AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene62516

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62516.t1 MTR_7g029400 94.330 194 8 2 1 193 1 192 6.99e-134 373
MS.gene62516.t1 MTR_8g015250 88.083 193 11 2 1 193 1 181 4.61e-121 340
MS.gene62516.t1 MTR_6g016375 62.121 132 42 1 32 163 44 167 2.69e-46 151
MS.gene62516.t1 MTR_7g017880 60.000 140 52 3 52 189 53 190 1.02e-43 144
MS.gene62516.t1 MTR_4g070860 52.055 73 35 0 82 154 26 98 1.06e-18 79.3
MS.gene62516.t1 MTR_1g022495 41.237 97 56 1 60 156 5 100 2.82e-17 75.5
MS.gene62516.t1 MTR_3g117120 49.315 73 37 0 82 154 26 98 5.42e-16 72.0
MS.gene62516.t1 MTR_4g097440 34.646 127 71 2 44 158 21 147 1.73e-15 71.2
MS.gene62516.t1 MTR_5g015090 42.708 96 48 1 83 171 58 153 3.23e-15 70.1
MS.gene62516.t1 MTR_8g086020 35.417 96 62 0 59 154 8 103 1.25e-13 65.9
MS.gene62516.t1 MTR_1g087040 42.391 92 47 3 63 154 10 95 1.35e-12 62.8
MS.gene62516.t1 MTR_5g028850 39.362 94 52 2 61 149 280 373 1.69e-11 62.4
MS.gene62516.t1 MTR_5g028850 39.362 94 52 2 61 149 278 371 1.87e-11 62.4
MS.gene62516.t1 MTR_3g103360 36.283 113 68 1 49 161 23 131 2.50e-11 59.3
MS.gene62516.t1 MTR_8g070820 44.304 79 41 1 79 154 299 377 9.22e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62516.t1 AT3G30530 68.966 116 34 1 64 177 57 172 3.63e-50 160
MS.gene62516.t1 AT1G13600 57.447 141 48 4 37 173 45 177 2.51e-42 141
MS.gene62516.t1 AT5G38800 64.151 106 38 0 63 168 49 154 1.19e-39 133
MS.gene62516.t1 AT5G15830 57.983 119 42 3 63 174 52 169 1.81e-36 125
MS.gene62516.t1 AT2G04038 60.360 111 40 1 67 173 55 165 3.77e-36 124
MS.gene62516.t1 AT1G68880 47.475 99 50 1 65 163 28 124 1.37e-23 91.3
MS.gene62516.t1 AT1G75390 46.809 94 45 1 66 154 16 109 4.79e-17 75.1
MS.gene62516.t1 AT5G60830 48.718 78 40 0 84 161 69 146 7.99e-17 75.5
MS.gene62516.t1 AT1G75390 45.055 91 46 1 64 150 15 105 1.28e-15 70.1
MS.gene62516.t1 AT2G18160 47.222 72 38 0 83 154 28 99 1.61e-15 71.2
MS.gene62516.t1 AT3G62420 37.624 101 59 1 82 178 21 121 1.34e-13 65.5
MS.gene62516.t1 AT4G37730 47.619 84 44 0 78 161 189 272 7.60e-13 65.9
MS.gene62516.t1 AT4G34590 43.243 74 42 0 81 154 22 95 2.58e-12 62.4
MS.gene62516.t1 AT2G22850 41.975 81 47 0 82 162 125 205 9.93e-11 59.3
MS.gene62516.t1 AT2G22850 41.975 81 47 0 82 162 125 205 9.93e-11 59.3

Find 28 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGATTATTTAGATGGTAATT+TGG 0.228192 7.3:+70357817 None:intergenic
TTCCTAATAGATTATTTAGA+TGG 0.311060 7.3:+70357809 None:intergenic
AATTGATCATGGCCTGCTAA+TGG 0.346031 7.3:+70357766 None:intergenic
TACCATCTAAATAATCTATT+AGG 0.346268 7.3:-70357811 MS.gene62516:CDS
GCTAATGGGTAGTGGAAGTT+TGG 0.389519 7.3:+70357781 None:intergenic
ATGGTAGCTGACATGCAAAT+TGG 0.415880 7.3:-70357451 MS.gene62516:CDS
ATTGATCATGGCCTGCTAAT+GGG 0.427113 7.3:+70357767 None:intergenic
TTTGCATGTCAGCTACCATT+TGG 0.441661 7.3:+70357455 None:intergenic
GAGAATCAGCTAGGAGATCA+AGG 0.496394 7.3:-70357636 MS.gene62516:CDS
AACTTCCACTACCCATTAGC+AGG 0.516381 7.3:-70357778 MS.gene62516:CDS
CATAAATCTTCCATGTTGCA+AGG 0.518307 7.3:+70357418 None:intergenic
TAATTTGGAATTTCATTCTG+TGG 0.545612 7.3:+70357832 None:intergenic
CTGACTCCTCTCATCTCACT+AGG 0.550734 7.3:+70357913 None:intergenic
CAGCTAGGAGATCAAGGATG+AGG 0.553553 7.3:-70357630 MS.gene62516:CDS
CATGGCCTGCTAATGGGTAG+TGG 0.565162 7.3:+70357773 None:intergenic
TTGTGTTGAGATGTGTTGCA+TGG 0.567617 7.3:+70357388 None:intergenic
AAGGTGGAGCAAATTGATCA+TGG 0.575829 7.3:+70357755 None:intergenic
CTCTATTCGATATCATTCGC+CGG 0.577819 7.3:+70357656 None:intergenic
CATGGTTTAGTTTATCAACA+AGG 0.578514 7.3:+70357545 None:intergenic
GAGTTGCTGCTTAAACAAGA+AGG 0.605858 7.3:+70357736 None:intergenic
TCTCATGTGACTCAGACACA+TGG 0.617351 7.3:+70357527 None:intergenic
AGTTCAACATCATCGACGAA+AGG 0.627624 7.3:-70357684 MS.gene62516:CDS
TATCGAATAGAGAATCAGCT+AGG 0.637053 7.3:-70357645 MS.gene62516:CDS
TTGCTGCTTAAACAAGAAGG+TGG 0.640187 7.3:+70357739 None:intergenic
TCTCATCTCACTAGGAACCA+TGG 0.643297 7.3:+70357921 None:intergenic
TCATCGACGAAAGGAAGCAC+CGG 0.644213 7.3:-70357675 MS.gene62516:CDS
GGATGAACTTTGGTCACAAG+TGG 0.651183 7.3:-70357593 MS.gene62516:CDS
ATGGTTCCTAGTGAGATGAG+AGG 0.683863 7.3:-70357919 MS.gene62516:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGATTATTTAGATGGTAATT+TGG + chr7.3:70357465-70357484 None:intergenic 20.0%
!! TACCATCTAAATAATCTATT+AGG - chr7.3:70357468-70357487 MS.gene62516:CDS 20.0%
!! TTCCTAATAGATTATTTAGA+TGG + chr7.3:70357473-70357492 None:intergenic 20.0%
!! TAATTTGGAATTTCATTCTG+TGG + chr7.3:70357450-70357469 None:intergenic 25.0%
AAAAACACTTGGATGAACTT+TGG - chr7.3:70357676-70357695 MS.gene62516:CDS 30.0%
! CATGGTTTAGTTTATCAACA+AGG + chr7.3:70357737-70357756 None:intergenic 30.0%
!! ACATGGAATGAATTTTCAAG+AGG + chr7.3:70357408-70357427 None:intergenic 30.0%
!!! AGACAAAGTTTTGTTGAACA+TGG + chr7.3:70357425-70357444 None:intergenic 30.0%
CATAAATCTTCCATGTTGCA+AGG + chr7.3:70357864-70357883 None:intergenic 35.0%
GATGAGGAAACAAAAACACT+TGG - chr7.3:70357665-70357684 MS.gene62516:CDS 35.0%
TATCGAATAGAGAATCAGCT+AGG - chr7.3:70357634-70357653 MS.gene62516:CDS 35.0%
! AACTTTTGATCTTCGCCAAA+TGG - chr7.3:70357809-70357828 MS.gene62516:CDS 35.0%
! TAACTCTTTTCCTTGCAACA+TGG - chr7.3:70357851-70357870 MS.gene62516:CDS 35.0%
AAGGTGGAGCAAATTGATCA+TGG + chr7.3:70357527-70357546 None:intergenic 40.0%
AATTGATCATGGCCTGCTAA+TGG + chr7.3:70357516-70357535 None:intergenic 40.0%
AGTTCAACATCATCGACGAA+AGG - chr7.3:70357595-70357614 MS.gene62516:CDS 40.0%
ATGGTAGCTGACATGCAAAT+TGG - chr7.3:70357828-70357847 MS.gene62516:CDS 40.0%
ATTGATCATGGCCTGCTAAT+GGG + chr7.3:70357515-70357534 None:intergenic 40.0%
CTCTATTCGATATCATTCGC+CGG + chr7.3:70357626-70357645 None:intergenic 40.0%
TTGTGTTGAGATGTGTTGCA+TGG + chr7.3:70357894-70357913 None:intergenic 40.0%
TTTGCATGTCAGCTACCATT+TGG + chr7.3:70357827-70357846 None:intergenic 40.0%
! GAGTTGCTGCTTAAACAAGA+AGG + chr7.3:70357546-70357565 None:intergenic 40.0%
! TTGCTGCTTAAACAAGAAGG+TGG + chr7.3:70357543-70357562 None:intergenic 40.0%
AACTTCCACTACCCATTAGC+AGG - chr7.3:70357501-70357520 MS.gene62516:CDS 45.0%
ATGGTTCCTAGTGAGATGAG+AGG - chr7.3:70357360-70357379 MS.gene62516:CDS 45.0%
GAGAATCAGCTAGGAGATCA+AGG - chr7.3:70357643-70357662 MS.gene62516:CDS 45.0%
GGATGAACTTTGGTCACAAG+TGG - chr7.3:70357686-70357705 MS.gene62516:CDS 45.0%
TCTCATGTGACTCAGACACA+TGG + chr7.3:70357755-70357774 None:intergenic 45.0%
!! GCTAATGGGTAGTGGAAGTT+TGG + chr7.3:70357501-70357520 None:intergenic 45.0%
CAGCTAGGAGATCAAGGATG+AGG - chr7.3:70357649-70357668 MS.gene62516:CDS 50.0%
CTGACTCCTCTCATCTCACT+AGG + chr7.3:70357369-70357388 None:intergenic 50.0%
! TCATCGACGAAAGGAAGCAC+CGG - chr7.3:70357604-70357623 MS.gene62516:CDS 50.0%
! CATGGCCTGCTAATGGGTAG+TGG + chr7.3:70357509-70357528 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 70357360 70357941 70357360 ID=MS.gene62516
chr7.3 mRNA 70357360 70357941 70357360 ID=MS.gene62516.t1;Parent=MS.gene62516
chr7.3 exon 70357360 70357941 70357360 ID=MS.gene62516.t1.exon1;Parent=MS.gene62516.t1
chr7.3 CDS 70357360 70357941 70357360 ID=cds.MS.gene62516.t1;Parent=MS.gene62516.t1
Gene Sequence

>MS.gene62516

ATGGTTCCTAGTGAGATGAGAGGAGTCAGTCAATTATCTCTAACTCCTCTTGAAAATTCATTCCATGTTCAACAAAACTTTGTCTTGCCACAGAATGAAATTCCAAATTACCATCTAAATAATCTATTAGGAAGCTTGCCAAACTTCCACTACCCATTAGCAGGCCATGATCAATTTGCTCCACCTTCTTGTTTAAGCAGCAACTCAACTACTTCTGATGAAGCAGATGAACTTCAGTTCAACATCATCGACGAAAGGAAGCACCGGCGAATGATATCGAATAGAGAATCAGCTAGGAGATCAAGGATGAGGAAACAAAAACACTTGGATGAACTTTGGTCACAAGTGGTGAGACTCAGAACTGAAAATCACAACCTTGTTGATAAACTAAACCATGTGTCTGAGTCACATGAGAAAGTTGTTCAAGAGAATGCAAGACTTAAAGAAGAAACTTTTGATCTTCGCCAAATGGTAGCTGACATGCAAATTGGTAACTCTTTTCCTTGCAACATGGAAGATTTATGTGAAATTCCATGCAACACATCTCAACACAAAGATGATTCCTCTAAAATTCATGATTGA
Protein sequence

>MS.gene62516.t1

MVPSEMRGVSQLSLTPLENSFHVQQNFVLPQNEIPNYHLNNLLGSLPNFHYPLAGHDQFAPPSCLSSNSTTSDEADELQFNIIDERKHRRMISNRESARRSRMRKQKHLDELWSQVVRLRTENHNLVDKLNHVSESHEKVVQENARLKEETFDLRQMVADMQIGNSFPCNMEDLCEIPCNTSQHKDDSSKIHD