AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene62392

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62392.t1 MTR_3g084720 47.347 245 98 5 1 230 1 229 4.12e-59 186
MS.gene62392.t1 MTR_6g465230 63.934 122 40 2 1 119 98 218 1.33e-36 128
MS.gene62392.t1 MTR_7g010470 65.000 80 28 0 154 233 1 80 3.85e-29 105
MS.gene62392.t1 MTR_6g055180 55.556 90 33 2 1 86 1 87 6.75e-19 78.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62392.t1 AT2G18490 63.158 57 21 0 121 177 155 211 9.90e-21 87.8
MS.gene62392.t1 AT2G18490 63.158 57 21 0 121 177 205 261 1.66e-20 88.2
MS.gene62392.t1 AT2G15740 59.701 67 23 1 120 186 229 291 4.91e-20 87.4
MS.gene62392.t1 AT5G22990 65.079 63 21 1 116 177 227 289 5.24e-20 87.0
MS.gene62392.t1 AT5G42640 42.478 113 47 4 77 177 179 285 1.24e-19 85.9

Find 48 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATCATTGAGCTTTAGAATC+TGG 0.282776 8.2:-13811776 None:intergenic
GTTTATTGTGGGGTAGACTA+TGG 0.293623 8.2:-13811608 None:intergenic
CATCATCTGATAATAATAAT+AGG 0.318777 8.2:+13811388 MS.gene62392:CDS
AACAATATTGTTGCTACTAA+TGG 0.346446 8.2:+13811513 MS.gene62392:CDS
CAAATGCTTAAAACACAGTT+TGG 0.350424 8.2:+13811345 MS.gene62392:CDS
TACTAATGGTGATGAAGTTC+GGG 0.365107 8.2:+13811527 MS.gene62392:CDS
CTACTAATGGTGATGAAGTT+CGG 0.369876 8.2:+13811526 MS.gene62392:CDS
TCTGGAGATCTGGTCTCTTT+CGG 0.392995 8.2:-13811758 None:intergenic
AGCTTTAGAATCTGGAGATC+TGG 0.424493 8.2:-13811768 None:intergenic
TCAGCCGATAGTAACAATTT+CGG 0.440639 8.2:+13811291 MS.gene62392:CDS
TGTATTGATTTGATGATGCC+TGG 0.446641 8.2:-13811324 None:intergenic
CTATTATTATTATCAGATGA+TGG 0.447972 8.2:-13811387 None:intergenic
GCTATTACCTTGTTGCACTT+TGG 0.453373 8.2:-13811648 None:intergenic
TTGCACTTTGGACATATGTA+TGG 0.455080 8.2:-13811636 None:intergenic
GACGAGCCTCCAAGGAGATC+AGG 0.458143 8.2:-13811468 None:intergenic
CAACCACCATGAGTTCTGAT+AGG 0.471836 8.2:+13811229 None:intergenic
ACAATATTGTTTGCCTCAGA+TGG 0.473153 8.2:-13811501 None:intergenic
TACGCTCATCCTGATCTCCT+TGG 0.478788 8.2:+13811459 MS.gene62392:CDS
ACCCCACTTAGAGGAGGAGC+AGG 0.481368 8.2:-13811885 None:intergenic
TCCCTGCTCCTCCTCTAAGT+GGG 0.487095 8.2:+13811883 MS.gene62392:CDS
AAAGAAGAAATTGTTGATGA+TGG 0.494936 8.2:+13811579 MS.gene62392:CDS
GTCCCTGCTCCTCCTCTAAG+TGG 0.497357 8.2:+13811882 MS.gene62392:CDS
TGTATGGTCCATGTTTATTG+TGG 0.503637 8.2:-13811620 None:intergenic
GTTCTGATAGGTTGATGAAA+TGG 0.508320 8.2:+13811241 MS.gene62392:CDS
TATTGTTTGCCTCAGATGGC+GGG 0.510054 8.2:-13811497 None:intergenic
CAGATTCTAAAGCTCAATGA+TGG 0.517574 8.2:+13811777 MS.gene62392:CDS
AATATATATTAATTATCAGC+AGG 0.528844 8.2:-13811924 None:intergenic
GTATGGTCCATGTTTATTGT+GGG 0.530171 8.2:-13811619 None:intergenic
GCTCATCCTGATCTCCTTGG+AGG 0.534371 8.2:+13811462 MS.gene62392:CDS
CATCAACCTATCAGAACTCA+TGG 0.543143 8.2:-13811235 None:intergenic
CAAATAGTACCAACATGAAG+AGG 0.557023 8.2:+13811553 MS.gene62392:CDS
GGTGTGATGACGAGCCTCCA+AGG 0.564529 8.2:-13811476 None:intergenic
AATTTCGGTAGTCATGCTCC+AGG 0.573474 8.2:+13811306 MS.gene62392:CDS
ACTACCGAAATTGTTACTAT+CGG 0.574375 8.2:-13811295 None:intergenic
CCCTGCTCCTCCTCTAAGTG+GGG 0.591604 8.2:+13811884 MS.gene62392:CDS
TCACTACAAGTCGGAAAGTG+AGG 0.593331 8.2:+13811704 MS.gene62392:CDS
ATATTGTTTGCCTCAGATGG+CGG 0.593923 8.2:-13811498 None:intergenic
TGAGTATCATAACTGACAGA+AGG 0.596005 8.2:-13811849 None:intergenic
GTCATCACACCCGCCATCTG+AGG 0.607113 8.2:+13811488 MS.gene62392:CDS
GTTACTATCGGCTGATGATG+TGG 0.609878 8.2:-13811283 None:intergenic
TATGGTCCATGTTTATTGTG+GGG 0.620016 8.2:-13811618 None:intergenic
CATATGTCCAAAGTGCAACA+AGG 0.620267 8.2:+13811641 MS.gene62392:CDS
TGTTATCAACAACAACAAGA+TGG 0.620498 8.2:+13811416 MS.gene62392:CDS
TGATCAGTAGAAGCAATGAC+AGG 0.628764 8.2:-13811816 None:intergenic
TGTATCAAGTCACTACAAGT+CGG 0.647352 8.2:+13811695 MS.gene62392:CDS
AGTCTACCCCACAATAAACA+TGG 0.648429 8.2:+13811612 MS.gene62392:CDS
CCCCACTTAGAGGAGGAGCA+GGG 0.660323 8.2:-13811884 None:intergenic
AGGTTGATGAAATGGTTGTG+TGG 0.707031 8.2:+13811249 MS.gene62392:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CATCATCTGATAATAATAAT+AGG + chr8.2:13811388-13811407 MS.gene62392:CDS 20.0%
!! CTATTATTATTATCAGATGA+TGG - chr8.2:13811390-13811409 None:intergenic 20.0%
! AACAATATTGTTGCTACTAA+TGG + chr8.2:13811513-13811532 MS.gene62392:CDS 25.0%
!! AAAGAAGAAATTGTTGATGA+TGG + chr8.2:13811579-13811598 MS.gene62392:CDS 25.0%
ACTACCGAAATTGTTACTAT+CGG - chr8.2:13811298-13811317 None:intergenic 30.0%
CAAATGCTTAAAACACAGTT+TGG + chr8.2:13811345-13811364 MS.gene62392:CDS 30.0%
GAAAAAAGAGATACATGTCT+AGG + chr8.2:13811733-13811752 MS.gene62392:CDS 30.0%
TGTTATCAACAACAACAAGA+TGG + chr8.2:13811416-13811435 MS.gene62392:CDS 30.0%
!!! TTCTTTTTTCCTCTTCATGT+TGG - chr8.2:13811565-13811584 None:intergenic 30.0%
ACAATATTGTTTGCCTCAGA+TGG - chr8.2:13811504-13811523 None:intergenic 35.0%
CAAATAGTACCAACATGAAG+AGG + chr8.2:13811553-13811572 MS.gene62392:CDS 35.0%
GTATGGTCCATGTTTATTGT+GGG - chr8.2:13811622-13811641 None:intergenic 35.0%
TATGGTCCATGTTTATTGTG+GGG - chr8.2:13811621-13811640 None:intergenic 35.0%
TCAGCCGATAGTAACAATTT+CGG + chr8.2:13811291-13811310 MS.gene62392:CDS 35.0%
TGAGTATCATAACTGACAGA+AGG - chr8.2:13811852-13811871 None:intergenic 35.0%
TGTATCAAGTCACTACAAGT+CGG + chr8.2:13811695-13811714 MS.gene62392:CDS 35.0%
TGTATGGTCCATGTTTATTG+TGG - chr8.2:13811623-13811642 None:intergenic 35.0%
TTGCACTTTGGACATATGTA+TGG - chr8.2:13811639-13811658 None:intergenic 35.0%
! CTACTAATGGTGATGAAGTT+CGG + chr8.2:13811526-13811545 MS.gene62392:CDS 35.0%
! TACTAATGGTGATGAAGTTC+GGG + chr8.2:13811527-13811546 MS.gene62392:CDS 35.0%
! TTAACTTTTACCCCACTTAG+AGG - chr8.2:13811897-13811916 None:intergenic 35.0%
!! CAGATTCTAAAGCTCAATGA+TGG + chr8.2:13811777-13811796 MS.gene62392:CDS 35.0%
!! CATCATTGAGCTTTAGAATC+TGG - chr8.2:13811779-13811798 None:intergenic 35.0%
!! GTTCTGATAGGTTGATGAAA+TGG + chr8.2:13811241-13811260 MS.gene62392:CDS 35.0%
!! TGTATTGATTTGATGATGCC+TGG - chr8.2:13811327-13811346 None:intergenic 35.0%
AGTCTACCCCACAATAAACA+TGG + chr8.2:13811612-13811631 MS.gene62392:CDS 40.0%
ATATTGTTTGCCTCAGATGG+CGG - chr8.2:13811501-13811520 None:intergenic 40.0%
CATATGTCCAAAGTGCAACA+AGG + chr8.2:13811641-13811660 MS.gene62392:CDS 40.0%
GCTATTACCTTGTTGCACTT+TGG - chr8.2:13811651-13811670 None:intergenic 40.0%
GTTTATTGTGGGGTAGACTA+TGG - chr8.2:13811611-13811630 None:intergenic 40.0%
TGATCAGTAGAAGCAATGAC+AGG - chr8.2:13811819-13811838 None:intergenic 40.0%
!! AGCTTTAGAATCTGGAGATC+TGG - chr8.2:13811771-13811790 None:intergenic 40.0%
!! AGGTTGATGAAATGGTTGTG+TGG + chr8.2:13811249-13811268 MS.gene62392:CDS 40.0%
AATTTCGGTAGTCATGCTCC+AGG + chr8.2:13811306-13811325 MS.gene62392:CDS 45.0%
TATTGTTTGCCTCAGATGGC+GGG - chr8.2:13811500-13811519 None:intergenic 45.0%
TCACTACAAGTCGGAAAGTG+AGG + chr8.2:13811704-13811723 MS.gene62392:CDS 45.0%
TCTGGAGATCTGGTCTCTTT+CGG - chr8.2:13811761-13811780 None:intergenic 45.0%
! ACTTTTACCCCACTTAGAGG+AGG - chr8.2:13811894-13811913 None:intergenic 45.0%
! GTTACTATCGGCTGATGATG+TGG - chr8.2:13811286-13811305 None:intergenic 45.0%
TACGCTCATCCTGATCTCCT+TGG + chr8.2:13811459-13811478 MS.gene62392:CDS 50.0%
GCTCATCCTGATCTCCTTGG+AGG + chr8.2:13811462-13811481 MS.gene62392:CDS 55.0%
TCCCTGCTCCTCCTCTAAGT+GGG + chr8.2:13811883-13811902 MS.gene62392:CDS 55.0%
ACCCCACTTAGAGGAGGAGC+AGG - chr8.2:13811888-13811907 None:intergenic 60.0%
CCCCACTTAGAGGAGGAGCA+GGG - chr8.2:13811887-13811906 None:intergenic 60.0%
CCCTGCTCCTCCTCTAAGTG+GGG + chr8.2:13811884-13811903 MS.gene62392:CDS 60.0%
GACGAGCCTCCAAGGAGATC+AGG - chr8.2:13811471-13811490 None:intergenic 60.0%
GTCATCACACCCGCCATCTG+AGG + chr8.2:13811488-13811507 MS.gene62392:CDS 60.0%
GTCCCTGCTCCTCCTCTAAG+TGG + chr8.2:13811882-13811901 MS.gene62392:CDS 60.0%
! GGTGTGATGACGAGCCTCCA+AGG - chr8.2:13811479-13811498 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 13811237 13811938 13811237 ID=MS.gene62392
chr8.2 mRNA 13811237 13811938 13811237 ID=MS.gene62392.t1;Parent=MS.gene62392
chr8.2 exon 13811237 13811938 13811237 ID=MS.gene62392.t1.exon1;Parent=MS.gene62392.t1
chr8.2 CDS 13811237 13811938 13811237 ID=cds.MS.gene62392.t1;Parent=MS.gene62392.t1
Gene Sequence

>MS.gene62392

ATGAGTTCTGATAGGTTGATGAAATGGTTGTGTGGCTACAACACAACCACATCATCAGCCGATAGTAACAATTTCGGTAGTCATGCTCCAGGCATCATCAAATCAATACAAATGCTTAAAACACAGTTTGGAAATCTACAAGCATCATCACCATCATCTGATAATAATAATAGGAATGATGTTATCAACAACAACAAGATGGTGTTGAACACTTCTTCTGCTTACGCTCATCCTGATCTCCTTGGAGGCTCGTCATCACACCCGCCATCTGAGGCAAACAATATTGTTGCTACTAATGGTGATGAAGTTCGGGCTTCAAATAGTACCAACATGAAGAGGAAAAAAGAAGAAATTGTTGATGATGGTAGAATCCATAGTCTACCCCACAATAAACATGGACCATACATATGTCCAAAGTGCAACAAGGTAATAGCAACATCACAAAAATTCGCTGCTCATGTATCAAGTCACTACAAGTCGGAAAGTGAGGAAGAAAGAAAAAAGAGATACATGTCTAGGATCCGAAAGAGACCAGATCTCCAGATTCTAAAGCTCAATGATGGAACAACTACTCTTGTTCCTGTCATTGCTTCTACTGATCAGTCACATGCTCCTTCTGTCAGTTATGATACTCAAAATATGAGTGTCCCTGCTCCTCCTCTAAGTGGGGTAAAAGTTAAACATGAGCCTGCTGATAATTAA
Protein sequence

>MS.gene62392.t1

MSSDRLMKWLCGYNTTTSSADSNNFGSHAPGIIKSIQMLKTQFGNLQASSPSSDNNNRNDVINNNKMVLNTSSAYAHPDLLGGSSSHPPSEANNIVATNGDEVRASNSTNMKRKKEEIVDDGRIHSLPHNKHGPYICPKCNKVIATSQKFAAHVSSHYKSESEEERKKRYMSRIRKRPDLQILKLNDGTTTLVPVIASTDQSHAPSVSYDTQNMSVPAPPLSGVKVKHEPADN