AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010376.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010376.01.T01 MTR_2g082930 97.209 215 6 0 1 215 1 215 4.01e-156 431
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010376.01.T01 AT1G51100 69.780 182 47 4 37 215 35 211 1.25e-81 242

Find 38 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCCAACCTATTTCAAAATT+TGG 0.094353 2:-68754031 None:intergenic
TTCTCTATAGGAAATGTTTC+TGG 0.167892 2:-68753944 None:intergenic
TCAGAAGATGTGGAATTTAA+TGG 0.265594 2:-68753875 None:intergenic
CTGTTCATTGTAGTGTTTGT+AGG 0.309624 2:-68753920 None:intergenic
GAGGTTGATGGAAATGGATT+TGG 0.355148 2:+68754270 MsG0280010376.01.T01:CDS
GAACTTATGAAGAAGGAATA+TGG 0.383069 2:+68754124 MsG0280010376.01.T01:CDS
ATTGTAGTGTTTGTAGGGTC+TGG 0.399199 2:-68753914 None:intergenic
TGTTCATTGTAGTGTTTGTA+GGG 0.442377 2:-68753919 None:intergenic
GTTGGAGGAACTTATGAAGA+AGG 0.476939 2:+68754117 MsG0280010376.01.T01:CDS
TGGCTCGGCATTTGCAAGGT+CGG 0.477066 2:-68754008 None:intergenic
CAACCTATTTCAAAATTTGG+TGG 0.478009 2:-68754028 None:intergenic
AGGAAAAGTTGAGGAGAGAA+TGG 0.490855 2:+68754225 MsG0280010376.01.T01:CDS
ATGAAGAGTTAAAATTCAAA+AGG 0.492536 2:-68754386 None:intergenic
GAGAGATGAAGGAAAAGTTG+AGG 0.497620 2:+68754216 MsG0280010376.01.T01:CDS
ACAGAACTGTTGGCAAAAGT+TGG 0.501386 2:+68754151 MsG0280010376.01.T01:CDS
TATTTCAAAATTTGGTGGCT+CGG 0.505623 2:-68754023 None:intergenic
TGAAAGGTGTGAAGATGTGT+TGG 0.506225 2:-68753804 None:intergenic
TATGGTGAAAGCTTCTGTTA+AGG 0.539994 2:+68754294 MsG0280010376.01.T01:CDS
AGGAAGATACTTTGAATGAG+AGG 0.541636 2:+68754314 MsG0280010376.01.T01:CDS
TTGTGTAGATGATGAGGTGT+AGG 0.543834 2:-68753770 None:intergenic
ATATGGTTCAACAGAACTGT+TGG 0.553725 2:+68754141 MsG0280010376.01.T01:CDS
GATGGAAATGGATTTGGCTA+TGG 0.555092 2:+68754276 MsG0280010376.01.T01:CDS
AAATTCTTGCTCAGAAGATG+TGG 0.558444 2:-68753885 None:intergenic
CAGAGATAATCAGACAAAGA+AGG 0.559049 2:+68753978 MsG0280010376.01.T01:CDS
AGTGTTTGTAGGGTCTGGTG+TGG 0.564863 2:-68753909 None:intergenic
TCAGCTACCACATACCCTAC+TGG 0.567101 2:-68754082 None:intergenic
TGAGAAGCCAGTAGGGTATG+TGG 0.573091 2:+68754075 MsG0280010376.01.T01:CDS
TTGGTGGCTCGGCATTTGCA+AGG 0.573166 2:-68754012 None:intergenic
ATCAAGCTAAGGCTAGGTGC+AGG 0.575411 2:+68754341 MsG0280010376.01.T01:CDS
ATTAACCTTGAGAAGCCAGT+AGG 0.578990 2:+68754067 MsG0280010376.01.T01:CDS
GTGTTTGTAGGGTCTGGTGT+GGG 0.588160 2:-68753908 None:intergenic
TGAGAGGCTTGATCAAGCTA+AGG 0.591500 2:+68754330 MsG0280010376.01.T01:CDS
TGTGAGGAATGTTGAAGCCA+TGG 0.619146 2:-68753744 None:intergenic
GGCTTGATCAAGCTAAGGCT+AGG 0.619994 2:+68754335 MsG0280010376.01.T01:CDS
TTAACCTTGAGAAGCCAGTA+GGG 0.629422 2:+68754068 MsG0280010376.01.T01:CDS
CATACCCTACTGGCTTCTCA+AGG 0.644603 2:-68754072 None:intergenic
AAGAGATTGTGTAGATGATG+AGG 0.673918 2:-68753776 None:intergenic
GATGAGGTGTAGGATATGTG+AGG 0.690908 2:-68753760 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTATGAAAAAGTGCTTTT+TGG - Chr2:68753846-68753865 None:intergenic 20.0%
! TTCCAACCTATTTCAAAATT+TGG - Chr2:68754034-68754053 None:intergenic 25.0%
!!! ATTTTGAAATAGGTTGGAAA+AGG + Chr2:68754035-68754054 MsG0280010376.01.T01:CDS 25.0%
CAACCTATTTCAAAATTTGG+TGG - Chr2:68754031-68754050 None:intergenic 30.0%
GAACTTATGAAGAAGGAATA+TGG + Chr2:68754124-68754143 MsG0280010376.01.T01:CDS 30.0%
TCAGAAGATGTGGAATTTAA+TGG - Chr2:68753878-68753897 None:intergenic 30.0%
TGTTCATTGTAGTGTTTGTA+GGG - Chr2:68753922-68753941 None:intergenic 30.0%
TTCTCTATAGGAAATGTTTC+TGG - Chr2:68753947-68753966 None:intergenic 30.0%
! GATCTTCTTCTTTTCTCTAT+AGG - Chr2:68753959-68753978 None:intergenic 30.0%
! TATTTCAAAATTTGGTGGCT+CGG - Chr2:68754026-68754045 None:intergenic 30.0%
!!! CACCAAATTTTGAAATAGGT+TGG + Chr2:68754029-68754048 MsG0280010376.01.T01:CDS 30.0%
!!! TTGAACTCTTTAGAGTTTTG+AGG + Chr2:68754251-68754270 MsG0280010376.01.T01:CDS 30.0%
!!! TTTTGTTGTTGTGAGTTGAA+AGG - Chr2:68753823-68753842 None:intergenic 30.0%
AAATTCTTGCTCAGAAGATG+TGG - Chr2:68753888-68753907 None:intergenic 35.0%
AAGAGATTGTGTAGATGATG+AGG - Chr2:68753779-68753798 None:intergenic 35.0%
AGGAAGATACTTTGAATGAG+AGG + Chr2:68754314-68754333 MsG0280010376.01.T01:CDS 35.0%
ATATGGTTCAACAGAACTGT+TGG + Chr2:68754141-68754160 MsG0280010376.01.T01:CDS 35.0%
CAGAGATAATCAGACAAAGA+AGG + Chr2:68753978-68753997 MsG0280010376.01.T01:CDS 35.0%
CTGTTCATTGTAGTGTTTGT+AGG - Chr2:68753923-68753942 None:intergenic 35.0%
TATGGTGAAAGCTTCTGTTA+AGG + Chr2:68754294-68754313 MsG0280010376.01.T01:CDS 35.0%
!! GCAGAAATTTTGAGAGATGA+AGG + Chr2:68754205-68754224 MsG0280010376.01.T01:CDS 35.0%
!!! AGCTGATTTTTTGGAGAAGT+TGG + Chr2:68754099-68754118 MsG0280010376.01.T01:CDS 35.0%
!!! AGTTTTGAGGTTGATGGAAA+TGG + Chr2:68754264-68754283 MsG0280010376.01.T01:CDS 35.0%
!!! CTTTAGAGTTTTGAGGTTGA+TGG + Chr2:68754258-68754277 MsG0280010376.01.T01:CDS 35.0%
!!! GAGCCACCAAATTTTGAAAT+AGG + Chr2:68754025-68754044 MsG0280010376.01.T01:CDS 35.0%
!!! GTATGTGGTAGCTGATTTTT+TGG + Chr2:68754090-68754109 MsG0280010376.01.T01:CDS 35.0%
!!! TGATTTTTTGGAGAAGTTGG+AGG + Chr2:68754102-68754121 MsG0280010376.01.T01:CDS 35.0%
ACAGAACTGTTGGCAAAAGT+TGG + Chr2:68754151-68754170 MsG0280010376.01.T01:CDS 40.0%
AGGAAAAGTTGAGGAGAGAA+TGG + Chr2:68754225-68754244 MsG0280010376.01.T01:CDS 40.0%
ATTAACCTTGAGAAGCCAGT+AGG + Chr2:68754067-68754086 MsG0280010376.01.T01:CDS 40.0%
ATTGTAGTGTTTGTAGGGTC+TGG - Chr2:68753917-68753936 None:intergenic 40.0%
GAGAGATGAAGGAAAAGTTG+AGG + Chr2:68754216-68754235 MsG0280010376.01.T01:CDS 40.0%
GTTGGAGGAACTTATGAAGA+AGG + Chr2:68754117-68754136 MsG0280010376.01.T01:CDS 40.0%
TTAACCTTGAGAAGCCAGTA+GGG + Chr2:68754068-68754087 MsG0280010376.01.T01:CDS 40.0%
TTGTGTAGATGATGAGGTGT+AGG - Chr2:68753773-68753792 None:intergenic 40.0%
! GATGGAAATGGATTTGGCTA+TGG + Chr2:68754276-68754295 MsG0280010376.01.T01:CDS 40.0%
! TGAAAGGTGTGAAGATGTGT+TGG - Chr2:68753807-68753826 None:intergenic 40.0%
!! GAGGTTGATGGAAATGGATT+TGG + Chr2:68754270-68754289 MsG0280010376.01.T01:CDS 40.0%
GATGAGGTGTAGGATATGTG+AGG - Chr2:68753763-68753782 None:intergenic 45.0%
TGAGAGGCTTGATCAAGCTA+AGG + Chr2:68754330-68754349 MsG0280010376.01.T01:CDS 45.0%
!! GCATTTGCAAGGTCGGTTTT+CGG - Chr2:68754004-68754023 None:intergenic 45.0%
AGTGTTTGTAGGGTCTGGTG+TGG - Chr2:68753912-68753931 None:intergenic 50.0%
ATCAAGCTAAGGCTAGGTGC+AGG + Chr2:68754341-68754360 MsG0280010376.01.T01:CDS 50.0%
GGCTTGATCAAGCTAAGGCT+AGG + Chr2:68754335-68754354 MsG0280010376.01.T01:CDS 50.0%
GTGTTTGTAGGGTCTGGTGT+GGG - Chr2:68753911-68753930 None:intergenic 50.0%
TCAGCTACCACATACCCTAC+TGG - Chr2:68754085-68754104 None:intergenic 50.0%
TGAGAAGCCAGTAGGGTATG+TGG + Chr2:68754075-68754094 MsG0280010376.01.T01:CDS 50.0%
!! CATACCCTACTGGCTTCTCA+AGG - Chr2:68754075-68754094 None:intergenic 50.0%
! TGGCTCGGCATTTGCAAGGT+CGG - Chr2:68754011-68754030 None:intergenic 55.0%
! TTGGTGGCTCGGCATTTGCA+AGG - Chr2:68754015-68754034 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 68753746 68754393 68753746 ID=MsG0280010376.01;Name=MsG0280010376.01
Chr2 mRNA 68753746 68754393 68753746 ID=MsG0280010376.01.T01;Parent=MsG0280010376.01;Name=MsG0280010376.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|215
Chr2 exon 68753746 68754393 68753746 ID=MsG0280010376.01.T01:exon:5947;Parent=MsG0280010376.01.T01
Chr2 CDS 68753746 68754393 68753746 ID=MsG0280010376.01.T01:cds;Parent=MsG0280010376.01.T01
Gene Sequence

>MsG0280010376.01.T01

ATGGCTTCAACATTCCTCACATATCCTACACCTCATCATCTACACAATCTCTTTCAAACCAACACATCTTCACACCTTTCAACTCACAACAACAAAACCAAAAAGCACTTTTTCATAAAATGCACTACTCCATTAAATTCCACATCTTCTGAGCAAGAATTTCCCACACCAGACCCTACAAACACTACAATGAACAGTCCAGAAACATTTCCTATAGAGAAAAGAAGAAGATCAGAGATAATCAGACAAAGAAGGCCGAAAACCGACCTTGCAAATGCCGAGCCACCAAATTTTGAAATAGGTTGGAAAAGGACAAAAGAGATTAACCTTGAGAAGCCAGTAGGGTATGTGGTAGCTGATTTTTTGGAGAAGTTGGAGGAACTTATGAAGAAGGAATATGGTTCAACAGAACTGTTGGCAAAAGTTGGTGAAATTGTTGCTGAAAGAGCAAGAGAAGAAGCAGAAATTTTGAGAGATGAAGGAAAAGTTGAGGAGAGAATGGTTGTTGAACTCTTTAGAGTTTTGAGGTTGATGGAAATGGATTTGGCTATGGTGAAAGCTTCTGTTAAGGAAGATACTTTGAATGAGAGGCTTGATCAAGCTAAGGCTAGGTGCAGGCAAGCTATACTTGTTTGTTATTCCTTTTGA

Protein sequence

>MsG0280010376.01.T01

MASTFLTYPTPHHLHNLFQTNTSSHLSTHNNKTKKHFFIKCTTPLNSTSSEQEFPTPDPTNTTMNSPETFPIEKRRRSEIIRQRRPKTDLANAEPPNFEIGWKRTKEINLEKPVGYVVADFLEKLEELMKKEYGSTELLAKVGEIVAERAREEAEILRDEGKVEERMVVELFRVLRLMEMDLAMVKASVKEDTLNERLDQAKARCRQAILVCYSF*