AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene049793

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049793.t1 MTR_4g057635 93.277 238 14 1 12 249 89 324 1.71e-135 384
MS.gene049793.t1 MTR_2g095520 40.157 254 112 9 12 247 89 320 1.01e-22 95.1
MS.gene049793.t1 MTR_5g014990 73.171 41 11 0 12 52 89 129 1.66e-13 69.3
MS.gene049793.t1 MTR_1g017140 75.676 37 9 0 6 42 83 119 9.82e-13 67.0
MS.gene049793.t1 MTR_6g009430 67.500 40 13 0 12 51 88 127 1.94e-12 66.2
MS.gene049793.t1 MTR_3g461490 70.000 40 12 0 12 51 88 127 2.20e-12 66.2
MS.gene049793.t1 MTR_3g103570 37.634 93 54 1 6 94 83 175 3.85e-12 65.5
MS.gene049793.t1 MTR_7g102110 71.053 38 11 0 6 43 83 120 7.20e-12 63.9
MS.gene049793.t1 MTR_4g082290 52.308 65 30 1 2 65 77 141 1.24e-11 64.3
MS.gene049793.t1 MTR_3g045430 56.140 57 17 1 12 68 89 137 1.32e-11 63.5
MS.gene049793.t1 MTR_4g082230 52.308 65 30 1 2 65 77 141 1.42e-11 63.9
MS.gene049793.t1 MTR_6g090405 83.871 31 5 0 12 42 89 119 2.81e-11 62.4
MS.gene049793.t1 MTR_1g076150 75.676 37 9 0 4 40 28 64 3.62e-11 61.2
MS.gene049793.t1 MTR_3g074520 60.870 46 18 0 8 53 84 129 4.15e-11 62.4
MS.gene049793.t1 MTR_8g031360 49.231 65 27 1 1 65 79 137 6.19e-11 61.6
MS.gene049793.t1 MTR_1g017000 77.419 31 7 0 12 42 89 119 8.99e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049793.t1 AT4G37780 60.784 51 20 0 6 56 83 133 2.37e-14 71.6
MS.gene049793.t1 AT5G57620 76.744 43 9 1 3 44 79 121 1.73e-13 69.3
MS.gene049793.t1 AT3G49690 70.455 44 13 0 6 49 83 126 2.39e-13 68.9
MS.gene049793.t1 AT5G65790 63.830 47 17 0 6 52 83 129 2.82e-13 68.9
MS.gene049793.t1 AT5G56110 68.182 44 14 0 8 51 84 127 4.31e-13 68.2
MS.gene049793.t1 AT1G22640 51.724 58 28 0 7 64 11 68 6.13e-13 65.9
MS.gene049793.t1 AT3G61250 44.737 76 36 1 1 70 77 152 1.11e-12 66.6
MS.gene049793.t1 AT5G23000 32.215 149 72 5 6 141 83 215 3.62e-12 65.5
MS.gene049793.t1 AT5G15310 50.000 56 28 0 4 59 1 56 5.98e-12 63.9
MS.gene049793.t1 AT4G12350 40.909 88 38 2 1 88 77 150 1.46e-11 63.5
MS.gene049793.t1 AT5G10280 50.000 74 32 2 8 80 84 153 1.88e-11 63.5
MS.gene049793.t1 AT5G65230 58.696 46 19 0 8 53 84 129 2.36e-11 63.2

Find 37 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATAAACATGTTATCTTTAAT+AGG 0.206533 4.2:+46099195 None:intergenic
TAACCATGGACTCTTGATTT+TGG 0.209482 4.2:+46099250 None:intergenic
AAGAACAACTTTATGATAAA+TGG 0.255168 4.2:-46099039 MS.gene049793:CDS
TTAAATCCATTACTAGATTA+TGG 0.290043 4.2:-46098922 MS.gene049793:CDS
TAAACATGTTATCTTTAATA+GGG 0.351159 4.2:+46099196 None:intergenic
AGTGATGGATTTGAATTTGA+TGG 0.364575 4.2:-46099072 MS.gene049793:CDS
AAAGATAACATGTTTATGTT+TGG 0.366890 4.2:-46099189 MS.gene049793:CDS
ACAATGATATCAAGAACTAT+TGG 0.403975 4.2:-46099470 MS.gene049793:CDS
GTTATTTGAAGGAAGTGAAA+TGG 0.408479 4.2:+46099302 None:intergenic
GTTGGATATAGTTATAATAA+TGG 0.408482 4.2:-46098958 MS.gene049793:CDS
ATAGGGTTGAAACTTGTGTT+TGG 0.411863 4.2:+46099276 None:intergenic
TCTAAGAATTGATGAGAAGA+AGG 0.426803 4.2:+46099366 None:intergenic
GAAGGAGAAGGTGGAAATGA+AGG 0.428759 4.2:+46099384 None:intergenic
AATAGGGTAATTATATTGCA+TGG 0.439492 4.2:+46099212 None:intergenic
GGTAACAATGGAAGTATTGT+TGG 0.458840 4.2:-46099018 MS.gene049793:CDS
TGAAGATCTATGAAGGAAGT+TGG 0.463076 4.2:+46099327 None:intergenic
TTTCTTTGATGATGTAATGT+TGG 0.475351 4.2:+46099408 None:intergenic
GTGTTTGGATAGTTATTTGA+AGG 0.484722 4.2:+46099291 None:intergenic
ATTCATAAGAATGAAGAGAT+TGG 0.485771 4.2:-46098838 MS.gene049793:CDS
TGATGAGAAGAAGGAGAAGG+TGG 0.495664 4.2:+46099375 None:intergenic
ATAGGGTAATTATATTGCAT+GGG 0.509971 4.2:+46099213 None:intergenic
ATATCATTGTCTGTCCTACC+TGG 0.529658 4.2:+46099483 None:intergenic
ATGTTTATGTTTGGAAGTGA+AGG 0.530266 4.2:-46099180 MS.gene049793:CDS
ATTATAGCAGCTCAATTGCC+AGG 0.535265 4.2:-46099501 MS.gene049793:CDS
ATTAGTAGCAGCAGCAACAA+AGG 0.539539 4.2:-46098877 MS.gene049793:CDS
AATGGTTTGAAGATCTATGA+AGG 0.546814 4.2:+46099320 None:intergenic
CATCATCACATGAATAGTGA+TGG 0.547883 4.2:-46099087 MS.gene049793:CDS
TTACCAAAATCAAGAGTCCA+TGG 0.554120 4.2:-46099253 MS.gene049793:CDS
GAAGGAAGTAGTTCATCTGA+TGG 0.557638 4.2:-46099162 MS.gene049793:CDS
TTAGTAGCAGCAGCAACAAA+GGG 0.558041 4.2:-46098876 MS.gene049793:CDS
TCAAGACCATAATCTAGTAA+TGG 0.566224 4.2:+46098916 None:intergenic
TAGCAGCTCAATTGCCAGGT+AGG 0.572910 4.2:-46099497 MS.gene049793:CDS
TTTATGATAAATGGTAACAA+TGG 0.578179 4.2:-46099030 MS.gene049793:CDS
AATTGATGAGAAGAAGGAGA+AGG 0.583152 4.2:+46099372 None:intergenic
GGGTAATTATATTGCATGGG+AGG 0.586340 4.2:+46099216 None:intergenic
AGGATTAACAACACTAACCA+TGG 0.605158 4.2:+46099236 None:intergenic
GGAAGTTGCACTCTTAGTCA+TGG 0.605348 4.2:-46099141 MS.gene049793:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAAACATGTTATCTTTAAT+AGG + chr4.2:46099167-46099186 None:intergenic 15.0%
!! TAAACATGTTATCTTTAATA+GGG + chr4.2:46099166-46099185 None:intergenic 15.0%
!!! CATTTTTGATATTGATTTAT+AGG - chr4.2:46098829-46098848 MS.gene049793:CDS 15.0%
!! AAAGATAACATGTTTATGTT+TGG - chr4.2:46099170-46099189 MS.gene049793:CDS 20.0%
!! AAGAACAACTTTATGATAAA+TGG - chr4.2:46099320-46099339 MS.gene049793:CDS 20.0%
!! GTTGGATATAGTTATAATAA+TGG - chr4.2:46099401-46099420 MS.gene049793:CDS 20.0%
!! TTAAATCCATTACTAGATTA+TGG - chr4.2:46099437-46099456 MS.gene049793:CDS 20.0%
!! TTTATGATAAATGGTAACAA+TGG - chr4.2:46099329-46099348 MS.gene049793:CDS 20.0%
!!! TTTTGATATTGATTTATAGG+TGG - chr4.2:46098832-46098851 MS.gene049793:CDS 20.0%
! AAAGTTGAAGAAAAAACTCA+TGG - chr4.2:46098917-46098936 MS.gene049793:CDS 25.0%
! AATAGGGTAATTATATTGCA+TGG + chr4.2:46099150-46099169 None:intergenic 25.0%
! ACAATGATATCAAGAACTAT+TGG - chr4.2:46098889-46098908 MS.gene049793:CDS 25.0%
! ATAGGGTAATTATATTGCAT+GGG + chr4.2:46099149-46099168 None:intergenic 25.0%
! ATTCATAAGAATGAAGAGAT+TGG - chr4.2:46099521-46099540 MS.gene049793:CDS 25.0%
! CAATATGAAGAAAAATCAAG+TGG - chr4.2:46099377-46099396 MS.gene049793:CDS 25.0%
!! CACTTGATTTTTCTTCATAT+TGG + chr4.2:46099379-46099398 None:intergenic 25.0%
!!! ACTCTTGATTTTGGTAAATA+GGG + chr4.2:46099103-46099122 None:intergenic 25.0%
!!! TTTCTTTGATGATGTAATGT+TGG + chr4.2:46098954-46098973 None:intergenic 25.0%
AATGGTTTGAAGATCTATGA+AGG + chr4.2:46099042-46099061 None:intergenic 30.0%
ATGTTTATGTTTGGAAGTGA+AGG - chr4.2:46099179-46099198 MS.gene049793:CDS 30.0%
GTGTTTGGATAGTTATTTGA+AGG + chr4.2:46099071-46099090 None:intergenic 30.0%
GTTATTTGAAGGAAGTGAAA+TGG + chr4.2:46099060-46099079 None:intergenic 30.0%
TCAAGACCATAATCTAGTAA+TGG + chr4.2:46099446-46099465 None:intergenic 30.0%
TCTAAGAATTGATGAGAAGA+AGG + chr4.2:46098996-46099015 None:intergenic 30.0%
!! AGTGATGGATTTGAATTTGA+TGG - chr4.2:46099287-46099306 MS.gene049793:CDS 30.0%
!! GACTCTTGATTTTGGTAAAT+AGG + chr4.2:46099104-46099123 None:intergenic 30.0%
AATTGATGAGAAGAAGGAGA+AGG + chr4.2:46098990-46099009 None:intergenic 35.0%
AGGATTAACAACACTAACCA+TGG + chr4.2:46099126-46099145 None:intergenic 35.0%
ATAGGGTTGAAACTTGTGTT+TGG + chr4.2:46099086-46099105 None:intergenic 35.0%
CATCATCACATGAATAGTGA+TGG - chr4.2:46099272-46099291 MS.gene049793:CDS 35.0%
GAAGAAAAATCAAGTGGAGT+TGG - chr4.2:46099383-46099402 MS.gene049793:CDS 35.0%
TGAAGATCTATGAAGGAAGT+TGG + chr4.2:46099035-46099054 None:intergenic 35.0%
TTACCAAAATCAAGAGTCCA+TGG - chr4.2:46099106-46099125 MS.gene049793:CDS 35.0%
! TAACCATGGACTCTTGATTT+TGG + chr4.2:46099112-46099131 None:intergenic 35.0%
!! GGTAACAATGGAAGTATTGT+TGG - chr4.2:46099341-46099360 MS.gene049793:CDS 35.0%
ATATCATTGTCTGTCCTACC+TGG + chr4.2:46098879-46098898 None:intergenic 40.0%
ATTAGTAGCAGCAGCAACAA+AGG - chr4.2:46099482-46099501 MS.gene049793:CDS 40.0%
ATTATAGCAGCTCAATTGCC+AGG - chr4.2:46098858-46098877 MS.gene049793:CDS 40.0%
GAAGGAAGTAGTTCATCTGA+TGG - chr4.2:46099197-46099216 MS.gene049793:CDS 40.0%
GGGTAATTATATTGCATGGG+AGG + chr4.2:46099146-46099165 None:intergenic 40.0%
TTAGTAGCAGCAGCAACAAA+GGG - chr4.2:46099483-46099502 MS.gene049793:CDS 40.0%
GAAGGAGAAGGTGGAAATGA+AGG + chr4.2:46098978-46098997 None:intergenic 45.0%
GGAAGTTGCACTCTTAGTCA+TGG - chr4.2:46099218-46099237 MS.gene049793:CDS 45.0%
TGATGAGAAGAAGGAGAAGG+TGG + chr4.2:46098987-46099006 None:intergenic 45.0%
TAGCAGCTCAATTGCCAGGT+AGG - chr4.2:46098862-46098881 MS.gene049793:CDS 50.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 46098816 46099565 46098816 ID=MS.gene049793
chr4.2 mRNA 46098816 46099565 46098816 ID=MS.gene049793.t1;Parent=MS.gene049793
chr4.2 exon 46098816 46099565 46098816 ID=MS.gene049793.t1.exon1;Parent=MS.gene049793.t1
chr4.2 CDS 46098816 46099565 46098816 ID=cds.MS.gene049793.t1;Parent=MS.gene049793.t1
Gene Sequence

>MS.gene049793

ATGACTATAATCACATTTTTGATATTGATTTATAGGTGGTCAATTATAGCAGCTCAATTGCCAGGTAGGACAGACAATGATATCAAGAACTATTGGAACACAAAGTTGAAGAAAAAACTCATGGCTATGCAGTTTCCAACATTACATCATCAAAGAAAACCTTCATTTCCACCTTCTCCTTCTTCTCATCAATTCTTAGACTACTTTTCTCACACACCAACTTCCTTCATAGATCTTCAAACCATTTCACTTCCTTCAAATAACTATCCAAACACAAGTTTCAACCCTATTTACCAAAATCAAGAGTCCATGGTTAGTGTTGTTAATCCTCCCATGCAATATAATTACCCTATTAAAGATAACATGTTTATGTTTGGAAGTGAAGGAAGTAGTTCATCTGATGGAAGTTGCACTCTTAGTCATGGCAAAGAAATCAAGCAAGAAGAAATTGTTTATCATCATCACATGAATAGTGATGGATTTGAATTTGATGGCTACAACAATAAGAACAACTTTATGATAAATGGTAACAATGGAAGTATTGTTGGTGAAAGTGTTAACCAATATGAAGAAAAATCAAGTGGAGTTGGATATAGTTATAATAATGGTCAAAGTCAAATATTAAATCCATTACTAGATTATGGTCTTGATGATATTAAACAATTGATTAGTAGCAGCAGCAACAAAGGGTTTAATGTTGATGATATTCATAAGAATGAAGAGATTGGTATGTACTACTTTGATTATTAA
Protein sequence

>MS.gene049793.t1

MTIITFLILIYRWSIIAAQLPGRTDNDIKNYWNTKLKKKLMAMQFPTLHHQRKPSFPPSPSSHQFLDYFSHTPTSFIDLQTISLPSNNYPNTSFNPIYQNQESMVSVVNPPMQYNYPIKDNMFMFGSEGSSSSDGSCTLSHGKEIKQEEIVYHHHMNSDGFEFDGYNNKNNFMINGNNGSIVGESVNQYEEKSSGVGYSYNNGQSQILNPLLDYGLDDIKQLISSSSNKGFNVDDIHKNEEIGMYYFDY