AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene91967

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91967.t1 MTR_5g097910 96.667 120 2 1 1 118 1 120 3.52e-79 235
MS.gene91967.t1 MTR_5g097940 96.667 120 2 1 1 118 1 120 3.52e-79 235
MS.gene91967.t1 MTR_5g097900 96.667 120 2 1 1 118 1 120 4.15e-79 235
MS.gene91967.t1 MTR_3g083130 63.717 113 40 1 6 117 7 119 1.32e-47 155
MS.gene91967.t1 MTR_0374s0050 59.836 122 45 3 1 118 1 122 1.52e-43 144
MS.gene91967.t1 MTR_6g073110 51.639 122 52 4 1 118 1 119 3.85e-30 110
MS.gene91967.t1 MTR_4g072360 45.902 122 59 4 1 118 1 119 2.14e-28 105
MS.gene91967.t1 MTR_4g072350 50.000 108 50 3 15 118 12 119 2.87e-27 102
MS.gene91967.t1 MTR_4g072320 47.934 121 52 4 1 118 1 113 3.66e-27 102
MS.gene91967.t1 MTR_4g036845 47.573 103 50 2 18 118 12 112 4.73e-24 94.0
MS.gene91967.t1 MTR_4g072060 50.538 93 42 3 15 107 6 94 2.34e-21 86.7
MS.gene91967.t1 MTR_8g070095 45.098 102 54 1 19 118 15 116 1.32e-20 84.7
MS.gene91967.t1 MTR_8g070115 46.667 105 46 3 19 118 15 114 1.65e-17 76.3
MS.gene91967.t1 MTR_7g063580 50.000 72 34 1 49 118 83 154 1.02e-16 74.3
MS.gene91967.t1 MTR_4g021350 41.111 90 45 2 19 105 15 99 2.40e-16 72.8
MS.gene91967.t1 MTR_4g021350 41.111 90 45 2 19 105 15 99 3.00e-16 72.8
MS.gene91967.t1 MTR_4g021410 41.111 90 45 2 19 105 16 100 1.90e-15 70.5
MS.gene91967.t1 MTR_7g070500 39.326 89 49 3 20 107 23 107 1.80e-14 67.8
MS.gene91967.t1 MTR_7g070500 39.326 89 49 3 20 107 23 107 2.17e-14 67.8
MS.gene91967.t1 MTR_4g021450 40.230 87 50 1 19 105 16 100 2.24e-14 67.8
MS.gene91967.t1 MTR_4g021410 44.828 58 32 0 48 105 6 63 3.94e-12 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91967.t1 AT1G59960 48.413 126 54 5 1 118 1 123 4.04e-30 110
MS.gene91967.t1 AT2G21260 51.887 106 45 4 15 118 6 107 2.54e-26 99.8
MS.gene91967.t1 AT2G21250 50.943 106 46 4 15 118 6 107 1.16e-25 96.7
MS.gene91967.t1 AT5G62420 52.475 101 44 2 20 118 14 112 1.39e-25 98.2
MS.gene91967.t1 AT2G21250 50.943 106 46 4 15 118 6 107 3.36e-25 97.1
MS.gene91967.t1 AT1G59950 52.128 94 37 3 20 108 15 105 8.04e-24 93.6
MS.gene91967.t1 AT2G37770 46.667 105 46 3 19 118 15 114 1.28e-22 89.7
MS.gene91967.t1 AT2G37760 48.039 102 45 2 19 118 15 110 1.35e-22 89.7
MS.gene91967.t1 AT2G37760 48.039 102 45 2 19 118 15 110 1.35e-22 89.7
MS.gene91967.t1 AT2G37760 48.039 102 45 2 19 118 15 110 1.37e-22 89.7
MS.gene91967.t1 AT2G37760 48.039 102 45 2 19 118 15 110 2.21e-22 89.4
MS.gene91967.t1 AT2G37760 48.039 102 45 2 19 118 15 110 2.21e-22 89.4
MS.gene91967.t1 AT2G37770 46.667 105 46 3 19 118 15 114 3.60e-22 89.0
MS.gene91967.t1 AT5G01670 48.544 103 46 4 19 118 23 121 3.76e-22 89.0
MS.gene91967.t1 AT2G37790 45.714 105 47 3 19 118 15 114 9.93e-22 87.8
MS.gene91967.t1 AT3G53880 44.118 102 53 2 19 118 15 114 8.65e-18 77.0
MS.gene91967.t1 AT3G53880 44.118 102 53 2 19 118 15 114 1.10e-17 77.0
MS.gene91967.t1 AT5G01670 38.462 130 46 5 19 118 23 148 1.02e-16 74.3

Find 22 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGTCTATAACCTTGTTTGA+TGG 0.333209 5.2:+82532348 None:intergenic
TCTTTCTTGCATGTGAAGTC+AGG 0.381030 5.2:+82532394 None:intergenic
TTCATGTAGGACTCTTCAAT+TGG 0.407231 5.2:-82532068 MS.gene91967:intron
TTGAAAGAGGCAATTGAACT+TGG 0.422526 5.2:-82532277 MS.gene91967:CDS
TTTGATACAGCTGCTGCATA+TGG 0.438772 5.2:-82532325 MS.gene91967:CDS
TGTTGGTAAGAACCTTTGTT+GGG 0.477113 5.2:+82532461 None:intergenic
CTTTCTTGCATGTGAAGTCA+GGG 0.477281 5.2:+82532395 None:intergenic
TATGGCTCAGAACAAGCTCT+TGG 0.491850 5.2:-82532307 MS.gene91967:CDS
TCTTGGAGAGGCTTTGAAAG+AGG 0.506147 5.2:-82532290 MS.gene91967:CDS
GTGTTGGTAAGAACCTTTGT+TGG 0.512312 5.2:+82532460 None:intergenic
AAGATGCCTGTGGTTGGAAT+GGG 0.529026 5.2:-82532424 MS.gene91967:CDS
GAAGATGCCTGTGGTTGGAA+TGG 0.539309 5.2:-82532425 MS.gene91967:CDS
CTTCAACTGACTAGAAGTGT+TGG 0.576735 5.2:+82532444 None:intergenic
GCTGATCCCATTCCAACCAC+AGG 0.587516 5.2:+82532418 None:intergenic
ATCATTGAAGCCATCAAACA+AGG 0.587661 5.2:-82532358 MS.gene91967:CDS
CAGTTGAAGATGCCTGTGGT+TGG 0.591736 5.2:-82532430 MS.gene91967:CDS
TAGTCAGTTGAAGATGCCTG+TGG 0.606941 5.2:-82532434 MS.gene91967:CDS
AGAGCAGGAATAACAAGATG+AGG 0.624425 5.2:+82532196 None:intergenic
CAGGAATAACAAGATGAGGA+TGG 0.629084 5.2:+82532200 None:intergenic
TTTCTTGCATGTGAAGTCAG+GGG 0.630323 5.2:+82532396 None:intergenic
CTCAGAACAAGCTCTTGGAG+AGG 0.635937 5.2:-82532302 MS.gene91967:CDS
TAGTGTTGAAATCCCAACAA+AGG 0.659490 5.2:-82532473 MS.gene91967:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATCAATATTAAATTCAGT+TGG - chr5.2:82532379-82532398 MS.gene91967:CDS 15.0%
!!! TTGATTTGTTAATTTCATGT+AGG - chr5.2:82532442-82532461 MS.gene91967:CDS 20.0%
! TCAATATTAAATTCAGTTGG+AGG - chr5.2:82532382-82532401 MS.gene91967:CDS 25.0%
!!! TTTTGTTACTTCCAAACTTT+GGG - chr5.2:82532290-82532309 MS.gene91967:CDS 25.0%
!!! TTTTTGTTACTTCCAAACTT+TGG - chr5.2:82532289-82532308 MS.gene91967:CDS 25.0%
ATCATTGAAGCCATCAAACA+AGG - chr5.2:82532165-82532184 MS.gene91967:intron 35.0%
TTCATGTAGGACTCTTCAAT+TGG - chr5.2:82532455-82532474 MS.gene91967:CDS 35.0%
TTGAAAGAGGCAATTGAACT+TGG - chr5.2:82532246-82532265 MS.gene91967:CDS 35.0%
! GTGTCTATAACCTTGTTTGA+TGG + chr5.2:82532178-82532197 None:intergenic 35.0%
! TAGTGTTGAAATCCCAACAA+AGG - chr5.2:82532050-82532069 MS.gene91967:CDS 35.0%
! TGTTGGTAAGAACCTTTGTT+GGG + chr5.2:82532065-82532084 None:intergenic 35.0%
!! TTGAGAGATTTTTGAAGAGC+AGG + chr5.2:82532345-82532364 None:intergenic 35.0%
AGAGCAGGAATAACAAGATG+AGG + chr5.2:82532330-82532349 None:intergenic 40.0%
CAGGAATAACAAGATGAGGA+TGG + chr5.2:82532326-82532345 None:intergenic 40.0%
CTTTCTTGCATGTGAAGTCA+GGG + chr5.2:82532131-82532150 None:intergenic 40.0%
TCTTTCTTGCATGTGAAGTC+AGG + chr5.2:82532132-82532151 None:intergenic 40.0%
TTTCTTGCATGTGAAGTCAG+GGG + chr5.2:82532130-82532149 None:intergenic 40.0%
TTTGATACAGCTGCTGCATA+TGG - chr5.2:82532198-82532217 MS.gene91967:CDS 40.0%
! CTTCAACTGACTAGAAGTGT+TGG + chr5.2:82532082-82532101 None:intergenic 40.0%
! GTGTTGGTAAGAACCTTTGT+TGG + chr5.2:82532066-82532085 None:intergenic 40.0%
! GTTTTCAGTGACCCAAAGTT+TGG + chr5.2:82532304-82532323 None:intergenic 40.0%
AAGATGCCTGTGGTTGGAAT+GGG - chr5.2:82532099-82532118 MS.gene91967:intron 45.0%
TAGTCAGTTGAAGATGCCTG+TGG - chr5.2:82532089-82532108 MS.gene91967:intron 45.0%
TATGGCTCAGAACAAGCTCT+TGG - chr5.2:82532216-82532235 MS.gene91967:CDS 45.0%
!! TCTTGGAGAGGCTTTGAAAG+AGG - chr5.2:82532233-82532252 MS.gene91967:CDS 45.0%
CAGTTGAAGATGCCTGTGGT+TGG - chr5.2:82532093-82532112 MS.gene91967:intron 50.0%
CTCAGAACAAGCTCTTGGAG+AGG - chr5.2:82532221-82532240 MS.gene91967:CDS 50.0%
GAAGATGCCTGTGGTTGGAA+TGG - chr5.2:82532098-82532117 MS.gene91967:intron 50.0%
GCTGATCCCATTCCAACCAC+AGG + chr5.2:82532108-82532127 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 82532045 82532500 82532045 ID=MS.gene91967
chr5.2 mRNA 82532045 82532500 82532045 ID=MS.gene91967.t1;Parent=MS.gene91967
chr5.2 exon 82532181 82532500 82532181 ID=MS.gene91967.t1.exon1;Parent=MS.gene91967.t1
chr5.2 CDS 82532181 82532500 82532181 ID=cds.MS.gene91967.t1;Parent=MS.gene91967.t1
chr5.2 exon 82532045 82532081 82532045 ID=MS.gene91967.t1.exon2;Parent=MS.gene91967.t1
chr5.2 CDS 82532045 82532081 82532045 ID=cds.MS.gene91967.t1;Parent=MS.gene91967.t1
Gene Sequence

>MS.gene91967

ATGGGTAGTGTTGAAATCCCAACAAAGGTTCTTACCAACACTTCTAGTCAGTTGAAGATGCCTGTGGTTGGAATGGGATCAGCCCCTGACTTCACATGCAAGAAAGACACAAAAGATGCAATCATTGAAGCCATCAAACAAGGTTATAGACACTTTGATACAGCTGCTGCATATGGCTCAGAACAAGCTCTTGGAGAGGCTTTGAAAGAGGCAATTGAACTTGGTCTTGTCACTAGAGAACAGCTTTTTGTTACTTCCAAACTTTGGGTCACTGAAAACCATCCTCATCTTGTTATTCCTGCTCTTCAAAAATCTCTCAAGTAAATTTTAATTCATATCAATATTAAATTCAGTTGGAGGATGTTTGATTCTACAATGATAAAAATTAATTTTAATCTTGATTTGTTAATTTCATGTAGGACTCTTCAATTGGACTACTTGTATTTGATTCACTAA
Protein sequence

>MS.gene91967.t1

MGSVEIPTKVLTNTSSQLKMPVVGMGSAPDFTCKKDTKDAIIEAIKQGYRHFDTAAAYGSEQALGEALKEAIELGLVTREQLFVTSKLWVTENHPHLVIPALQKSLKTLQLDYLYLIH