AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180001553.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001553.01.T02 MTR_1g038260 96.694 242 8 0 1 242 82 323 1.20e-169 471
MsG0180001553.01.T02 MTR_1g038290 94.175 206 12 0 37 242 116 321 5.20e-137 388
MsG0180001553.01.T01 MTR_1g038260 96.594 323 11 0 2 324 1 323 0.0 639
MsG0180001553.01.T01 MTR_1g038290 78.549 317 15 1 8 324 58 321 9.02e-176 489
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001553.01.T02 AT2G41610 56.098 205 87 3 18 220 93 296 3.30e-61 195
MsG0180001553.01.T01 AT2G41610 50.853 293 135 5 18 302 5 296 1.75e-86 263

Find 62 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTTAGTGTTCTTTGTTTA+AGG 0.102484 1:-23157852 MsG0180001553.01.T01:CDS
TTTGCATGCAAGTTTATATT+TGG 0.149495 1:-23158028 MsG0180001553.01.T01:CDS
TTGATGTCTTCGACACTTTC+AGG 0.183475 1:-23157967 MsG0180001553.01.T01:CDS
TTTGCAGCATCAACAGTTTC+TGG 0.205539 1:-23158054 MsG0180001553.01.T01:CDS
AGGATTATATGTAAAATCTT+TGG 0.207833 1:-23157832 MsG0180001553.01.T01:CDS
ACTCTCAACATTACTCTTTC+CGG 0.250688 1:+23157706 None:intergenic
GGATTATATGTAAAATCTTT+GGG 0.279614 1:-23157831 MsG0180001553.01.T01:CDS
CCCATCCAGGTTGGAATGTT+GGG 0.289826 1:+23158499 None:intergenic
TCAATGGAAAGATGATAATT+TGG 0.292595 1:+23158366 None:intergenic
TGGTCCTGCAATTCTTCTAT+TGG 0.315925 1:-23158139 MsG0180001553.01.T01:CDS
ATGTGGCATGAATTTCTTCT+AGG 0.316936 1:+23158475 None:intergenic
TGATAATGAAGCTGATTATA+AGG 0.326199 1:-23158094 MsG0180001553.01.T01:CDS
TAATGATGAATAGCCTTATC+TGG 0.349011 1:-23158533 MsG0180001553.01.T01:CDS
ATGTTGAGAGTTGTTGCTTT+TGG 0.365055 1:-23157694 MsG0180001553.01.T01:CDS
GTCCATGATTAAAGTGTTGA+TGG 0.365851 1:-23157788 MsG0180001553.01.T01:CDS
ATTATAAGTGGAAGAGATAT+AGG 0.371010 1:+23158216 None:intergenic
TTCCATCAACACTTTAATCA+TGG 0.378693 1:+23157786 None:intergenic
AGGAAAGAAGCTTTGGTTGT+TGG 0.396242 1:-23157922 MsG0180001553.01.T01:CDS
TGTTGATGGAAAGGTTTAGT+TGG 0.408545 1:-23157774 MsG0180001553.01.T01:CDS
GCAAATATTAATATTATAAG+TGG 0.410470 1:+23158204 None:intergenic
AGAACCAATAGAAGAATTGC+AGG 0.417814 1:+23158135 None:intergenic
TCCCATCCAGGTTGGAATGT+TGG 0.427040 1:+23158498 None:intergenic
AGACATCAATGCGTCGAAAC+CGG 0.427081 1:+23157981 None:intergenic
CAAATGCATAAGTTGGCAAA+TGG 0.438197 1:-23158448 MsG0180001553.01.T01:CDS
ATGAATATTATCTCAAGAAA+AGG 0.452302 1:-23158285 MsG0180001553.01.T01:CDS
TAATGGTAAGGACAATTGAT+TGG 0.454273 1:+23158411 None:intergenic
TAAAATCTTTGGGGAAAATG+TGG 0.458205 1:-23157821 MsG0180001553.01.T01:CDS
TATAATATTAATATTTGCAA+AGG 0.469546 1:-23158199 MsG0180001553.01.T01:CDS
AAAGAAGCTTTGGTTGTTGG+AGG 0.477083 1:-23157919 MsG0180001553.01.T01:CDS
AAGAAATTGTTGTGAAGAGA+AGG 0.492713 1:+23158334 None:intergenic
ATAATATTAATATTTGCAAA+GGG 0.498975 1:-23158198 MsG0180001553.01.T01:CDS
AAAATCTTTGGGGAAAATGT+GGG 0.500993 1:-23157820 MsG0180001553.01.T01:CDS
GAGAAGGACTAAGATATCAA+TGG 0.505219 1:+23158350 None:intergenic
TTTATTTATGCTATTTGCAA+GGG 0.507272 1:+23157565 None:intergenic
AATTTGTGCAATGGCTTATG+TGG 0.507413 1:-23157620 MsG0180001553.01.T01:CDS
ATTTATTTATGCTATTTGCA+AGG 0.510429 1:+23157564 None:intergenic
CTTCTAGGTCCCATCCAGGT+TGG 0.514155 1:+23158490 None:intergenic
AACTAGTGAAGTACAAAGGC+TGG 0.516433 1:-23157894 MsG0180001553.01.T01:CDS
CCCAACATTCCAACCTGGAT+GGG 0.516887 1:-23158499 MsG0180001553.01.T01:CDS
ACCCAACATTCCAACCTGGA+TGG 0.518422 1:-23158500 MsG0180001553.01.T01:CDS
ATAATCAGCTTCATTATCAA+AGG 0.521118 1:+23158098 None:intergenic
TGATTAAAGTGTTGATGGAA+AGG 0.521545 1:-23157783 MsG0180001553.01.T01:CDS
ATGGAAAGATGATAATTTGG+AGG 0.530164 1:+23158369 None:intergenic
GCGTCGAAACCGGTATAATA+CGG 0.530535 1:+23157991 None:intergenic
ATTGTGTTACCGTATTATAC+CGG 0.533901 1:-23158000 MsG0180001553.01.T01:CDS
TGTATGTAGGAAAGAAGCTT+TGG 0.534358 1:-23157929 MsG0180001553.01.T01:CDS
AAGAAGCTTTGGTTGTTGGA+GGG 0.534987 1:-23157918 MsG0180001553.01.T01:CDS
TTTGCTTCATGTTCTCAAAG+AGG 0.537931 1:-23157653 MsG0180001553.01.T01:CDS
ATTTCTTCTAGGTCCCATCC+AGG 0.541890 1:+23158486 None:intergenic
TTTGATTGCAAAGTCACCAC+CGG 0.550429 1:-23157725 MsG0180001553.01.T01:CDS
GCAGGACCAATACAAGAAAG+TGG 0.558488 1:+23158153 None:intergenic
TTGTCACATACATAATGGTA+AGG 0.559614 1:+23158399 None:intergenic
TTGGCAAATGGAAGAAACAA+TGG 0.577416 1:-23158436 MsG0180001553.01.T01:CDS
ATGTAGTCAAATTTGTGCAA+TGG 0.580987 1:-23157629 MsG0180001553.01.T01:CDS
GATTATATGTAAAATCTTTG+GGG 0.598339 1:-23157830 MsG0180001553.01.T01:CDS
AATGTGCAACATGTGTATGT+AGG 0.600872 1:-23157942 MsG0180001553.01.T01:CDS
TGGAAAGATGATAATTTGGA+GGG 0.601027 1:+23158370 None:intergenic
GGAAGAGATATAGGACCAGA+TGG 0.602839 1:+23158225 None:intergenic
CTCAACATTACTCTTTCCGG+TGG 0.610843 1:+23157709 None:intergenic
AAATCTTTGGGGAAAATGTG+GGG 0.616905 1:-23157819 MsG0180001553.01.T01:CDS
CAGGACCAATACAAGAAAGT+GGG 0.627404 1:+23158154 None:intergenic
GGGAAACTAGTGAAGTACAA+AGG 0.688754 1:-23157898 MsG0180001553.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAATATTAATATTTGCAAA+GGG - Chr1:23157903-23157922 MsG0180001553.01.T01:CDS 10.0%
!! TATAATATTAATATTTGCAA+AGG - Chr1:23157902-23157921 MsG0180001553.01.T01:CDS 10.0%
!! GCAAATATTAATATTATAAG+TGG + Chr1:23157900-23157919 None:intergenic 15.0%
!! AGGATTATATGTAAAATCTT+TGG - Chr1:23158269-23158288 MsG0180001553.01.T01:CDS 20.0%
!! ATGAATATTATCTCAAGAAA+AGG - Chr1:23157816-23157835 MsG0180001553.01.T01:CDS 20.0%
!! GATTATATGTAAAATCTTTG+GGG - Chr1:23158271-23158290 MsG0180001553.01.T01:CDS 20.0%
!! GGATTATATGTAAAATCTTT+GGG - Chr1:23158270-23158289 MsG0180001553.01.T01:CDS 20.0%
!!! AAAAGATTTTTTTTACCATC+TGG - Chr1:23157861-23157880 MsG0180001553.01.T01:CDS 20.0%
! ACTTATGCATTTGAAAAATG+TGG + Chr1:23157646-23157665 None:intergenic 25.0%
! ATAATCAGCTTCATTATCAA+AGG + Chr1:23158006-23158025 None:intergenic 25.0%
! ATTATAAGTGGAAGAGATAT+AGG + Chr1:23157888-23157907 None:intergenic 25.0%
! TCAATGGAAAGATGATAATT+TGG + Chr1:23157738-23157757 None:intergenic 25.0%
! TTTGCATGCAAGTTTATATT+TGG - Chr1:23158073-23158092 MsG0180001553.01.T01:CDS 25.0%
!! TGATAATGAAGCTGATTATA+AGG - Chr1:23158007-23158026 MsG0180001553.01.T01:CDS 25.0%
!! TTGTTAGTGTTCTTTGTTTA+AGG - Chr1:23158249-23158268 MsG0180001553.01.T01:CDS 25.0%
!!! AAGTTTTGTCACATACATAA+TGG + Chr1:23157710-23157729 None:intergenic 25.0%
!!! CATTTTTCAAATGCATAAGT+TGG - Chr1:23157646-23157665 MsG0180001553.01.T01:CDS 25.0%
!!! TAGTTGGATTTTGATAAGTT+TGG - Chr1:23158343-23158362 MsG0180001553.01.T01:CDS 25.0%
AAGAAATTGTTGTGAAGAGA+AGG + Chr1:23157770-23157789 None:intergenic 30.0%
ATGGAAAGATGATAATTTGG+AGG + Chr1:23157735-23157754 None:intergenic 30.0%
ATGTAGTCAAATTTGTGCAA+TGG - Chr1:23158472-23158491 MsG0180001553.01.T01:CDS 30.0%
ATTGTGTTACCGTATTATAC+CGG - Chr1:23158101-23158120 MsG0180001553.01.T01:CDS 30.0%
TAATGGTAAGGACAATTGAT+TGG + Chr1:23157693-23157712 None:intergenic 30.0%
TGGAAAGATGATAATTTGGA+GGG + Chr1:23157734-23157753 None:intergenic 30.0%
TGTGGCACAAAAATATAGAT+TGG - Chr1:23158499-23158518 MsG0180001553.01.T01:CDS 30.0%
TTCCATCAACACTTTAATCA+TGG + Chr1:23158318-23158337 None:intergenic 30.0%
TTGTCACATACATAATGGTA+AGG + Chr1:23157705-23157724 None:intergenic 30.0%
! AAAATCTTTGGGGAAAATGT+GGG - Chr1:23158281-23158300 MsG0180001553.01.T01:CDS 30.0%
! ATTTTCCCACTTTCTTGTAT+TGG - Chr1:23157942-23157961 MsG0180001553.01.T01:CDS 30.0%
! TAAAATCTTTGGGGAAAATG+TGG - Chr1:23158280-23158299 MsG0180001553.01.T01:CDS 30.0%
!! TGATTAAAGTGTTGATGGAA+AGG - Chr1:23158318-23158337 MsG0180001553.01.T01:CDS 30.0%
AATGTGCAACATGTGTATGT+AGG - Chr1:23158159-23158178 MsG0180001553.01.T01:CDS 35.0%
AATTTGTGCAATGGCTTATG+TGG - Chr1:23158481-23158500 MsG0180001553.01.T01:CDS 35.0%
ACTCTCAACATTACTCTTTC+CGG + Chr1:23158398-23158417 None:intergenic 35.0%
AGAACCAATAGAAGAATTGC+AGG + Chr1:23157969-23157988 None:intergenic 35.0%
ATGTGGCATGAATTTCTTCT+AGG + Chr1:23157629-23157648 None:intergenic 35.0%
GAGAAGGACTAAGATATCAA+TGG + Chr1:23157754-23157773 None:intergenic 35.0%
TGTATGTAGGAAAGAAGCTT+TGG - Chr1:23158172-23158191 MsG0180001553.01.T01:CDS 35.0%
TTGGCAAATGGAAGAAACAA+TGG - Chr1:23157665-23157684 MsG0180001553.01.T01:CDS 35.0%
TTTGCTTCATGTTCTCAAAG+AGG - Chr1:23158448-23158467 MsG0180001553.01.T01:CDS 35.0%
! AAATCTTTGGGGAAAATGTG+GGG - Chr1:23158282-23158301 MsG0180001553.01.T01:CDS 35.0%
! CAAATGCATAAGTTGGCAAA+TGG - Chr1:23157653-23157672 MsG0180001553.01.T01:CDS 35.0%
! TGTTGATGGAAAGGTTTAGT+TGG - Chr1:23158327-23158346 MsG0180001553.01.T01:CDS 35.0%
!! GTCCATGATTAAAGTGTTGA+TGG - Chr1:23158313-23158332 MsG0180001553.01.T01:CDS 35.0%
!!! ATGTTGAGAGTTGTTGCTTT+TGG - Chr1:23158407-23158426 MsG0180001553.01.T01:CDS 35.0%
!!! GTTGGAATGTTGGGTTTTTT+GGG + Chr1:23157596-23157615 None:intergenic 35.0%
AAAAACCCAACATTCCAACC+TGG - Chr1:23157597-23157616 MsG0180001553.01.T01:CDS 40.0%
AACTAGTGAAGTACAAAGGC+TGG - Chr1:23158207-23158226 MsG0180001553.01.T01:CDS 40.0%
CAGGACCAATACAAGAAAGT+GGG + Chr1:23157950-23157969 None:intergenic 40.0%
GGGAAACTAGTGAAGTACAA+AGG - Chr1:23158203-23158222 MsG0180001553.01.T01:CDS 40.0%
TGGTCCTGCAATTCTTCTAT+TGG - Chr1:23157962-23157981 MsG0180001553.01.T01:CDS 40.0%
TTGATGTCTTCGACACTTTC+AGG - Chr1:23158134-23158153 MsG0180001553.01.T01:CDS 40.0%
TTTGATTGCAAAGTCACCAC+CGG - Chr1:23158376-23158395 MsG0180001553.01.T01:CDS 40.0%
TTTGCAGCATCAACAGTTTC+TGG - Chr1:23158047-23158066 MsG0180001553.01.T01:CDS 40.0%
! AAAGAAGCTTTGGTTGTTGG+AGG - Chr1:23158182-23158201 MsG0180001553.01.T01:CDS 40.0%
! AAGAAGCTTTGGTTGTTGGA+GGG - Chr1:23158183-23158202 MsG0180001553.01.T01:CDS 40.0%
! AGGAAAGAAGCTTTGGTTGT+TGG - Chr1:23158179-23158198 MsG0180001553.01.T01:CDS 40.0%
!!! GGTTGGAATGTTGGGTTTTT+TGG + Chr1:23157597-23157616 None:intergenic 40.0%
!!! TTGAGAGTTGTTGCTTTTGG+AGG - Chr1:23158410-23158429 MsG0180001553.01.T01:CDS 40.0%
AGACATCAATGCGTCGAAAC+CGG + Chr1:23158123-23158142 None:intergenic 45.0%
ATTTCTTCTAGGTCCCATCC+AGG + Chr1:23157618-23157637 None:intergenic 45.0%
CTCAACATTACTCTTTCCGG+TGG + Chr1:23158395-23158414 None:intergenic 45.0%
GCAGGACCAATACAAGAAAG+TGG + Chr1:23157951-23157970 None:intergenic 45.0%
GCGTCGAAACCGGTATAATA+CGG + Chr1:23158113-23158132 None:intergenic 45.0%
GGAAGAGATATAGGACCAGA+TGG + Chr1:23157879-23157898 None:intergenic 45.0%
!!! GGTTTTTTGGGAGCCAGATA+AGG + Chr1:23157584-23157603 None:intergenic 45.0%
ACCCAACATTCCAACCTGGA+TGG - Chr1:23157601-23157620 MsG0180001553.01.T01:CDS 50.0%
CCCAACATTCCAACCTGGAT+GGG - Chr1:23157602-23157621 MsG0180001553.01.T01:CDS 50.0%
! CCCATCCAGGTTGGAATGTT+GGG + Chr1:23157605-23157624 None:intergenic 50.0%
! TCCCATCCAGGTTGGAATGT+TGG + Chr1:23157606-23157625 None:intergenic 50.0%
CTTCTAGGTCCCATCCAGGT+TGG + Chr1:23157614-23157633 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 23157570 23158553 23157570 ID=MsG0180001553.01;Name=MsG0180001553.01
Chr1 mRNA 23157570 23158553 23157570 ID=MsG0180001553.01.T01;Parent=MsG0180001553.01;Name=MsG0180001553.01.T01;_AED=0.14;_eAED=0.14;_QI=0|-1|0|1|-1|0|1|0|327
Chr1 exon 23157570 23158553 23157570 ID=MsG0180001553.01.T01:exon:40428;Parent=MsG0180001553.01.T01
Chr1 CDS 23157570 23158553 23157570 ID=MsG0180001553.01.T01:cds;Parent=MsG0180001553.01.T01
Chr1 mRNA 23157570 23158307 23157570 ID=MsG0180001553.01.T02;Parent=MsG0180001553.01;Name=MsG0180001553.01.T02;_AED=0.23;_eAED=0.23;_QI=0|-1|0|1|-1|0|1|0|245
Chr1 exon 23157570 23158307 23157570 ID=MsG0180001553.01.T02:exon:40429;Parent=MsG0180001553.01.T02
Chr1 CDS 23157570 23158307 23157570 ID=MsG0180001553.01.T02:cds;Parent=MsG0180001553.01.T02
Gene Sequence

>MsG0180001553.01.T02

ATGAATATTATCTCAAGAAAAGGCACACTATTTTTTAGTCTATCAAAAAGATTTTTTTTACCATCTGGTCCTATATCTCTTCCACTTATAATATTAATATTTGCAAAGGGAAATCAAATCAACACAATTTTCCCACTTTCTTGTATTGGTCCTGCAATTCTTCTATTGGTTCTAATTTCTGCATTATCCTTTGATAATGAAGCTGATTATAAGGACATTCAGTACACATTTTTTGCAGCATCAACAGTTTCTGGAATTTTGCATGCAAGTTTATATTTGGATTCAATTGTGTTACCGTATTATACCGGTTTCGACGCATTGATGTCTTCGACACTTTCAGGTGAATGTGCAACATGTGTATGTAGGAAAGAAGCTTTGGTTGTTGGAGGGAAACTAGTGAAGTACAAAGGCTGGTCAATGACAACATTTTTTGTTGTTAGTGTTCTTTGTTTAAGGATTATATGTAAAATCTTTGGGGAAAATGTGGGGAAATTTGTGTCCATGATTAAAGTGTTGATGGAAAGGTTTAGTTGGATTTTGATAAGTTTGGATTGTGTTTATTTGATTGCAAAGTCACCACCGGAAAGAGTAATGTTGAGAGTTGTTGCTTTTGGAGGCATATTTCTTTTGATTTTGCTTCATGTTCTCAAAGAGGCATGTAGTCAAATTTGTGCAATGGCTTATGTGGCACAAAAATATAGATTGGTGTCAATGTTAACACCCTTGCAAATAGCATAA

>MsG0180001553.01.T01

ATGATGAATAGCCTTATCTGGCTCCCAAAAAACCCAACATTCCAACCTGGATGGGACCTAGAAGAAATTCATGCCACATTTTTCAAATGCATAAGTTGGCAAATGGAAGAAACAATGGATCCAATCAATTGTCCTTACCATTATGTATGTGACAAAACTTACCCTCCAAATTATCATCTTTCCATTGATATCTTAGTCCTTCTCTTCACAACAATTTCTTATTTTTTGACTCTTATCATTTTGATAATGAATATTATCTCAAGAAAAGGCACACTATTTTTTAGTCTATCAAAAAGATTTTTTTTACCATCTGGTCCTATATCTCTTCCACTTATAATATTAATATTTGCAAAGGGAAATCAAATCAACACAATTTTCCCACTTTCTTGTATTGGTCCTGCAATTCTTCTATTGGTTCTAATTTCTGCATTATCCTTTGATAATGAAGCTGATTATAAGGACATTCAGTACACATTTTTTGCAGCATCAACAGTTTCTGGAATTTTGCATGCAAGTTTATATTTGGATTCAATTGTGTTACCGTATTATACCGGTTTCGACGCATTGATGTCTTCGACACTTTCAGGTGAATGTGCAACATGTGTATGTAGGAAAGAAGCTTTGGTTGTTGGAGGGAAACTAGTGAAGTACAAAGGCTGGTCAATGACAACATTTTTTGTTGTTAGTGTTCTTTGTTTAAGGATTATATGTAAAATCTTTGGGGAAAATGTGGGGAAATTTGTGTCCATGATTAAAGTGTTGATGGAAAGGTTTAGTTGGATTTTGATAAGTTTGGATTGTGTTTATTTGATTGCAAAGTCACCACCGGAAAGAGTAATGTTGAGAGTTGTTGCTTTTGGAGGCATATTTCTTTTGATTTTGCTTCATGTTCTCAAAGAGGCATGTAGTCAAATTTGTGCAATGGCTTATGTGGCACAAAAATATAGATTGGTGTCAATGTTAACACCCTTGCAAATAGCATAA

Protein sequence

>MsG0180001553.01.T02

MNIISRKGTLFFSLSKRFFLPSGPISLPLIILIFAKGNQINTIFPLSCIGPAILLLVLISALSFDNEADYKDIQYTFFAASTVSGILHASLYLDSIVLPYYTGFDALMSSTLSGECATCVCRKEALVVGGKLVKYKGWSMTTFFVVSVLCLRIICKIFGENVGKFVSMIKVLMERFSWILISLDCVYLIAKSPPERVMLRVVAFGGIFLLILLHVLKEACSQICAMAYVAQKYRLVSMLTPLQIA*

>MsG0180001553.01.T01

MMNSLIWLPKNPTFQPGWDLEEIHATFFKCISWQMEETMDPINCPYHYVCDKTYPPNYHLSIDILVLLFTTISYFLTLIILIMNIISRKGTLFFSLSKRFFLPSGPISLPLIILIFAKGNQINTIFPLSCIGPAILLLVLISALSFDNEADYKDIQYTFFAASTVSGILHASLYLDSIVLPYYTGFDALMSSTLSGECATCVCRKEALVVGGKLVKYKGWSMTTFFVVSVLCLRIICKIFGENVGKFVSMIKVLMERFSWILISLDCVYLIAKSPPERVMLRVVAFGGIFLLILLHVLKEACSQICAMAYVAQKYRLVSMLTPLQIA*