCTGATCTCCTTGG+AGG + chr8.3:12952210-12952229 MS.gene036751:CDS 55.0%
TCCCTGCTCCTCCTCTAAGT+GGG + chr8.3:12952631-12952650 MS.gene036751:CDS 55.0%
ACCCCACTTAGAGGAGGAGC+AGG - chr8.3:12952636-12952655 None:intergenic 60.0%
CCCCACTTAGAGGAGGAGCA+GGG - chr8.3:12952635-12952654 None:intergenic 60.0%
CCCTGCTCCTCCTCTAAGTG+GGG + chr8.3:12952632-12952651 MS.gene036751:CDS 60.0%
GACGAGCCTCCAAGGAGATC+AGG - chr8.3:12952219-12952238 None:intergenic 60.0%
GTCATCACACCCGCCATCTG+AGG + chr8.3:12952236-12952255 MS.gene036751:CDS 60.0%
GTCCCTGCTCCTCCTCTAAG+TGG + chr8.3:12952630-12952649 MS.gene036751:CDS 60.0%
! GGTGTGATGACGAGCCTCCA+AGG - chr8.3:12952227-12952246 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 12951982 12952686 12951982 ID=MS.gene036751
chr8.3 mRNA 12951982 12952686 12951982 ID=MS.gene036751.t1;Parent=MS.gene036751
chr8.3 exon 12951982 12952686 12951982 ID=MS.gene036751.t1.exon1;Parent=MS.gene036751.t1
chr8.3 CDS 12951982 12952686 12951982 ID=cds.MS.gene036751.t1;Parent=MS.gene036751.t1
Gene Sequence

>MS.gene036751

ATGAGTTCTGATAGGTTGATGAAATGGTTGTGTGGCTACAACCCAACCACATCATCAGCCGATAGTAACAATTTCGGTAGTCATGCTCCAGGCATCATCAAATCAATACAAATGCTTAAAACACAGTTTGGAAATCTACAAGCATCATCACCATCATCTGATAATAATAATAATAGGAATGATGTTATCAACAACAACAAGATGGTGTTGAACACTTCTTCTGCTTACGCTCATCCTGATCTCCTTGGAGGCTCGTCATCACACCCGCCATCTGAGGCAAACAATATTGTTGCGACTAATGGTGATGAAGTTCGGGCTTCAAATAGTACCAACATGAAGAGGAAAAAAGAAGAAATTGTTGATGATGGTAGAATCCATAGTCTACCCCACAATAAACATGGACCATACATATGTCCAAAGTGCAACAAGGTAATAGCAACATCACAAAAATTCGCTGCTCATGTATCAAGTCACTACAAGTCGGAAAGTGAAGAAGAAAGAAAAAAGAGATACATGTCTAGGATCCGAAAGAGACCAGATCTCCAGATTCTAAAGCTCAATGATGGAACAACTACTCTTGTTCCTGTCATTGCTTCTACTGATCAGTCACATGCTCCTTCTGTCAGTTATGATACTCAAAATATGAGTGTCCCTGCTCCTCCTCTAAGTGGGGTAAAAGTTAAACATGAGCCGGCTGATAATTAA
Protein sequence

>MS.gene036751.t1

MSSDRLMKWLCGYNPTTSSADSNNFGSHAPGIIKSIQMLKTQFGNLQASSPSSDNNNNRNDVINNNKMVLNTSSAYAHPDLLGGSSSHPPSEANNIVATNGDEVRASNSTNMKRKKEEIVDDGRIHSLPHNKHGPYICPKCNKVIATSQKFAAHVSSHYKSESEEERKKRYMSRIRKRPDLQILKLNDGTTTLVPVIASTDQSHAPSVSYDTQNMSVPAPPLSGVKVKHEPADN