AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880043329.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880043329.01.T01 MTR_0263s0020 54.044 272 116 1 1 263 1 272 1.64e-88 265
MsG0880043329.01.T01 MTR_0002s0040 51.546 291 123 2 1 273 1 291 4.41e-88 264
MsG0880043329.01.T01 MTR_1457s0010 63.208 212 75 2 67 275 1 212 2.08e-83 249
MsG0880043329.01.T01 MTR_0002s1060 48.311 296 127 7 4 274 5 299 6.43e-76 233
MsG0880043329.01.T01 MTR_0062s0020 40.809 272 138 8 15 263 4 275 2.83e-53 175
MsG0880043329.01.T01 MTR_0443s0040 38.384 297 145 10 15 275 16 310 7.30e-53 174
MsG0880043329.01.T01 MTR_0062s0090 40.809 272 136 9 15 263 4 273 3.37e-52 172
MsG0880043329.01.T01 MTR_0062s0040 40.809 272 136 9 15 263 4 273 3.37e-52 172
MsG0880043329.01.T01 MTR_0062s0060 40.809 272 136 9 15 263 4 273 3.37e-52 172
MsG0880043329.01.T01 MTR_0062s0170 39.789 284 150 5 1 263 1 284 1.90e-50 168
MsG0880043329.01.T01 MTR_0062s0110 39.789 284 150 5 1 263 1 284 1.90e-50 168
MsG0880043329.01.T01 MTR_0062s0130 39.789 284 150 5 1 263 1 284 1.90e-50 168
MsG0880043329.01.T01 MTR_2g036240 39.789 284 150 5 1 263 1 284 1.90e-50 168
MsG0880043329.01.T01 MTR_2g036260 39.789 284 150 5 1 263 1 284 1.90e-50 168
MsG0880043329.01.T01 MTR_2g036290 39.789 284 150 5 1 263 1 284 1.90e-50 168
MsG0880043329.01.T01 MTR_8g046730 39.789 284 150 5 1 263 1 284 1.90e-50 168
MsG0880043329.01.T01 MTR_6g079630 37.984 258 149 6 14 263 33 287 1.94e-44 152
MsG0880043329.01.T01 MTR_2g096030 34.182 275 163 7 15 274 31 302 5.74e-38 135
MsG0880043329.01.T01 MTR_2g096040 31.939 263 164 6 15 266 4 262 7.51e-31 116
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 59 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAGCCCTAACTATATTAAT+TGG 0.172032 8:-22995567 MsG0880043329.01.T01:CDS
TCAATATCAGGGAATTTAAA+AGG 0.224144 8:+22996030 None:intergenic
ATCAGGGAATTTAAAAGGTT+TGG 0.234016 8:+22996035 None:intergenic
TCAGGGAATTTAAAAGGTTT+GGG 0.261016 8:+22996036 None:intergenic
ATCCTATTGATCAAGAAATC+TGG 0.351826 8:-22995804 MsG0880043329.01.T01:CDS
CTAATTAGCACCTTGACTTC+GGG 0.352175 8:+22995859 None:intergenic
TCAACCCAATTAATATAGTT+AGG 0.352653 8:+22995562 None:intergenic
ATCCAGATTTCTTGATCAAT+AGG 0.353767 8:+22995802 None:intergenic
AACAGTATTGTTACCGATGA+TGG 0.382664 8:+22996101 None:intergenic
AATTTAAAAGGTTTGGGGTA+TGG 0.390062 8:+22996042 None:intergenic
TAATATAGTTAGGGCTTGTC+TGG 0.392599 8:+22995572 None:intergenic
CCAATCGGGATAGAAATTTC+CGG 0.408491 8:+22995933 None:intergenic
TAAACAGAGTGACGGAGATC+AGG 0.412788 8:-22995891 MsG0880043329.01.T01:CDS
GCTAATTAGCACCTTGACTT+CGG 0.415009 8:+22995858 None:intergenic
CATCTTCGTTGTAAGTCTCA+TGG 0.421031 8:+22995965 None:intergenic
CAACCCAATTAATATAGTTA+GGG 0.432225 8:+22995563 None:intergenic
CAGATATCAAGTTGCCAATC+GGG 0.445606 8:+22995919 None:intergenic
AAGCCCTAACTATATTAATT+GGG 0.453234 8:-22995566 MsG0880043329.01.T01:CDS
GGATAGGCTGCATGTAGAAT+TGG 0.470209 8:+22995536 None:intergenic
GCAGATATCAAGTTGCCAAT+CGG 0.491776 8:+22995918 None:intergenic
TGTAGTATTTGTGAGTTACA+TGG 0.499060 8:+22995605 None:intergenic
GTAGTTGCACCCATCTCGTC+AGG 0.503358 8:-22995387 MsG0880043329.01.T01:CDS
GTGAATTACTCCTGACGAGA+TGG 0.516944 8:+22995377 None:intergenic
ATGCCGTCGATTCGCTCACA+AGG 0.520717 8:-22995774 MsG0880043329.01.T01:CDS
ACAGTATTGTTACCGATGAT+GGG 0.521511 8:+22996102 None:intergenic
TATTTGTGAGTTACATGGAA+TGG 0.523418 8:+22995610 None:intergenic
CCGGAAATTTCTATCCCGAT+TGG 0.530698 8:-22995933 MsG0880043329.01.T01:CDS
CATGAGACTTACAACGAAGA+TGG 0.533162 8:-22995964 MsG0880043329.01.T01:CDS
ATCTTCGTTGTAAGTCTCAT+GGG 0.537135 8:+22995966 None:intergenic
GATCGGTGCTTGCTCCTACT+AGG 0.540101 8:+22995449 None:intergenic
CCCATGCGAGACTCCAAAAG+AGG 0.545909 8:+22995491 None:intergenic
ACTTACAACGAAGATGGAAA+AGG 0.547716 8:-22995958 MsG0880043329.01.T01:CDS
AAACAGAGTGACGGAGATCA+GGG 0.562307 8:-22995890 MsG0880043329.01.T01:CDS
CGAGATGGGTGCAACTACTA+CGG 0.563215 8:+22995392 None:intergenic
ATCGAAGAAAACAACGCTGA+TGG 0.564665 8:-22995748 MsG0880043329.01.T01:CDS
CAGGGAATTTAAAAGGTTTG+GGG 0.568798 8:+22996037 None:intergenic
GTCAAGGTGCTAATTAGCAT+TGG 0.572667 8:-22995853 MsG0880043329.01.T01:CDS
TATTACTTCCCCAACACAGA+AGG 0.573953 8:+22995678 None:intergenic
GGGCAAAGGCGAAAATGACA+TGG 0.579258 8:+22995986 None:intergenic
AACGAAGATGGAAAAGGCAC+CGG 0.582283 8:-22995952 MsG0880043329.01.T01:CDS
AAGGTGCTAATTAGCATTGG+TGG 0.582759 8:-22995850 MsG0880043329.01.T01:CDS
CTACTACGGAAGACATCTAG+TGG 0.584970 8:+22995406 None:intergenic
GATCCTTGTGAGCGAATCGA+CGG 0.588051 8:+22995771 None:intergenic
AACTCAATCACTGTGCGGAT+AGG 0.588108 8:+22995520 None:intergenic
ATTACCTCCGTCACATGGAT+CGG 0.598869 8:+22995432 None:intergenic
ACAATGTCTAATCCCATCAT+CGG 0.602576 8:-22996114 MsG0880043329.01.T01:CDS
GGAAAGGTATCCCGAAGTCA+AGG 0.607031 8:-22995869 MsG0880043329.01.T01:CDS
CTAGTAATTAATTATTACTG+AGG 0.607503 8:+22995299 None:intergenic
GTTGTAAGTCTCATGGGCAA+AGG 0.623453 8:+22995972 None:intergenic
GGAACATTACCTCCGTCACA+TGG 0.627781 8:+22995427 None:intergenic
AGACGCTGAAGTTATCAAAG+TGG 0.632806 8:-22995644 MsG0880043329.01.T01:CDS
GCAAGCACCGATCCATGTGA+CGG 0.635859 8:-22995439 MsG0880043329.01.T01:CDS
TGAATTACTCCTGACGAGAT+GGG 0.637582 8:+22995378 None:intergenic
CTGCGGTATAAACAGAGTGA+CGG 0.651634 8:-22995899 MsG0880043329.01.T01:CDS
AGTTACATGGAATGGAGCAA+TGG 0.661331 8:+22995618 None:intergenic
GTCAGGAGTAATTCACTCAG+TGG 0.679195 8:-22995370 MsG0880043329.01.T01:CDS
GAGTGACGGAGATCAGGGAA+AGG 0.681635 8:-22995885 MsG0880043329.01.T01:CDS
AGCACCGATCCATGTGACGG+AGG 0.685435 8:-22995436 MsG0880043329.01.T01:CDS
GATTGGCAACTTGATATCTG+CGG 0.718900 8:-22995916 MsG0880043329.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAGCCCTAACTATATTAATT+GGG - Chr8:22995851-22995870 MsG0880043329.01.T01:CDS 25.0%
! CAACCCAATTAATATAGTTA+GGG + Chr8:22995857-22995876 None:intergenic 25.0%
! TCAACCCAATTAATATAGTT+AGG + Chr8:22995858-22995877 None:intergenic 25.0%
! TCAATATCAGGGAATTTAAA+AGG + Chr8:22995390-22995409 None:intergenic 25.0%
ATCAGGGAATTTAAAAGGTT+TGG + Chr8:22995385-22995404 None:intergenic 30.0%
ATCCAGATTTCTTGATCAAT+AGG + Chr8:22995618-22995637 None:intergenic 30.0%
ATCCTATTGATCAAGAAATC+TGG - Chr8:22995613-22995632 MsG0880043329.01.T01:CDS 30.0%
CAAGCCCTAACTATATTAAT+TGG - Chr8:22995850-22995869 MsG0880043329.01.T01:CDS 30.0%
TATTTGTGAGTTACATGGAA+TGG + Chr8:22995810-22995829 None:intergenic 30.0%
TCAGGGAATTTAAAAGGTTT+GGG + Chr8:22995384-22995403 None:intergenic 30.0%
TGTAGTATTTGTGAGTTACA+TGG + Chr8:22995815-22995834 None:intergenic 30.0%
TTAAAAACTCAATCACTGTG+CGG + Chr8:22995905-22995924 None:intergenic 30.0%
! AATTTAAAAGGTTTGGGGTA+TGG + Chr8:22995378-22995397 None:intergenic 30.0%
! ATTTTGTTGCTGTCAATATC+AGG + Chr8:22995402-22995421 None:intergenic 30.0%
! TTTTGTTGCTGTCAATATCA+GGG + Chr8:22995401-22995420 None:intergenic 30.0%
!! TTGAGTTTTTAAGCCTCTTT+TGG - Chr8:22995913-22995932 MsG0880043329.01.T01:CDS 30.0%
!!! GTCATTTTTCGAGAATACAT+TGG - Chr8:22995345-22995364 MsG0880043329.01.T01:CDS 30.0%
AACAGTATTGTTACCGATGA+TGG + Chr8:22995319-22995338 None:intergenic 35.0%
AATCCTCAAAAACTCCTAGT+AGG - Chr8:22995954-22995973 MsG0880043329.01.T01:CDS 35.0%
ACAGTATTGTTACCGATGAT+GGG + Chr8:22995318-22995337 None:intergenic 35.0%
ACTTACAACGAAGATGGAAA+AGG - Chr8:22995459-22995478 MsG0880043329.01.T01:CDS 35.0%
ATCTTCGTTGTAAGTCTCAT+GGG + Chr8:22995454-22995473 None:intergenic 35.0%
CAGGGAATTTAAAAGGTTTG+GGG + Chr8:22995383-22995402 None:intergenic 35.0%
TAATATAGTTAGGGCTTGTC+TGG + Chr8:22995848-22995867 None:intergenic 35.0%
! AATGTTTTCTCCTTCTGTGT+TGG - Chr8:22995729-22995748 MsG0880043329.01.T01:CDS 35.0%
! ATGTTTTCTCCTTCTGTGTT+GGG - Chr8:22995730-22995749 MsG0880043329.01.T01:CDS 35.0%
! GAAGGAGAAAACATTTTCGT+TGG + Chr8:22995724-22995743 None:intergenic 35.0%
AGACGCTGAAGTTATCAAAG+TGG - Chr8:22995773-22995792 MsG0880043329.01.T01:CDS 40.0%
AGTTACATGGAATGGAGCAA+TGG + Chr8:22995802-22995821 None:intergenic 40.0%
ATCGAAGAAAACAACGCTGA+TGG - Chr8:22995669-22995688 MsG0880043329.01.T01:CDS 40.0%
CATCTTCGTTGTAAGTCTCA+TGG + Chr8:22995455-22995474 None:intergenic 40.0%
CATGAGACTTACAACGAAGA+TGG - Chr8:22995453-22995472 MsG0880043329.01.T01:CDS 40.0%
CCAATCGGGATAGAAATTTC+CGG + Chr8:22995487-22995506 None:intergenic 40.0%
CTAATTAGCACCTTGACTTC+GGG + Chr8:22995561-22995580 None:intergenic 40.0%
GATTGGCAACTTGATATCTG+CGG - Chr8:22995501-22995520 MsG0880043329.01.T01:CDS 40.0%
GCTAATTAGCACCTTGACTT+CGG + Chr8:22995562-22995581 None:intergenic 40.0%
TATTACTTCCCCAACACAGA+AGG + Chr8:22995742-22995761 None:intergenic 40.0%
TGAATTACTCCTGACGAGAT+GGG + Chr8:22996042-22996061 None:intergenic 40.0%
! AAGGTGCTAATTAGCATTGG+TGG - Chr8:22995567-22995586 MsG0880043329.01.T01:CDS 40.0%
! CACTCAGTGGCATTTTCATT+TGG - Chr8:22996060-22996079 MsG0880043329.01.T01:CDS 40.0%
! CAGATATCAAGTTGCCAATC+GGG + Chr8:22995501-22995520 None:intergenic 40.0%
! GCAGATATCAAGTTGCCAAT+CGG + Chr8:22995502-22995521 None:intergenic 40.0%
! GTCAAGGTGCTAATTAGCAT+TGG - Chr8:22995564-22995583 MsG0880043329.01.T01:CDS 40.0%
! TGTTTTCTCCTTCTGTGTTG+GGG - Chr8:22995731-22995750 MsG0880043329.01.T01:CDS 40.0%
AACTCAATCACTGTGCGGAT+AGG + Chr8:22995900-22995919 None:intergenic 45.0%
ATTACCTCCGTCACATGGAT+CGG + Chr8:22995988-22996007 None:intergenic 45.0%
CCGGAAATTTCTATCCCGAT+TGG - Chr8:22995484-22995503 MsG0880043329.01.T01:CDS 45.0%
CTACTACGGAAGACATCTAG+TGG + Chr8:22996014-22996033 None:intergenic 45.0%
CTGCGGTATAAACAGAGTGA+CGG - Chr8:22995518-22995537 MsG0880043329.01.T01:CDS 45.0%
GGATAGGCTGCATGTAGAAT+TGG + Chr8:22995884-22995903 None:intergenic 45.0%
GTCAGGAGTAATTCACTCAG+TGG - Chr8:22996047-22996066 MsG0880043329.01.T01:CDS 45.0%
GTGAATTACTCCTGACGAGA+TGG + Chr8:22996043-22996062 None:intergenic 45.0%
GTTGTAAGTCTCATGGGCAA+AGG + Chr8:22995448-22995467 None:intergenic 45.0%
! AAACAGAGTGACGGAGATCA+GGG - Chr8:22995527-22995546 MsG0880043329.01.T01:CDS 45.0%
! AACGAAGATGGAAAAGGCAC+CGG - Chr8:22995465-22995484 MsG0880043329.01.T01:CDS 45.0%
! GCTCCTACTAGGAGTTTTTG+AGG + Chr8:22995960-22995979 None:intergenic 45.0%
! TAAACAGAGTGACGGAGATC+AGG - Chr8:22995526-22995545 MsG0880043329.01.T01:CDS 45.0%
CGAGATGGGTGCAACTACTA+CGG + Chr8:22996028-22996047 None:intergenic 50.0%
GATCCTTGTGAGCGAATCGA+CGG + Chr8:22995649-22995668 None:intergenic 50.0%
GGAACATTACCTCCGTCACA+TGG + Chr8:22995993-22996012 None:intergenic 50.0%
GGGCAAAGGCGAAAATGACA+TGG + Chr8:22995434-22995453 None:intergenic 50.0%
!! GGAAAGGTATCCCGAAGTCA+AGG - Chr8:22995548-22995567 MsG0880043329.01.T01:CDS 50.0%
!!! CCTCTTTTGGAGTCTCGCAT+GGG - Chr8:22995926-22995945 MsG0880043329.01.T01:CDS 50.0%
CCCATGCGAGACTCCAAAAG+AGG + Chr8:22995929-22995948 None:intergenic 55.0%
GTAGTTGCACCCATCTCGTC+AGG - Chr8:22996030-22996049 MsG0880043329.01.T01:CDS 55.0%
! GAGTGACGGAGATCAGGGAA+AGG - Chr8:22995532-22995551 MsG0880043329.01.T01:CDS 55.0%
! GATCGGTGCTTGCTCCTACT+AGG + Chr8:22995971-22995990 None:intergenic 55.0%
!! ATGCCGTCGATTCGCTCACA+AGG - Chr8:22995643-22995662 MsG0880043329.01.T01:CDS 55.0%
!! GCAAGCACCGATCCATGTGA+CGG - Chr8:22995978-22995997 MsG0880043329.01.T01:CDS 55.0%
!!! GCCTCTTTTGGAGTCTCGCA+TGG - Chr8:22995925-22995944 MsG0880043329.01.T01:CDS 55.0%
!! AGCACCGATCCATGTGACGG+AGG - Chr8:22995981-22996000 MsG0880043329.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr8 gene 22995306 22996133 22995306 ID=MsG0880043329.01;Name=MsG0880043329.01
Chr8 mRNA 22995306 22996133 22995306 ID=MsG0880043329.01.T01;Parent=MsG0880043329.01;Name=MsG0880043329.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|275
Chr8 exon 22995306 22996133 22995306 ID=MsG0880043329.01.T01:exon:8410;Parent=MsG0880043329.01.T01
Chr8 CDS 22995306 22996133 22995306 ID=MsG0880043329.01.T01:cds;Parent=MsG0880043329.01.T01
Gene Sequence

>MsG0880043329.01.T01

ATGTCTAATCCCATCATCGGTAACAATACTGTTGATCGAGTCATTTTTCGAGAATACATTGGCGTGAAGCCATACCCCAAACCTTTTAAATTCCCTGATATTGACAGCAACAAAATCGATGAATTCCATGTCATTTTCGCCTTTGCCCATGAGACTTACAACGAAGATGGAAAAGGCACCGGAAATTTCTATCCCGATTGGCAACTTGATATCTGCGGTATAAACAGAGTGACGGAGATCAGGGAAAGGTATCCCGAAGTCAAGGTGCTAATTAGCATTGGTGGTCGTGATGCTGAAAATTCATTCGATCCTATTGATCAAGAAATCTGGATTCAAAATGCCGTCGATTCGCTCACAAGGATCATCGAAGAAAACAACGCTGATGGCATTGATATTTTCTATGACTGCATCAAAACCAACGAAAATGTTTTCTCCTTCTGTGTTGGGGAAGTAATAAGAAGACTCAAAGACGCTGAAGTTATCAAAGTGGTGTCCATTGCTCCATTCCATGTAACTCACAAATACTACAAGCTACTCTACCAGACAAGCCCTAACTATATTAATTGGGTTGACTACCAATTCTACATGCAGCCTATCCGCACAGTGATTGAGTTTTTAAGCCTCTTTTGGAGTCTCGCATGGGAATACAATCCTCAAAAACTCCTAGTAGGAGCAAGCACCGATCCATGTGACGGAGGTAATGTTCCACTAGATGTCTTCCGTAGTAGTTGCACCCATCTCGTCAGGAGTAATTCACTCAGTGGCATTTTCATTTGGAATGCTAATGACTATGAGAAAATTGCACTAGATATCCTCAGTAATAATTAA

Protein sequence

>MsG0880043329.01.T01

MSNPIIGNNTVDRVIFREYIGVKPYPKPFKFPDIDSNKIDEFHVIFAFAHETYNEDGKGTGNFYPDWQLDICGINRVTEIRERYPEVKVLISIGGRDAENSFDPIDQEIWIQNAVDSLTRIIEENNADGIDIFYDCIKTNENVFSFCVGEVIRRLKDAEVIKVVSIAPFHVTHKYYKLLYQTSPNYINWVDYQFYMQPIRTVIEFLSLFWSLAWEYNPQKLLVGASTDPCDGGNVPLDVFRSSCTHLVRSNSLSGIFIWNANDYEKIALDILSNN*