AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180004928.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004928.01.T01 MTR_1g089740 93.750 144 9 0 1 144 575 718 1.99e-90 278
MsG0180004928.01.T01 MTR_1g089740 93.750 144 9 0 1 144 600 743 6.75e-90 276
MsG0180004928.01.T01 MTR_2g020870 43.949 157 55 3 15 144 708 858 4.67e-29 111
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004928.01.T01 AT1G03365 44.286 140 73 1 5 144 666 800 2.73e-30 115
MsG0180004928.01.T01 AT1G03365 44.286 140 73 1 5 144 666 800 2.73e-30 115
MsG0180004928.01.T01 AT4G03000 40.764 157 76 2 5 144 636 792 1.98e-28 109
MsG0180004928.01.T01 AT4G03000 40.764 157 76 2 5 144 636 792 1.98e-28 109
MsG0180004928.01.T01 AT2G35330 30.464 151 86 3 3 138 564 710 6.23e-13 65.1
MsG0180004928.01.T01 AT2G35330 30.464 151 86 3 3 138 537 683 6.38e-13 65.1

Find 37 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACAGATGGAGTACTTATTT+TGG 0.170025 1:+84505461 None:intergenic
ATTACAGGGTAGAGTGAAAA+AGG 0.314098 1:-84505673 MsG0180004928.01.T01:CDS
TCCTTCATCCTTGCTTCTCA+TGG 0.329337 1:+84505268 None:intergenic
TTAAATGGTGAAAACATTAC+AGG 0.336837 1:-84505688 None:intergenic
TTCCACCAGCTGGTTTGTCT+TGG 0.343705 1:+84505394 None:intergenic
TCCACCAGCTGGTTTGTCTT+GGG 0.350976 1:+84505395 None:intergenic
CGCTTCAATCTTCCACCAGC+TGG 0.354227 1:+84505384 None:intergenic
TCATGGAGCTCATTGCAATT+CGG 0.431116 1:+84505285 None:intergenic
CAACCGACCTCTCCTCTGAT+AGG 0.432294 1:+84505340 None:intergenic
AAATCTGAGACGGTGACGAC+GGG 0.504966 1:-84505423 MsG0180004928.01.T01:CDS
GCTGTGCTAAGACTAAAATC+TGG 0.520602 1:-84505486 MsG0180004928.01.T01:CDS
CACAAAACCTGATGCGCACA+TGG 0.524231 1:+84505309 None:intergenic
TCCATGAGAAGCAAGGATGA+AGG 0.540829 1:-84505269 None:intergenic
ACTAGCTGCCTTCTTTCTGA+CGG 0.543071 1:+84505557 None:intergenic
GGAGGATGCCGTCAGAAAGA+AGG 0.545930 1:-84505565 MsG0180004928.01.T01:CDS
AGCTGGTGGAAGATTGAAGC+GGG 0.553151 1:-84505382 MsG0180004928.01.T01:CDS
GAAGGCAGCTAGTCAACTGC+AGG 0.553567 1:-84505547 MsG0180004928.01.T01:CDS
GGCTCCCAAGACAAACCAGC+TGG 0.554984 1:-84505399 MsG0180004928.01.T01:CDS
TAGTCAACTGCAGGAATATG+TGG 0.573830 1:-84505538 MsG0180004928.01.T01:CDS
CAAAATAAGTACTCCATCTG+TGG 0.591010 1:-84505460 MsG0180004928.01.T01:CDS
CAGCATGGTAAAGCTAGAGA+AGG 0.592676 1:-84505514 MsG0180004928.01.T01:CDS
GAAATCTGAGACGGTGACGA+CGG 0.593570 1:-84505424 MsG0180004928.01.T01:CDS
TCTGAGACGGTGACGACGGG+GGG 0.600103 1:-84505420 MsG0180004928.01.T01:CDS
TAAAGTATGCAGCCTGTGCG+AGG 0.601463 1:+84505628 None:intergenic
TAAATGGTGAAAACATTACA+GGG 0.620846 1:-84505687 MsG0180004928.01.T01:CDS
GCAGGAATATGTGGACAGCA+TGG 0.623496 1:-84505529 MsG0180004928.01.T01:CDS
AGCACTCATGAAAGCTGAGG+AGG 0.628540 1:-84505583 MsG0180004928.01.T01:CDS
TCCCAAGACAAACCAGCTGG+TGG 0.630501 1:-84505396 MsG0180004928.01.T01:CDS
ATCTGAGACGGTGACGACGG+GGG 0.633833 1:-84505421 MsG0180004928.01.T01:CDS
AGAAAACAAGAAATCTGAGA+CGG 0.635352 1:-84505433 MsG0180004928.01.T01:CDS
GTGCCTATCAGAGGAGAGGT+CGG 0.640007 1:-84505343 MsG0180004928.01.T01:CDS
TGAAGCACTCATGAAAGCTG+AGG 0.649898 1:-84505586 MsG0180004928.01.T01:CDS
AATCTGAGACGGTGACGACG+GGG 0.653084 1:-84505422 MsG0180004928.01.T01:CDS
AATGAGCTCCATGAGAAGCA+AGG 0.654313 1:-84505276 MsG0180004928.01.T01:CDS
TCATGTGCCTATCAGAGGAG+AGG 0.661659 1:-84505347 MsG0180004928.01.T01:CDS
GTGTGTCATGTGCCTATCAG+AGG 0.697894 1:-84505352 MsG0180004928.01.T01:CDS
CAGCTGGTGGAAGATTGAAG+CGG 0.698320 1:-84505383 MsG0180004928.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGAAAACAAGAAATCTGAGA+CGG - Chr1:84505523-84505542 MsG0180004928.01.T01:CDS 30.0%
ATTACAGGGTAGAGTGAAAA+AGG - Chr1:84505283-84505302 MsG0180004928.01.T01:CDS 35.0%
CAAAATAAGTACTCCATCTG+TGG - Chr1:84505496-84505515 MsG0180004928.01.T01:CDS 35.0%
! TTGTTTTCTTTCACCACAGA+TGG + Chr1:84505512-84505531 None:intergenic 35.0%
!! CACAGATGGAGTACTTATTT+TGG + Chr1:84505498-84505517 None:intergenic 35.0%
GCTGTGCTAAGACTAAAATC+TGG - Chr1:84505470-84505489 MsG0180004928.01.T01:CDS 40.0%
TAGTCAACTGCAGGAATATG+TGG - Chr1:84505418-84505437 MsG0180004928.01.T01:CDS 40.0%
TCATGGAGCTCATTGCAATT+CGG + Chr1:84505674-84505693 None:intergenic 40.0%
AATGAGCTCCATGAGAAGCA+AGG - Chr1:84505680-84505699 MsG0180004928.01.T01:CDS 45.0%
ACTAGCTGCCTTCTTTCTGA+CGG + Chr1:84505402-84505421 None:intergenic 45.0%
CAGCATGGTAAAGCTAGAGA+AGG - Chr1:84505442-84505461 MsG0180004928.01.T01:CDS 45.0%
GACAGAAAAAATCCTCGCAC+AGG - Chr1:84505316-84505335 MsG0180004928.01.T01:CDS 45.0%
! TGAAGCACTCATGAAAGCTG+AGG - Chr1:84505370-84505389 MsG0180004928.01.T01:CDS 45.0%
AGCACTCATGAAAGCTGAGG+AGG - Chr1:84505373-84505392 MsG0180004928.01.T01:CDS 50.0%
AGCTGGTGGAAGATTGAAGC+GGG - Chr1:84505574-84505593 MsG0180004928.01.T01:CDS 50.0%
CACAAAACCTGATGCGCACA+TGG + Chr1:84505650-84505669 None:intergenic 50.0%
CAGCTGGTGGAAGATTGAAG+CGG - Chr1:84505573-84505592 MsG0180004928.01.T01:CDS 50.0%
GCAGGAATATGTGGACAGCA+TGG - Chr1:84505427-84505446 MsG0180004928.01.T01:CDS 50.0%
GTGTGTCATGTGCCTATCAG+AGG - Chr1:84505604-84505623 MsG0180004928.01.T01:CDS 50.0%
TAAAGTATGCAGCCTGTGCG+AGG + Chr1:84505331-84505350 None:intergenic 50.0%
TCATGTGCCTATCAGAGGAG+AGG - Chr1:84505609-84505628 MsG0180004928.01.T01:CDS 50.0%
! AAATCTGAGACGGTGACGAC+GGG - Chr1:84505533-84505552 MsG0180004928.01.T01:CDS 50.0%
! GAAATCTGAGACGGTGACGA+CGG - Chr1:84505532-84505551 MsG0180004928.01.T01:CDS 50.0%
! TTTTCTGCCATGTGCGCATC+AGG - Chr1:84505640-84505659 MsG0180004928.01.T01:CDS 50.0%
!! TCCACCAGCTGGTTTGTCTT+GGG + Chr1:84505564-84505583 None:intergenic 50.0%
!! TTCCACCAGCTGGTTTGTCT+TGG + Chr1:84505565-84505584 None:intergenic 50.0%
CAACCGACCTCTCCTCTGAT+AGG + Chr1:84505619-84505638 None:intergenic 55.0%
CGCTTCAATCTTCCACCAGC+TGG + Chr1:84505575-84505594 None:intergenic 55.0%
GAAGGCAGCTAGTCAACTGC+AGG - Chr1:84505409-84505428 MsG0180004928.01.T01:CDS 55.0%
GGAGGATGCCGTCAGAAAGA+AGG - Chr1:84505391-84505410 MsG0180004928.01.T01:CDS 55.0%
GTGCCTATCAGAGGAGAGGT+CGG - Chr1:84505613-84505632 MsG0180004928.01.T01:CDS 55.0%
TCCCAAGACAAACCAGCTGG+TGG - Chr1:84505560-84505579 MsG0180004928.01.T01:CDS 55.0%
! AATCTGAGACGGTGACGACG+GGG - Chr1:84505534-84505553 MsG0180004928.01.T01:CDS 55.0%
GGCTCCCAAGACAAACCAGC+TGG - Chr1:84505557-84505576 MsG0180004928.01.T01:CDS 60.0%
! ATCTGAGACGGTGACGACGG+GGG - Chr1:84505535-84505554 MsG0180004928.01.T01:CDS 60.0%
! TCTGAGACGGTGACGACGGG+GGG - Chr1:84505536-84505555 MsG0180004928.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr1 gene 84505272 84505706 84505272 ID=MsG0180004928.01;Name=MsG0180004928.01
Chr1 mRNA 84505272 84505706 84505272 ID=MsG0180004928.01.T01;Parent=MsG0180004928.01;Name=MsG0180004928.01.T01;_AED=0.42;_eAED=0.42;_QI=0|-1|0|1|-1|1|1|0|144
Chr1 exon 84505272 84505706 84505272 ID=MsG0180004928.01.T01:exon:9299;Parent=MsG0180004928.01.T01
Chr1 CDS 84505272 84505706 84505272 ID=MsG0180004928.01.T01:cds;Parent=MsG0180004928.01.T01
Gene Sequence

>MsG0180004928.01.T01

ATGGTGAAAACATTACAGGGTAGAGTGAAAAAGGAGAGAGCTAAGACAGAAAAAATCCTCGCACAGGCTGCATACTTTAGAAAAGAAAGAGAACAGTCTGAAGCACTCATGAAAGCTGAGGAGGATGCCGTCAGAAAGAAGGCAGCTAGTCAACTGCAGGAATATGTGGACAGCATGGTAAAGCTAGAGAAGGAGATCGCTGTGCTAAGACTAAAATCTGGTTCCAAAATAAGTACTCCATCTGTGGTGAAAGAAAACAAGAAATCTGAGACGGTGACGACGGGGGGCTCCCAAGACAAACCAGCTGGTGGAAGATTGAAGCGGGAGCATGAGTGTGTCATGTGCCTATCAGAGGAGAGGTCGGTTGTTTTTCTGCCATGTGCGCATCAGGTTTTGTGTCCGAATTGCAATGAGCTCCATGAGAAGCAAGGATGA

Protein sequence

>MsG0180004928.01.T01

MVKTLQGRVKKERAKTEKILAQAAYFRKEREQSEALMKAEEDAVRKKAASQLQEYVDSMVKLEKEIAVLRLKSGSKISTPSVVKENKKSETVTTGGSQDKPAGGRLKREHECVMCLSEERSVVFLPCAHQVLCPNCNELHEKQG*