AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene31095

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene31095.t1 MTR_5g091135 100.000 178 0 0 1 178 1 178 3.78e-133 370
MS.gene31095.t1 MTR_5g091120 100.000 178 0 0 1 178 1 178 3.78e-133 370
MS.gene31095.t1 MTR_2g098000 100.000 178 0 0 1 178 1 178 3.78e-133 370
MS.gene31095.t1 MTR_3g046320 94.382 178 10 0 1 178 1 178 3.26e-125 350
MS.gene31095.t1 MTR_3g046320 95.402 174 8 0 5 178 3 176 3.08e-124 347
MS.gene31095.t1 MTR_2g019720 62.353 85 32 0 92 176 1 85 1.04e-33 116
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene31095.t1 AT2G34480 90.230 174 17 0 5 178 5 178 2.89e-119 335
MS.gene31095.t1 AT2G34480 90.230 174 17 0 5 178 44 217 3.11e-119 336
MS.gene31095.t1 AT1G29965 87.079 178 23 0 1 178 1 178 1.19e-117 330
MS.gene31095.t1 AT3G14600 87.079 178 23 0 1 178 1 178 4.03e-117 329
MS.gene31095.t1 AT1G29970 89.017 173 19 0 6 178 140 312 1.03e-114 328

Find 48 sgRNAs with CRISPR-Local

Find 100 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACCAATGGGAACTTGATTT+TGG 0.119520 2.4:+5978689 None:intergenic
AGATTAAGAACTATGGAATT+TGG 0.243479 2.4:-5978911 MS.gene31095:CDS
GAAAAGTAATGGACAAGTTT+TGG 0.246012 2.4:-5979643 MS.gene31095:CDS
GTTGGGCTTCTTAGCTTTGT+AGG 0.272211 2.4:+5978626 None:intergenic
ACGAAATGGCATCTCGTCAT+AGG 0.320455 2.4:-5978800 MS.gene31095:CDS
AGATTTATCGCATGAAGCTT+TGG 0.341025 2.4:-5979822 MS.gene31095:CDS
CCTACCAAGATTAAGAACTA+TGG 0.366976 2.4:-5978918 MS.gene31095:CDS
GATTTATCGCATGAAGCTTT+GGG 0.367321 2.4:-5979821 MS.gene31095:CDS
AACTTACCAGAACTTGGATT+TGG 0.367421 2.4:+5979780 None:intergenic
AAGCTTCATGCGATAAATCT+TGG 0.383045 2.4:+5979825 None:intergenic
TCCCAGCTAATCTGTGCAAA+AGG 0.391912 2.4:-5978737 MS.gene31095:CDS
AATTCCATAGTTCTTAATCT+TGG 0.403701 2.4:+5978914 None:intergenic
ATTCACTGAATCACATAAAC+AGG 0.404006 2.4:+5978604 None:intergenic
CATTGGTGTACAAGAAGATT+AGG 0.404454 2.4:-5978674 MS.gene31095:CDS
TGGTGGCTGTCTTAATGATC+TGG 0.405710 2.4:+5978760 None:intergenic
TACCGTGATACTACTCTAAA+CGG 0.448863 2.4:-5978843 MS.gene31095:CDS
ATAAGGAACTTACCAGAACT+TGG 0.449276 2.4:+5979774 None:intergenic
TTCGTGCCAAATCCAAGTTC+TGG 0.468779 2.4:-5979786 MS.gene31095:intron
AGCTTCATGCGATAAATCTT+GGG 0.476384 2.4:+5979826 None:intergenic
CTGAATCACATAAACAGGTT+GGG 0.486125 2.4:+5978609 None:intergenic
CTCTTCCGACAACCTGGTAC+TGG 0.487827 2.4:+5979875 None:intergenic
TTTCTTGAGGAAGTTGAAGA+AGG 0.490067 2.4:-5979670 MS.gene31095:CDS
TAATCTTCTTGTACACCAAT+GGG 0.498182 2.4:+5978676 None:intergenic
TGGCATCTCGTCATAGGGTC+AGG 0.499078 2.4:-5978794 MS.gene31095:CDS
TTGCGTTATCAGAGTCGTAC+TGG 0.505845 2.4:-5978888 MS.gene31095:CDS
AGAAGATTAGGCCTCCTACT+AGG 0.511127 2.4:-5978662 MS.gene31095:CDS
TCCACAGTTTCACCAGTACC+AGG 0.511898 2.4:-5979887 MS.gene31095:intron
AAGAAGGTTAAGAAAAGTAA+TGG 0.518066 2.4:-5979654 MS.gene31095:CDS
TTTGCACAGATTAGCTGGGA+TGG 0.520373 2.4:+5978740 None:intergenic
GGAGACAATGTACAACGAAA+TGG 0.522780 2.4:-5978814 MS.gene31095:CDS
CCCAGCTAATCTGTGCAAAA+GGG 0.524734 2.4:-5978736 MS.gene31095:CDS
AAGAGCACTTCCCACCGAAA+AGG 0.530461 2.4:-5979857 MS.gene31095:CDS
TTTCACCAGTACCAGGTTGT+CGG 0.538716 2.4:-5979880 MS.gene31095:CDS
CTAATCTTCTTGTACACCAA+TGG 0.540589 2.4:+5978675 None:intergenic
CGAAATGGCATCTCGTCATA+GGG 0.541059 2.4:-5978799 MS.gene31095:CDS
CCATAGTTCTTAATCTTGGT+AGG 0.548600 2.4:+5978918 None:intergenic
TCGGAAAATGGTTAACGCTA+AGG 0.552440 2.4:-5979993 None:intergenic
GGATTTGGCACGAACCTCGT+TGG 0.555937 2.4:+5979795 None:intergenic
TTCCAAAATCAAGTTCCCAT+TGG 0.559786 2.4:-5978691 MS.gene31095:CDS
ACTGAATCACATAAACAGGT+TGG 0.563649 2.4:+5978608 None:intergenic
GTCTTAATGATCTGGATGCA+AGG 0.568738 2.4:+5978768 None:intergenic
GAAGTGCTCTTCCGACAACC+TGG 0.588662 2.4:+5979869 None:intergenic
GCACAGATTAGCTGGGATGG+TGG 0.589384 2.4:+5978743 None:intergenic
TGGTTATCACAATATGTACA+AGG 0.613559 2.4:-5978868 MS.gene31095:CDS
TACTACTCTAAACGGTGCTG+TGG 0.650976 2.4:-5978835 MS.gene31095:CDS
ATTGTTGTAGGTATTTCTTG+AGG 0.651477 2.4:-5979683 MS.gene31095:intron
CACCGTTTAGAGTAGTATCA+CGG 0.660256 2.4:+5978841 None:intergenic
GAAGCTTTGGGCAACCAACG+AGG 0.727612 2.4:-5979809 MS.gene31095:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTAATAAATAAATAAATA+AGG + chr2.4:5978846-5978865 None:intergenic 0.0%
!! TTAATAATGTTAATTGTTGT+AGG - chr2.4:5978905-5978924 MS.gene31095:CDS 15.0%
!! AAATCATTGAAATGTCATAT+AGG + chr2.4:5979137-5979156 None:intergenic 20.0%
!! ATTCAAATTTGATACAACTT+AGG - chr2.4:5979020-5979039 MS.gene31095:intron 20.0%
!! GTGGAAACAAAAATTTATAA+CGG + chr2.4:5978698-5978717 None:intergenic 20.0%
!! TGTATCAAATTTGAATTAAG+AGG + chr2.4:5979016-5979035 None:intergenic 20.0%
!! TTGTTGTAACATATCTATTA+AGG - chr2.4:5979362-5979381 MS.gene31095:intron 20.0%
! AAAGATCTGCAATCAAAAAA+AGG + chr2.4:5979653-5979672 None:intergenic 25.0%
! AAGAAGGTTAAGAAAAGTAA+TGG - chr2.4:5978946-5978965 MS.gene31095:intron 25.0%
! AATAGATATGTTACAACAAC+AGG + chr2.4:5979361-5979380 None:intergenic 25.0%
! AATTCCATAGTTCTTAATCT+TGG + chr2.4:5979689-5979708 None:intergenic 25.0%
! AGATTAAGAACTATGGAATT+TGG - chr2.4:5979689-5979708 MS.gene31095:intron 25.0%
! CAATTATTCTAGGCAAAATA+AGG - chr2.4:5979524-5979543 MS.gene31095:intron 25.0%
! CGTATTGTTTCAATTATTCT+AGG - chr2.4:5979514-5979533 MS.gene31095:intron 25.0%
AATTGTGGTGAAAGAATATG+TGG - chr2.4:5979549-5979568 MS.gene31095:intron 30.0%
ATAACAACTAAAGCAAACAC+AGG + chr2.4:5979586-5979605 None:intergenic 30.0%
ATTGTTGTAGGTATTTCTTG+AGG - chr2.4:5978917-5978936 MS.gene31095:CDS 30.0%
TAACAACTAAAGCAAACACA+GGG + chr2.4:5979585-5979604 None:intergenic 30.0%
TAATCTTCTTGTACACCAAT+GGG + chr2.4:5979927-5979946 None:intergenic 30.0%
TGGTTATCACAATATGTACA+AGG - chr2.4:5979732-5979751 MS.gene31095:intron 30.0%
TTATGTCAAAATCCAAACAC+AGG - chr2.4:5979332-5979351 MS.gene31095:intron 30.0%
!! TGACTTGTTTGAAAGTACTT+TGG - chr2.4:5979193-5979212 MS.gene31095:intron 30.0%
!! TGTTTGAAAGTACTTTGGTT+GGG - chr2.4:5979198-5979217 MS.gene31095:intron 30.0%
!! TTGTTTGAAAGTACTTTGGT+TGG - chr2.4:5979197-5979216 MS.gene31095:intron 30.0%
!!! GAAAAGTAATGGACAAGTTT+TGG - chr2.4:5978957-5978976 MS.gene31095:intron 30.0%
!!! TAGCTTTGTAGGTTGTTTTT+AGG + chr2.4:5979966-5979985 None:intergenic 30.0%
AACTTACCAGAACTTGGATT+TGG + chr2.4:5978823-5978842 None:intergenic 35.0%
AAGCTTCATGCGATAAATCT+TGG + chr2.4:5978778-5978797 None:intergenic 35.0%
ACAAGTCATAAACTGTATCG+TGG + chr2.4:5979181-5979200 None:intergenic 35.0%
ACAGCTTACTCTCAAATGTT+TGG + chr2.4:5979296-5979315 None:intergenic 35.0%
AGATTTATCGCATGAAGCTT+TGG - chr2.4:5978778-5978797 MS.gene31095:CDS 35.0%
AGCTTCATGCGATAAATCTT+GGG + chr2.4:5978777-5978796 None:intergenic 35.0%
AGGCAAAATAAGGCTAATTG+TGG - chr2.4:5979534-5979553 MS.gene31095:intron 35.0%
ATAAGGAACTTACCAGAACT+TGG + chr2.4:5978829-5978848 None:intergenic 35.0%
CATTGGTGTACAAGAAGATT+AGG - chr2.4:5979926-5979945 MS.gene31095:intron 35.0%
CCATAGTTCTTAATCTTGGT+AGG + chr2.4:5979685-5979704 None:intergenic 35.0%
CCTACCAAGATTAAGAACTA+TGG - chr2.4:5979682-5979701 MS.gene31095:intron 35.0%
CTAATCTTCTTGTACACCAA+TGG + chr2.4:5979928-5979947 None:intergenic 35.0%
GATTTATCGCATGAAGCTTT+GGG - chr2.4:5978779-5978798 MS.gene31095:CDS 35.0%
TACCGTGATACTACTCTAAA+CGG - chr2.4:5979757-5979776 MS.gene31095:intron 35.0%
TCAGCTATGAAATTAGTCAC+TGG + chr2.4:5979464-5979483 None:intergenic 35.0%
TCATAAACTGTATCGTGGAA+TGG + chr2.4:5979176-5979195 None:intergenic 35.0%
TCCAAAAAGACTGCAATTGA+AGG + chr2.4:5979613-5979632 None:intergenic 35.0%
TGTCTTGAGTATTTCCTAGA+GGG - chr2.4:5979425-5979444 MS.gene31095:intron 35.0%
TTCCAAAATCAAGTTCCCAT+TGG - chr2.4:5979909-5979928 MS.gene31095:intron 35.0%
TTTCTTGAGGAAGTTGAAGA+AGG - chr2.4:5978930-5978949 MS.gene31095:CDS 35.0%
! AAAGTACTTTGGTTGGGAAA+GGG - chr2.4:5979204-5979223 MS.gene31095:intron 35.0%
! ACCTTCAATTGCAGTCTTTT+TGG - chr2.4:5979609-5979628 MS.gene31095:intron 35.0%
! ATTGCAGTCTTTTTGGACAT+AGG - chr2.4:5979616-5979635 MS.gene31095:intron 35.0%
! TTGCAGTCTTTTTGGACATA+GGG - chr2.4:5979617-5979636 MS.gene31095:intron 35.0%
! TTTTTGGACATAGGGGTTTA+TGG - chr2.4:5979625-5979644 MS.gene31095:intron 35.0%
!!! ACAAGTTTTGGCTATCAATG+AGG - chr2.4:5978969-5978988 MS.gene31095:intron 35.0%
!!! GGAACTTGATTTTGGAATTG+TGG + chr2.4:5979906-5979925 None:intergenic 35.0%
!!! GTTCTGTTTTGATTAGTGCT+GGG - chr2.4:5979230-5979249 MS.gene31095:intron 35.0%
!!! TGTTCTGTTTTGATTAGTGC+TGG - chr2.4:5979229-5979248 MS.gene31095:intron 35.0%
AACAACAGGTTACCTGTGTT+TGG + chr2.4:5979347-5979366 None:intergenic 40.0%
AATACCGAACAAGTGCTTCT+AGG + chr2.4:5979093-5979112 None:intergenic 40.0%
ATACCGAACAAGTGCTTCTA+GGG + chr2.4:5979092-5979111 None:intergenic 40.0%
CTGTCTTGAGTATTTCCTAG+AGG - chr2.4:5979424-5979443 MS.gene31095:intron 40.0%
GATACAACTTAGGCTGTGTT+TGG - chr2.4:5979030-5979049 MS.gene31095:intron 40.0%
GGAGACAATGTACAACGAAA+TGG - chr2.4:5979786-5979805 MS.gene31095:intron 40.0%
GGTGAAAGAATATGTGGAGT+AGG - chr2.4:5979555-5979574 MS.gene31095:intron 40.0%
GTCTTAATGATCTGGATGCA+AGG + chr2.4:5979835-5979854 None:intergenic 40.0%
GTTTCATGCTAAAACCCTCT+AGG + chr2.4:5979442-5979461 None:intergenic 40.0%
! CACCAATGGGAACTTGATTT+TGG + chr2.4:5979914-5979933 None:intergenic 40.0%
! CACCGTTTAGAGTAGTATCA+CGG + chr2.4:5979762-5979781 None:intergenic 40.0%
! CTCTAGGAAATACTCAAGAC+AGG + chr2.4:5979426-5979445 None:intergenic 40.0%
! CTTGGGATGTTCATCCTTTT+CGG + chr2.4:5978760-5978779 None:intergenic 40.0%
! TGCAGTCTTTTTGGACATAG+GGG - chr2.4:5979618-5979637 MS.gene31095:intron 40.0%
!! GAAAGTACTTTGGTTGGGAA+AGG - chr2.4:5979203-5979222 MS.gene31095:intron 40.0%
!!! GTTGTTTTTAGGCTCCTAGT+AGG + chr2.4:5979955-5979974 None:intergenic 40.0%
ACGAAATGGCATCTCGTCAT+AGG - chr2.4:5979800-5979819 MS.gene31095:CDS 45.0%
AGAAGATTAGGCCTCCTACT+AGG - chr2.4:5979938-5979957 MS.gene31095:intron 45.0%
CCCAGCTAATCTGTGCAAAA+GGG - chr2.4:5979864-5979883 MS.gene31095:CDS 45.0%
CGAAATGGCATCTCGTCATA+GGG - chr2.4:5979801-5979820 MS.gene31095:CDS 45.0%
GGCAAACAGTGACAGTTTGA+AGG + chr2.4:5979405-5979424 None:intergenic 45.0%
TACCGAACAAGTGCTTCTAG+GGG + chr2.4:5979091-5979110 None:intergenic 45.0%
TCCCAGCTAATCTGTGCAAA+AGG - chr2.4:5979863-5979882 MS.gene31095:CDS 45.0%
TGGTGGCTGTCTTAATGATC+TGG + chr2.4:5979843-5979862 None:intergenic 45.0%
TTCGTGCCAAATCCAAGTTC+TGG - chr2.4:5978814-5978833 MS.gene31095:CDS 45.0%
TTGCGTTATCAGAGTCGTAC+TGG - chr2.4:5979712-5979731 MS.gene31095:intron 45.0%
TTTCACCAGTACCAGGTTGT+CGG - chr2.4:5978720-5978739 MS.gene31095:CDS 45.0%
! GGATGTTCATCCTTTTCGGT+GGG + chr2.4:5978756-5978775 None:intergenic 45.0%
! TACTACTCTAAACGGTGCTG+TGG - chr2.4:5979765-5979784 MS.gene31095:intron 45.0%
! TCCCTTTTGCACAGATTAGC+TGG + chr2.4:5979868-5979887 None:intergenic 45.0%
! TTTGCACAGATTAGCTGGGA+TGG + chr2.4:5979863-5979882 None:intergenic 45.0%
!! CCCTTTTGCACAGATTAGCT+GGG + chr2.4:5979867-5979886 None:intergenic 45.0%
!! GTTGGGCTTCTTAGCTTTGT+AGG + chr2.4:5979977-5979996 None:intergenic 45.0%
!! GTTTTTAGGCTCCTAGTAGG+AGG + chr2.4:5979952-5979971 None:intergenic 45.0%
TCCACAGTTTCACCAGTACC+AGG - chr2.4:5978713-5978732 MS.gene31095:CDS 50.0%
! GGGATGTTCATCCTTTTCGG+TGG + chr2.4:5978757-5978776 None:intergenic 50.0%
!! AAGAGCACTTCCCACCGAAA+AGG - chr2.4:5978743-5978762 MS.gene31095:CDS 50.0%
!! ACCTGGTACTGGTGAAACTG+TGG + chr2.4:5978717-5978736 None:intergenic 50.0%
!! GACCCCTAGAAGCACTTGTT+CGG - chr2.4:5979086-5979105 MS.gene31095:intron 50.0%
CTCTTCCGACAACCTGGTAC+TGG + chr2.4:5978728-5978747 None:intergenic 55.0%
GGATTTGGCACGAACCTCGT+TGG + chr2.4:5978808-5978827 None:intergenic 55.0%
TGGCATCTCGTCATAGGGTC+AGG - chr2.4:5979806-5979825 MS.gene31095:CDS 55.0%
! GAAGTGCTCTTCCGACAACC+TGG + chr2.4:5978734-5978753 None:intergenic 55.0%
! GCACAGATTAGCTGGGATGG+TGG + chr2.4:5979860-5979879 None:intergenic 55.0%
!! GAAGCTTTGGGCAACCAACG+AGG - chr2.4:5978791-5978810 MS.gene31095:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 5978614 5980008 5978614 ID=MS.gene31095
chr2.4 mRNA 5978614 5980008 5978614 ID=MS.gene31095.t1;Parent=MS.gene31095
chr2.4 exon 5979994 5980008 5979994 ID=MS.gene31095.t1.exon1;Parent=MS.gene31095.t1
chr2.4 CDS 5979994 5980008 5979994 ID=cds.MS.gene31095.t1;Parent=MS.gene31095.t1
chr2.4 exon 5979787 5979902 5979787 ID=MS.gene31095.t1.exon2;Parent=MS.gene31095.t1
chr2.4 CDS 5979787 5979902 5979787 ID=cds.MS.gene31095.t1;Parent=MS.gene31095.t1
chr2.4 exon 5979632 5979695 5979632 ID=MS.gene31095.t1.exon3;Parent=MS.gene31095.t1
chr2.4 CDS 5979632 5979695 5979632 ID=cds.MS.gene31095.t1;Parent=MS.gene31095.t1
chr2.4 exon 5978614 5978955 5978614 ID=MS.gene31095.t1.exon4;Parent=MS.gene31095.t1
chr2.4 CDS 5978614 5978955 5978614 ID=cds.MS.gene31095.t1;Parent=MS.gene31095.t1
Gene Sequence

>MS.gene31095

ATGGTTAACGCTAAGGTTAATTAATCGTTTAATTTTCTTCATCAGTGTGATTTTTTAGTTTTTTGTGTGTGAATCTTAACACCGTTATAAATTTTTGTTTCCACAGTTTCACCAGTACCAGGTTGTCGGAAGAGCACTTCCCACCGAAAAGGATGAACATCCCAAGATTTATCGCATGAAGCTTTGGGCAACCAACGAGGTTCGTGCCAAATCCAAGTTCTGGTAAGTTCCTTATTTATTTATTTATTAATTAACAAATTTTAATATTATCAAATTTTATTAATTGTGTTTTTAATAATGTTAATTGTTGTAGGTATTTCTTGAGGAAGTTGAAGAAGGTTAAGAAAAGTAATGGACAAGTTTTGGCTATCAATGAGGTATGCACATTCATTTATTCTACCTCTTAATTCAAATTTGATACAACTTAGGCTGTGTTTGGATTCGACTTATCAACAGCTTATTTGTATTTATCGACCCCTAGAAGCACTTGTTCGGTATTTTGTGATTCTAAATAGAACAACCTATATGACATTTCAATGATTTTAACTGATTTTGATTACCATTCCACGATACAGTTTATGACTTGTTTGAAAGTACTTTGGTTGGGAAAGGGCTTGTTCTGTTTTGATTAGTGCTGGGATAAAATTTGCTCTGTTTACTTGTTTTGAGAAGTCTTTGACCAAACATTTGAGAGTAAGCTGTTTTGATTGAAGTTGAATTATGTCAAAATCCAAACACAGGTAACCTGTTGTTGTAACATATCTATTAAGGAATTTTTCAAGTTTTTTCCTTCAAACTGTCACTGTTTGCCTGTCTTGAGTATTTCCTAGAGGGTTTTAGCATGAAACCAGTGACTAATTTCATAGCTGAACTTGAAAATTATGCTCATTTTTTTAATAGCGTATTGTTTCAATTATTCTAGGCAAAATAAGGCTAATTGTGGTGAAAGAATATGTGGAGTAGGATTTCCCTGTGTTTGCTTTAGTTGTTATTTTACCTTCAATTGCAGTCTTTTTGGACATAGGGGTTTATGGTACCTTTTTTTGATTGCAGATCTTTGAGAAAAATCCTACCAAGATTAAGAACTATGGAATTTGGTTGCGTTATCAGAGTCGTACTGGTTATCACAATATGTACAAGGAATACCGTGATACTACTCTAAACGGTGCTGTGGAGACAATGTACAACGAAATGGCATCTCGTCATAGGGTCAGGTTTCCTTGCATCCAGATCATTAAGACAGCCACCATCCCAGCTAATCTGTGCAAAAGGGAGAGCACTAAGCAGTTCCACAATTCCAAAATCAAGTTCCCATTGGTGTACAAGAAGATTAGGCCTCCTACTAGGAGCCTAAAAACAACCTACAAAGCTAAGAAGCCCAACCTGTTTATGTGA
Protein sequence

>MS.gene31095.t1

MVNAKFHQYQVVGRALPTEKDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQVLAINEIFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVETMYNEMASRHRVRFPCIQIIKTATIPANLCKRESTKQFHNSKIKFPLVYKKIRPPTRSLKTTYKAKKPNLFM