AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880045630.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045630.01.T01 MTR_0002s0420 95.588 204 9 0 1 204 1 204 5.79e-136 400
MsG0880045630.01.T01 MTR_4g073360 95.699 186 8 0 19 204 1 186 6.46e-128 363
MsG0880045630.01.T01 MTR_6g033745 45.833 144 36 4 1 110 1 136 2.30e-31 114
MsG0880045630.01.T01 MTR_7g021750 27.751 209 141 4 1 204 1 204 2.17e-23 96.3
MsG0880045630.01.T01 MTR_4g051290 27.751 209 141 4 1 204 1 204 2.56e-23 95.9
MsG0880045630.01.T01 MTR_0002s0380 27.000 200 138 3 10 204 8 204 3.28e-22 92.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045630.01.T01 ATCG00270 97.549 204 5 0 1 204 1 204 1.52e-144 407
MsG0880045630.01.T01 ATCG00020 27.000 200 138 3 10 204 8 204 2.86e-22 93.2

Find 48 sgRNAs with CRISPR-Local

Find 69 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAATGATTTATTTGATATTA+TGG 0.174845 8:+61968448 MsG0880045630.01.T01:CDS
CACACTCTTTGTTGTTACTA+TGG 0.219979 8:+61968672 MsG0880045630.01.T01:CDS
TGGATTGGCAAGTTCCTATT+TGG 0.235738 8:+61968598 MsG0880045630.01.T01:CDS
GTAAAATCTCCCTGTGCTTC+AGG 0.300213 8:-61968698 None:intergenic
GAGAATGCGATTGCATTATA+AGG 0.300314 8:-61968833 None:intergenic
GTTGCTCTCCACGGTGCTTT+CGG 0.314958 8:+61968755 MsG0880045630.01.T01:CDS
CACGGTGCTTTCGGATTAAT+AGG 0.331367 8:+61968764 MsG0880045630.01.T01:CDS
GAAGTTACAACCTTCCAAAT+AGG 0.341327 8:-61968612 None:intergenic
TTTCATATGATGGGAGTTGC+TGG 0.361487 8:+61969001 MsG0880045630.01.T01:CDS
ACACTCTTTGTTGTTACTAT+GGG 0.376237 8:+61968673 MsG0880045630.01.T01:CDS
GCAACTCCCATCATATGAAA+TGG 0.378299 8:-61968998 None:intergenic
GTACCACCTTTGTAACTTCA+TGG 0.390224 8:+61968567 MsG0880045630.01.T01:CDS
TGGTTCTTTGCGCCTAGTTT+TGG 0.399423 8:+61968914 MsG0880045630.01.T01:CDS
ATTAAACCCATTTCATATGA+TGG 0.404659 8:+61968991 MsG0880045630.01.T01:CDS
ATTTATCCACTAGGTCAGTC+TGG 0.438674 8:+61968890 MsG0880045630.01.T01:CDS
ACCACCCAATTGACACCAAC+GGG 0.447715 8:-61968720 None:intergenic
TTTACCCGTTGGTGTCAATT+GGG 0.451297 8:+61968716 MsG0880045630.01.T01:CDS
ATATTATGGATGACTGGTTA+CGG 0.469228 8:+61968462 MsG0880045630.01.T01:CDS
AGAATGCGATTGCATTATAA+GGG 0.476455 8:-61968832 None:intergenic
ATGTCCAATTATGAAACCCT+TGG 0.480474 8:-61968970 None:intergenic
GTAACTTCATGGTATACTCA+TGG 0.485071 8:+61968578 MsG0880045630.01.T01:CDS
ACTGACCTAGTGGATAAATC+AGG 0.486322 8:-61968886 None:intergenic
TATTTGATATTATGGATGAC+TGG 0.486484 8:+61968456 MsG0880045630.01.T01:CDS
ATCCACTAGGTCAGTCTGGT+TGG 0.491601 8:+61968894 MsG0880045630.01.T01:CDS
TATAATGCAATCGCATTCTC+CGG 0.499878 8:+61968836 MsG0880045630.01.T01:CDS
CAACTCCCATCATATGAAAT+GGG 0.501015 8:-61968997 None:intergenic
TTAAACCCATTTCATATGAT+GGG 0.515998 8:+61968992 MsG0880045630.01.T01:CDS
ACTATGGGGTCCTGAAGCAC+AGG 0.517502 8:+61968688 MsG0880045630.01.T01:CDS
GAGTGTGCTAAACTATTAGC+AGG 0.518169 8:-61968656 None:intergenic
ATCGCTATGACTATAGCTCT+TGG 0.526071 8:+61968407 None:intergenic
TTGGCAAGTTCCTATTTGGA+AGG 0.551100 8:+61968602 MsG0880045630.01.T01:CDS
CACTCTTTGTTGTTACTATG+GGG 0.552525 8:+61968674 MsG0880045630.01.T01:CDS
ACCCGTTGGTGTCAATTGGG+TGG 0.554774 8:+61968719 MsG0880045630.01.T01:CDS
TTCATGGTATACTCATGGAT+TGG 0.559848 8:+61968583 MsG0880045630.01.T01:CDS
ATAGCTGCTACACCAAAACT+AGG 0.575741 8:-61968926 None:intergenic
GTATTCCTGATTTATCCACT+AGG 0.576834 8:+61968881 MsG0880045630.01.T01:CDS
CCCACGGCAAAATAGGCGCA+AGG 0.582421 8:-61968530 None:intergenic
GCAAGGAAAGAGCAATAGAC+CGG 0.584469 8:-61968513 None:intergenic
GACCACCCAATTGACACCAA+CGG 0.589862 8:-61968721 None:intergenic
AGTATACCATGAAGTTACAA+AGG 0.625491 8:-61968573 None:intergenic
AACCAACCAGACTGACCTAG+TGG 0.633960 8:-61968896 None:intergenic
GGTGTCAATTGGGTGGTCTG+TGG 0.641395 8:+61968726 MsG0880045630.01.T01:CDS
AGGTTGTAACTTCTTAGCTG+CGG 0.655733 8:+61968622 MsG0880045630.01.T01:CDS
TATGGATGACTGGTTACGGA+GGG 0.661750 8:+61968466 MsG0880045630.01.T01:CDS
TTATGGATGACTGGTTACGG+AGG 0.682555 8:+61968465 MsG0880045630.01.T01:CDS
ATACCATGAAGTTACAAAGG+TGG 0.691961 8:-61968570 None:intergenic
CTATGGGGTCCTGAAGCACA+GGG 0.692896 8:+61968689 MsG0880045630.01.T01:CDS
CTATTAATCCGAAAGCACCG+TGG 0.731892 8:-61968763 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATGATTTATTTGATATTA+TGG + Chr8:61968448-61968467 MsG0880045630.01.T01:CDS 10.0%
!!! AAATAAATCATTTTCATCTT+TGG - Chr8:61968441-61968460 None:intergenic 15.0%
! ATTAAACCCATTTCATATGA+TGG + Chr8:61968991-61969010 MsG0880045630.01.T01:CDS 25.0%
! TATTTGATATTATGGATGAC+TGG + Chr8:61968456-61968475 MsG0880045630.01.T01:CDS 25.0%
! TTAAACCCATTTCATATGAT+GGG + Chr8:61968992-61969011 MsG0880045630.01.T01:CDS 25.0%
!!! GATTCATTCTATTTTTCCAA+GGG + Chr8:61968954-61968973 MsG0880045630.01.T01:CDS 25.0%
ACAGAAACAAAAACAGCAAT+TGG - Chr8:61968863-61968882 None:intergenic 30.0%
ACCAACCTACAAAAACAAAA+CGG - Chr8:61968493-61968512 None:intergenic 30.0%
AGAATGCGATTGCATTATAA+GGG - Chr8:61968835-61968854 None:intergenic 30.0%
AGTATACCATGAAGTTACAA+AGG - Chr8:61968576-61968595 None:intergenic 30.0%
! ATATTATGGATGACTGGTTA+CGG + Chr8:61968462-61968481 MsG0880045630.01.T01:CDS 30.0%
! TTTTCCAAGGGTTTCATAAT+TGG + Chr8:61968966-61968985 MsG0880045630.01.T01:CDS 30.0%
!! ACACTCTTTGTTGTTACTAT+GGG + Chr8:61968673-61968692 MsG0880045630.01.T01:CDS 30.0%
!! CGATTCATTCTATTTTTCCA+AGG + Chr8:61968953-61968972 MsG0880045630.01.T01:CDS 30.0%
AACAAAAACAGCAATTGGAC+CGG - Chr8:61968858-61968877 None:intergenic 35.0%
ATACCATGAAGTTACAAAGG+TGG - Chr8:61968573-61968592 None:intergenic 35.0%
ATGTCCAATTATGAAACCCT+TGG - Chr8:61968973-61968992 None:intergenic 35.0%
CAACTCCCATCATATGAAAT+GGG - Chr8:61969000-61969019 None:intergenic 35.0%
GAAGTTACAACCTTCCAAAT+AGG - Chr8:61968615-61968634 None:intergenic 35.0%
GAGAATGCGATTGCATTATA+AGG - Chr8:61968836-61968855 None:intergenic 35.0%
GTAACTTCATGGTATACTCA+TGG + Chr8:61968578-61968597 MsG0880045630.01.T01:CDS 35.0%
GTATTCCTGATTTATCCACT+AGG + Chr8:61968881-61968900 MsG0880045630.01.T01:CDS 35.0%
TATAATGCAATCGCATTCTC+CGG + Chr8:61968836-61968855 MsG0880045630.01.T01:CDS 35.0%
TTCATGGTATACTCATGGAT+TGG + Chr8:61968583-61968602 MsG0880045630.01.T01:CDS 35.0%
!! CACACTCTTTGTTGTTACTA+TGG + Chr8:61968672-61968691 MsG0880045630.01.T01:CDS 35.0%
!! CACTCTTTGTTGTTACTATG+GGG + Chr8:61968674-61968693 MsG0880045630.01.T01:CDS 35.0%
!!! ACCGTTTTGTTTTTGTAGGT+TGG + Chr8:61968489-61968508 MsG0880045630.01.T01:CDS 35.0%
!!! TTTGTTTTTGTAGGTTGGTC+CGG + Chr8:61968494-61968513 MsG0880045630.01.T01:CDS 35.0%
AGGTTGTAACTTCTTAGCTG+CGG + Chr8:61968622-61968641 MsG0880045630.01.T01:CDS 40.0%
ATAGCTGCTACACCAAAACT+AGG - Chr8:61968929-61968948 None:intergenic 40.0%
ATTTATCCACTAGGTCAGTC+TGG + Chr8:61968890-61968909 MsG0880045630.01.T01:CDS 40.0%
GAGTGTGCTAAACTATTAGC+AGG - Chr8:61968659-61968678 None:intergenic 40.0%
GCAACTCCCATCATATGAAA+TGG - Chr8:61969001-61969020 None:intergenic 40.0%
GTACCACCTTTGTAACTTCA+TGG + Chr8:61968567-61968586 MsG0880045630.01.T01:CDS 40.0%
TTGGCAAGTTCCTATTTGGA+AGG + Chr8:61968602-61968621 MsG0880045630.01.T01:CDS 40.0%
! ACTGACCTAGTGGATAAATC+AGG - Chr8:61968889-61968908 None:intergenic 40.0%
! TTTCATATGATGGGAGTTGC+TGG + Chr8:61969001-61969020 MsG0880045630.01.T01:CDS 40.0%
!! TGGATTGGCAAGTTCCTATT+TGG + Chr8:61968598-61968617 MsG0880045630.01.T01:CDS 40.0%
!! TTTACCCGTTGGTGTCAATT+GGG + Chr8:61968716-61968735 MsG0880045630.01.T01:CDS 40.0%
!!! AGGGACCGTTTTGTTTTTGT+AGG + Chr8:61968485-61968504 MsG0880045630.01.T01:CDS 40.0%
!!! TTTTACCCGTTGGTGTCAAT+TGG + Chr8:61968715-61968734 MsG0880045630.01.T01:CDS 40.0%
CACGGTGCTTTCGGATTAAT+AGG + Chr8:61968764-61968783 MsG0880045630.01.T01:CDS 45.0%
GCAAGGAAAGAGCAATAGAC+CGG - Chr8:61968516-61968535 None:intergenic 45.0%
GTAAAATCTCCCTGTGCTTC+AGG - Chr8:61968701-61968720 None:intergenic 45.0%
! TATGGATGACTGGTTACGGA+GGG + Chr8:61968466-61968485 MsG0880045630.01.T01:CDS 45.0%
! TGGACTTTTGTTGCTCTCCA+CGG + Chr8:61968746-61968765 MsG0880045630.01.T01:CDS 45.0%
! TGGTTCTTTGCGCCTAGTTT+TGG + Chr8:61968914-61968933 MsG0880045630.01.T01:CDS 45.0%
! TTATGGATGACTGGTTACGG+AGG + Chr8:61968465-61968484 MsG0880045630.01.T01:CDS 45.0%
!! CTATTAATCCGAAAGCACCG+TGG - Chr8:61968766-61968785 None:intergenic 45.0%
AACCAACCAGACTGACCTAG+TGG - Chr8:61968899-61968918 None:intergenic 50.0%
ACCACCCAATTGACACCAAC+GGG - Chr8:61968723-61968742 None:intergenic 50.0%
ATCCACTAGGTCAGTCTGGT+TGG + Chr8:61968894-61968913 MsG0880045630.01.T01:CDS 50.0%
GACCACCCAATTGACACCAA+CGG - Chr8:61968724-61968743 None:intergenic 50.0%
! CACAGGGAGATTTTACCCGT+TGG + Chr8:61968705-61968724 MsG0880045630.01.T01:CDS 50.0%
ACTATGGGGTCCTGAAGCAC+AGG + Chr8:61968688-61968707 MsG0880045630.01.T01:CDS 55.0%
CTATGGGGTCCTGAAGCACA+GGG + Chr8:61968689-61968708 MsG0880045630.01.T01:CDS 55.0%
GGTGTCAATTGGGTGGTCTG+TGG + Chr8:61968726-61968745 MsG0880045630.01.T01:CDS 55.0%
GTTGCTCTCCACGGTGCTTT+CGG + Chr8:61968755-61968774 MsG0880045630.01.T01:CDS 55.0%
! CCTTGCGCCTATTTTGCCGT+GGG + Chr8:61968530-61968549 MsG0880045630.01.T01:CDS 55.0%
! CTTGCGCCTATTTTGCCGTG+GGG + Chr8:61968531-61968550 MsG0880045630.01.T01:CDS 55.0%
! TCCTTGCGCCTATTTTGCCG+TGG + Chr8:61968529-61968548 MsG0880045630.01.T01:CDS 55.0%
! TTGCGCCTATTTTGCCGTGG+GGG + Chr8:61968532-61968551 MsG0880045630.01.T01:CDS 55.0%
!! ACCCGTTGGTGTCAATTGGG+TGG + Chr8:61968719-61968738 MsG0880045630.01.T01:CDS 55.0%
ACCTGTGAACCAACCCCCCA+CGG - Chr8:61968549-61968568 None:intergenic 60.0%
CCAACCCCCCACGGCAAAAT+AGG - Chr8:61968540-61968559 None:intergenic 60.0%
CCCACGGCAAAATAGGCGCA+AGG - Chr8:61968533-61968552 None:intergenic 60.0%
! CCTATTTTGCCGTGGGGGGT+TGG + Chr8:61968537-61968556 MsG0880045630.01.T01:CDS 60.0%
! TGCGCCTATTTTGCCGTGGG+GGG + Chr8:61968533-61968552 MsG0880045630.01.T01:CDS 60.0%
!! GCCGTGGGGGGTTGGTTCAC+AGG + Chr8:61968545-61968564 MsG0880045630.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr8 gene 61968413 61969042 61968413 ID=MsG0880045630.01;Name=MsG0880045630.01
Chr8 mRNA 61968413 61969042 61968413 ID=MsG0880045630.01.T01;Parent=MsG0880045630.01;Name=MsG0880045630.01.T01;_AED=0.33;_eAED=0.33;_QI=0|-1|0|1|-1|0|1|0|209
Chr8 exon 61968413 61969042 61968413 ID=MsG0880045630.01.T01:exon:12907;Parent=MsG0880045630.01.T01
Chr8 CDS 61968413 61969042 61968413 ID=MsG0880045630.01.T01:cds;Parent=MsG0880045630.01.T01
Gene Sequence

>MsG0880045630.01.T01

ATGACTATAGCTCTTGGTAAATTTACCAAAGATGAAAATGATTTATTTGATATTATGGATGACTGGTTACGGAGGGACCGTTTTGTTTTTGTAGGTTGGTCCGGTCTATTGCTCTTTCCTTGCGCCTATTTTGCCGTGGGGGGTTGGTTCACAGGTACCACCTTTGTAACTTCATGGTATACTCATGGATTGGCAAGTTCCTATTTGGAAGGTTGTAACTTCTTAGCTGCGGCAGTCTCTACTCCTGCTAATAGTTTAGCACACTCTTTGTTGTTACTATGGGGTCCTGAAGCACAGGGAGATTTTACCCGTTGGTGTCAATTGGGTGGTCTGTGGACTTTTGTTGCTCTCCACGGTGCTTTCGGATTAATAGGTTTTATGTTACGTCAATTTGAACTTGCTCGATCTGTTCAATTGCGCCCTTATAATGCAATCGCATTCTCCGGTCCAATTGCTGTTTTTGTTTCTGTATTCCTGATTTATCCACTAGGTCAGTCTGGTTGGTTCTTTGCGCCTAGTTTTGGTGTAGCAGCTATATTTCGATTCATTCTATTTTTCCAAGGGTTTCATAATTGGACATTAAACCCATTTCATATGATGGGAGTTGCTGGTTTTAAAACTATCTTTTGA

Protein sequence

>MsG0880045630.01.T01

MTIALGKFTKDENDLFDIMDDWLRRDRFVFVGWSGLLLFPCAYFAVGGWFTGTTFVTSWYTHGLASSYLEGCNFLAAAVSTPANSLAHSLLLLWGPEAQGDFTRWCQLGGLWTFVALHGAFGLIGFMLRQFELARSVQLRPYNAIAFSGPIAVFVSVFLIYPLGQSGWFFAPSFGVAAIFRFILFFQGFHNWTLNPFHMMGVAGFKTIF*