AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene66656


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene66656.t1 MTR_4g051538 88.511 235 26 1 1 235 1 234 3.93e-142 397
MS.gene66656.t1 MTR_3g104630 51.969 127 49 3 106 220 16 142 1.48e-30 110
MS.gene66656.t1 MTR_1g012570 28.910 211 124 7 1 192 1 204 7.70e-19 82.4
MS.gene66656.t1 MTR_8g043650 35.766 137 75 4 1 126 1 135 4.69e-18 80.5
MS.gene66656.t1 MTR_1g105910 34.783 138 75 3 1 126 1 135 1.87e-17 79.0
MS.gene66656.t1 MTR_1g108510 30.675 163 101 3 1 151 1 163 1.87e-17 78.6
MS.gene66656.t1 MTR_3g052920 36.170 141 72 4 1 127 1 137 2.14e-17 78.6
MS.gene66656.t1 MTR_3g030770 30.675 163 101 3 1 151 1 163 3.40e-17 77.8
MS.gene66656.t1 MTR_2g085250 30.435 138 87 2 1 129 1 138 3.82e-17 77.8
MS.gene66656.t1 MTR_2g085280 30.435 138 87 2 1 129 1 138 3.98e-17 77.8
MS.gene66656.t1 MTR_8g086290 31.677 161 92 3 4 151 7 162 4.77e-17 76.3
MS.gene66656.t1 MTR_1g105920 34.058 138 76 3 1 126 1 135 6.49e-17 77.4
MS.gene66656.t1 MTR_1g108580 32.258 155 93 4 1 143 1 155 8.27e-17 77.0
MS.gene66656.t1 MTR_1g106070 35.766 137 76 4 1 126 1 136 9.07e-17 75.9
MS.gene66656.t1 MTR_3g052870 43.902 82 46 0 1 82 1 82 1.12e-16 76.3
MS.gene66656.t1 MTR_2g030740 34.074 135 80 2 1 126 1 135 1.51e-16 76.3
MS.gene66656.t1 MTR_3g080940 45.122 82 45 0 1 82 1 82 1.55e-16 75.9
MS.gene66656.t1 MTR_1g077360 42.683 82 47 0 1 82 1 82 2.12e-16 75.9
MS.gene66656.t1 MTR_5g053390 39.773 88 53 0 1 88 1 88 6.80e-16 74.7
MS.gene66656.t1 MTR_5g055100 27.320 194 115 7 1 181 1 181 9.13e-16 74.3
MS.gene66656.t1 MTR_2g105290 29.747 158 99 4 4 151 7 162 2.01e-15 72.0
MS.gene66656.t1 MTR_5g045560 42.857 77 44 0 1 77 1 77 5.09e-15 72.0
MS.gene66656.t1 MTR_0121s0100 38.961 77 47 0 1 77 1 77 8.56e-15 69.3
MS.gene66656.t1 MTR_2g093190 43.056 72 41 0 1 72 1 72 9.33e-15 71.2
MS.gene66656.t1 MTR_1g075600 39.024 82 50 0 1 82 1 82 2.09e-14 70.5
MS.gene66656.t1 MTR_3g030780 41.667 72 42 0 1 72 1 72 3.39e-14 67.8
MS.gene66656.t1 MTR_4g094638 40.278 72 43 0 9 80 2 73 5.87e-14 68.2
MS.gene66656.t1 MTR_0121s0080 25.481 208 135 6 1 192 1 204 6.66e-14 68.9
MS.gene66656.t1 MTR_4g094632 40.580 69 41 0 9 77 2 70 1.42e-12 63.9
MS.gene66656.t1 MTR_8g046350 28.947 114 68 2 9 116 2 108 7.63e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene66656.t1 AT4G36590 48.529 68 35 0 5 72 3 70 7.06e-17 77.4
MS.gene66656.t1 AT2G34440 35.659 129 75 4 9 130 2 129 4.77e-16 73.6
MS.gene66656.t1 AT1G29962 43.836 73 41 0 5 77 4 76 4.42e-15 71.2
MS.gene66656.t1 AT2G24840 42.500 80 46 0 7 86 61 140 4.47e-15 72.8
MS.gene66656.t1 AT5G60440 31.724 145 86 4 5 148 3 135 1.13e-14 72.0
MS.gene66656.t1 AT1G28460 42.466 73 42 0 5 77 4 76 7.01e-13 65.5
MS.gene66656.t1 AT1G01530 33.645 107 67 1 5 107 3 109 7.76e-13 66.2
MS.gene66656.t1 AT3G04100 36.782 87 52 1 2 88 7 90 4.05e-12 63.5
MS.gene66656.t1 AT1G65360 39.062 64 39 0 5 68 3 66 3.57e-11 61.2
MS.gene66656.t1 AT3G66656 40.000 65 39 0 9 73 2 66 4.77e-11 60.1

Find 41 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGAGTTAACAACACTTTC+AGG 0.202264 4.3:-48765061 MS.gene66656:CDS
TTGAAGAAGTTGGAAAGTTC+TGG 0.270990 4.3:-48764830 MS.gene66656:CDS
TGCACCAACTTCATGATCTT+TGG 0.281401 4.3:+48764499 None:intergenic
ACACAAGGAGTCAACCTTAT+TGG 0.301989 4.3:-48764123 MS.gene66656:CDS
TTTCTTTCACTTGATCATAT+TGG 0.302433 4.3:+48764786 None:intergenic
ATAACCAATGTCTTGAAAAC+TGG 0.328346 4.3:-48764728 MS.gene66656:CDS
ATCATTTCCTCTTCCATTGA+AGG 0.330256 4.3:+48764935 None:intergenic
CTTATTGGTGTAAGCGGAAT+AGG 0.333563 4.3:-48764108 MS.gene66656:CDS
CTTCTACCATGTCATATATC+TGG 0.335672 4.3:+48764057 None:intergenic
CTATTCCGCTTACACCAATA+AGG 0.352863 4.3:+48764109 None:intergenic
AAATTATCCTTATGTCTTTG+AGG 0.373229 4.3:-48764528 MS.gene66656:CDS
AGTTGGAAAGTTCTGGATAT+TGG 0.382288 4.3:-48764823 MS.gene66656:CDS
ATTCTCTTGCTTTCTCCAAC+GGG 0.393965 4.3:-48765025 MS.gene66656:CDS
TTTGTTATAGATTCAGAAGA+TGG 0.410640 4.3:+48764980 None:intergenic
TTTATTTGCGACAGCAACTA+AGG 0.428054 4.3:+48764754 None:intergenic
GGAAGAGGAAATGATGAAAC+CGG 0.442189 4.3:-48764927 MS.gene66656:CDS
GCATTTACAACGAGAAAGTC+TGG 0.455029 4.3:-48765100 MS.gene66656:CDS
GTGTTGTCCTCAAAGACATA+AGG 0.455692 4.3:+48764521 None:intergenic
CGTAGCAATTTCTACCATTG+AGG 0.467584 4.3:-48764570 MS.gene66656:intron
GACTCCATTCAGTTCCTCAA+TGG 0.472764 4.3:+48764556 None:intergenic
GGTGTAAGCGGAATAGGATA+TGG 0.475102 4.3:-48764102 MS.gene66656:CDS
CTGAGTTAACAACACTTTCA+GGG 0.482866 4.3:-48765060 MS.gene66656:CDS
TATTCTCTTGCTTTCTCCAA+CGG 0.500144 4.3:-48765026 MS.gene66656:CDS
TGGAAATCCTTCAATGGAAG+AGG 0.510231 4.3:-48764942 MS.gene66656:CDS
TGATCCAAAAGGTAAAGGTA+TGG 0.511773 4.3:-48764181 MS.gene66656:intron
GAAGGATGGAAATCCTTCAA+TGG 0.512169 4.3:-48764948 MS.gene66656:CDS
TCTACCATTGAGGAACTGAA+TGG 0.512244 4.3:-48764560 MS.gene66656:CDS
TGGATATTGGTCGATAAAAG+AGG 0.555067 4.3:-48764810 MS.gene66656:CDS
AACACCAAAGATCATGAAGT+TGG 0.566706 4.3:-48764503 MS.gene66656:CDS
GTCAACCTTATTGGTGTAAG+CGG 0.584588 4.3:-48764114 MS.gene66656:CDS
ACCAATGTCTTGAAAACTGG+AGG 0.591573 4.3:-48764725 MS.gene66656:CDS
AGCGGAATAGGATATGGAAG+TGG 0.601533 4.3:-48764096 MS.gene66656:CDS
TGAGTTAACAACACTTTCAG+GGG 0.607847 4.3:-48765059 MS.gene66656:CDS
GGATATTGGTCGATAAAAGA+GGG 0.624448 4.3:-48764809 MS.gene66656:CDS
GGAGGAGAGATTGACCCTCA+TGG 0.634950 4.3:-48764707 MS.gene66656:intron
GAGTAAGAATGGCGTCGAAG+AGG 0.640220 4.3:-48765186 None:intergenic
TGAAAGTGTTGTTAACTCAG+AGG 0.669188 4.3:+48765063 None:intergenic
GCGTCGAAGAGGTCATCAAG+AGG 0.671296 4.3:-48765175 MS.gene66656:CDS
AAGATGTACACATACCATGA+GGG 0.689701 4.3:+48764693 None:intergenic
AAGCAAGAGAATATCAACTG+AGG 0.711866 4.3:+48765036 None:intergenic
AAAGTCTGGAATTTACAACA+AGG 0.757794 4.3:-48765086 MS.gene66656:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAATTGAATCAATGAA+AGG + chr4.3:48765046-48765065 None:intergenic 15.0%
!! ATTGAAAAAAATTGAGAAAA+AGG - chr4.3:48764109-48764128 MS.gene66656:CDS 15.0%
!! CTTAAAATAATTAGGTAAAA+AGG + chr4.3:48764636-48764655 None:intergenic 15.0%
!! ACATAAAAATTTGAAGAAGT+TGG - chr4.3:48764406-48764425 MS.gene66656:intron 20.0%
!! CAATACATGATATATATGTT+AGG + chr4.3:48765018-48765037 None:intergenic 20.0%
!! CAGATTCACTTAAAATAATT+AGG + chr4.3:48764644-48764663 None:intergenic 20.0%
!! TATTACTTGAAATATTCTAG+CGG - chr4.3:48764805-48764824 MS.gene66656:CDS 20.0%
!!! ACTTCTTCAAATTTTTATGT+TGG + chr4.3:48764406-48764425 None:intergenic 20.0%
!!! CTAATTATTTTAAGTGAATC+TGG - chr4.3:48764642-48764661 MS.gene66656:intron 20.0%
!!! CTTCTTCAAATTTTTATGTT+GGG + chr4.3:48764405-48764424 None:intergenic 20.0%
!!! TATAACAAAAACTAGTTTGA+AGG - chr4.3:48764280-48764299 MS.gene66656:intron 20.0%
!!! TGAAAAAAATGATGATCTTT+TGG - chr4.3:48764358-48764377 MS.gene66656:intron 20.0%
!!! TTCAATTTTTTTGATCCAAA+AGG - chr4.3:48765054-48765073 MS.gene66656:CDS 20.0%
! AAATTATCCTTATGTCTTTG+AGG - chr4.3:48764718-48764737 MS.gene66656:CDS 25.0%
! ATAGCTACAAAAAAAACACA+AGG - chr4.3:48765108-48765127 MS.gene66656:CDS 25.0%
! TCTTCTTAATTTCCATTACT+AGG - chr4.3:48764955-48764974 MS.gene66656:CDS 25.0%
! TTTCTTTCACTTGATCATAT+TGG + chr4.3:48764463-48764482 None:intergenic 25.0%
!! TTTGTTATAGATTCAGAAGA+TGG + chr4.3:48764269-48764288 None:intergenic 25.0%
!!! TTTTTTGATCCAAAAGGTAA+AGG - chr4.3:48765060-48765079 MS.gene66656:CDS 25.0%
AAAGGATGACATGAAATCAT+TGG + chr4.3:48764618-48764637 None:intergenic 30.0%
ATAACCAATGTCTTGAAAAC+TGG - chr4.3:48764518-48764537 MS.gene66656:CDS 30.0%
! AAAGTCTGGAATTTACAACA+AGG - chr4.3:48764160-48764179 MS.gene66656:CDS 30.0%
! ACAAAAACTAGTTTGAAGGA+TGG - chr4.3:48764284-48764303 MS.gene66656:intron 30.0%
! GATGGTTTTCCATAACAAAA+TGG + chr4.3:48764251-48764270 None:intergenic 30.0%
! TCATTTTGCTCTATAATCTC+CGG + chr4.3:48764341-48764360 None:intergenic 30.0%
! TTTGGATAAAAAGCATGTTG+CGG - chr4.3:48764376-48764395 MS.gene66656:intron 30.0%
! TTTTAGACAAGAGATGTTGT+TGG - chr4.3:48764847-48764866 MS.gene66656:CDS 30.0%
!! ACCATTTAAGTTGCACTTAT+GGG - chr4.3:48764914-48764933 MS.gene66656:CDS 30.0%
!! TACCATTTAAGTTGCACTTA+TGG - chr4.3:48764913-48764932 MS.gene66656:CDS 30.0%
AACACCAAAGATCATGAAGT+TGG - chr4.3:48764743-48764762 MS.gene66656:CDS 35.0%
AAGATGTACACATACCATGA+GGG + chr4.3:48764556-48764575 None:intergenic 35.0%
AAGCAAGAGAATATCAACTG+AGG + chr4.3:48764213-48764232 None:intergenic 35.0%
AATGTTTGCATGCCTAGTAA+TGG + chr4.3:48764970-48764989 None:intergenic 35.0%
ATCATTTCCTCTTCCATTGA+AGG + chr4.3:48764314-48764333 None:intergenic 35.0%
CTGAGTTAACAACACTTTCA+GGG - chr4.3:48764186-48764205 MS.gene66656:intron 35.0%
GGATATTGGTCGATAAAAGA+GGG - chr4.3:48764437-48764456 MS.gene66656:intron 35.0%
TATTCTCTTGCTTTCTCCAA+CGG - chr4.3:48764220-48764239 MS.gene66656:intron 35.0%
TCCCATAAGTGCAACTTAAA+TGG + chr4.3:48764918-48764937 None:intergenic 35.0%
TCTGAGTTAACAACACTTTC+AGG - chr4.3:48764185-48764204 MS.gene66656:intron 35.0%
TGAGTTAACAACACTTTCAG+GGG - chr4.3:48764187-48764206 MS.gene66656:intron 35.0%
TGATCCAAAAGGTAAAGGTA+TGG - chr4.3:48765065-48765084 MS.gene66656:CDS 35.0%
TGGATATTGGTCGATAAAAG+AGG - chr4.3:48764436-48764455 MS.gene66656:intron 35.0%
TTGAAGAAGTTGGAAAGTTC+TGG - chr4.3:48764416-48764435 MS.gene66656:intron 35.0%
TTTATTTGCGACAGCAACTA+AGG + chr4.3:48764495-48764514 None:intergenic 35.0%
! ACGGGAAAACCATTTTGTTA+TGG - chr4.3:48764239-48764258 MS.gene66656:intron 35.0%
! TAACAAAATGGTTTTCCCGT+TGG + chr4.3:48764239-48764258 None:intergenic 35.0%
!! AGTTGGAAAGTTCTGGATAT+TGG - chr4.3:48764423-48764442 MS.gene66656:intron 35.0%
!! TGAAAGTGTTGTTAACTCAG+AGG + chr4.3:48764186-48764205 None:intergenic 35.0%
ACACAAGGAGTCAACCTTAT+TGG - chr4.3:48765123-48765142 MS.gene66656:CDS 40.0%
ACCAATGTCTTGAAAACTGG+AGG - chr4.3:48764521-48764540 MS.gene66656:CDS 40.0%
ATTCTCTTGCTTTCTCCAAC+GGG - chr4.3:48764221-48764240 MS.gene66656:intron 40.0%
CGTAGCAATTTCTACCATTG+AGG - chr4.3:48764676-48764695 MS.gene66656:intron 40.0%
CTATTCCGCTTACACCAATA+AGG + chr4.3:48765140-48765159 None:intergenic 40.0%
CTTATTGGTGTAAGCGGAAT+AGG - chr4.3:48765138-48765157 MS.gene66656:CDS 40.0%
GAAGATGTACACATACCATG+AGG + chr4.3:48764557-48764576 None:intergenic 40.0%
GAAGGATGGAAATCCTTCAA+TGG - chr4.3:48764298-48764317 MS.gene66656:intron 40.0%
GCATTTACAACGAGAAAGTC+TGG - chr4.3:48764146-48764165 MS.gene66656:CDS 40.0%
GGAAGAGGAAATGATGAAAC+CGG - chr4.3:48764319-48764338 MS.gene66656:intron 40.0%
GTCAACCTTATTGGTGTAAG+CGG - chr4.3:48765132-48765151 MS.gene66656:CDS 40.0%
GTGTTGTCCTCAAAGACATA+AGG + chr4.3:48764728-48764747 None:intergenic 40.0%
TCTACCATTGAGGAACTGAA+TGG - chr4.3:48764686-48764705 MS.gene66656:intron 40.0%
TGCACCAACTTCATGATCTT+TGG + chr4.3:48764750-48764769 None:intergenic 40.0%
TGGAAATCCTTCAATGGAAG+AGG - chr4.3:48764304-48764323 MS.gene66656:intron 40.0%
! GCAACCATACCTTTACCTTT+TGG + chr4.3:48765072-48765091 None:intergenic 40.0%
!! TCCTCCAGTTTTCAAGACAT+TGG + chr4.3:48764525-48764544 None:intergenic 40.0%
AGCGGAATAGGATATGGAAG+TGG - chr4.3:48765150-48765169 MS.gene66656:CDS 45.0%
GACTCCATTCAGTTCCTCAA+TGG + chr4.3:48764693-48764712 None:intergenic 45.0%
GGTGTAAGCGGAATAGGATA+TGG - chr4.3:48765144-48765163 MS.gene66656:CDS 45.0%
GCGTCGAAGAGGTCATCAAG+AGG - chr4.3:48764071-48764090 MS.gene66656:CDS 55.0%
GGAGGAGAGATTGACCCTCA+TGG - chr4.3:48764539-48764558 MS.gene66656:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 48764068 48765200 48764068 ID=MS.gene66656
chr4.3 mRNA 48764068 48765200 48764068 ID=MS.gene66656.t1;Parent=MS.gene66656
chr4.3 exon 48764708 48765200 48764708 ID=MS.gene66656.t1.exon1;Parent=MS.gene66656.t1
chr4.3 CDS 48764708 48765200 48764708 ID=cds.MS.gene66656.t1;Parent=MS.gene66656.t1
chr4.3 exon 48764498 48764587 48764498 ID=MS.gene66656.t1.exon2;Parent=MS.gene66656.t1
chr4.3 CDS 48764498 48764587 48764498 ID=cds.MS.gene66656.t1;Parent=MS.gene66656.t1
chr4.3 exon 48764068 48764192 48764068 ID=MS.gene66656.t1.exon3;Parent=MS.gene66656.t1
chr4.3 CDS 48764068 48764192 48764068 ID=cds.MS.gene66656.t1;Parent=MS.gene66656.t1
Gene Sequence

>MS.gene66656

ATGGCGTCGAAGAGGTCATCAAGAGGAAAACAAAAAATTGAATTGAAAAAAATTGAGAAAAAGGATGATCTCTTTGTTGCATTTACAACGAGAAAGTCTGGAATTTACAACAAGGCCTCTGAGTTAACAACACTTTCAGGGGCCTCAGTTGATATTCTCTTGCTTTCTCCAACGGGAAAACCATTTTGTTATGGAAAACCATCTTCTGAATCTATAACAAAAACTAGTTTGAAGGATGGAAATCCTTCAATGGAAGAGGAAATGATGAAACCGGAGATTATAGAGCAAAATGAAAAAAATGATGATCTTTTGGATAAAAAGCATGTTGCGGAAGCCCAACATAAAAATTTGAAGAAGTTGGAAAGTTCTGGATATTGGTCGATAAAAGAGGGCCAATATGATCAAGTGAAAGAAATTGACAAATCCTTAGTTGCTGTCGCAAATAAATTGATAACCAATGTCTTGAAAACTGGAGGAGAGATTGACCCTCATGGTATGTGTACATCTTCTAACTAACTATGTGTTATATTTGATCTATTAATGACGTCCAATGATTTCATGTCATCCTTTTTACCTAATTATTTTAAGTGAATCTGGTTATAATTTTTCGTAGCAATTTCTACCATTGAGGAACTGAATGGAGTCAAAACAAATTATCCTTATGTCTTTGAGGACAACACCAAAGATCATGAAGTTGGTGCAAGTAAGAATTCTCATTCATGTTTTTAATTTTTTTTTATTACTTGAAATATTCTAGCGGCGACACTCACACATTAAACTTTTAGACAAGAGATGTTGTTGGATAATCATGTCTCAACACATCAAATATCTCTGTATAAAACTTTTACCATTTAAGTTGCACTTATGGGAAAAATCTCAATTATTTTTCTTCTTAATTTCCATTACTAGGCATGCAAACATTTACTTTTAATATTTCATGCGACAAACCTAACATATATATCATGTATTGTCTTTCCTTTCATTGATTCAATTTTTTTGATCCAAAAGGTAAAGGTATGGTTGCTAAAGCTTCTCAAGATATAGCTACAAAAAAAACACAAGGAGTCAACCTTATTGGTGTAAGCGGAATAGGATATGGAAGTGGTGTTGATCATGCTTCTCCAGATATATGA

Protein sequence

>MS.gene66656.t1

MASKRSSRGKQKIELKKIEKKDDLFVAFTTRKSGIYNKASELTTLSGASVDILLLSPTGKPFCYGKPSSESITKTSLKDGNPSMEEEMMKPEIIEQNEKNDDLLDKKHVAEAQHKNLKKLESSGYWSIKEGQYDQVKEIDKSLVAVANKLITNVLKTGGEIDPHAISTIEELNGVKTNYPYVFEDNTKDHEVGASKGMVAKASQDIATKKTQGVNLIGVSGIGYGSGVDHASPDI