AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene018785

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene018785.t1 MTR_1g053530 71.600 250 43 4 20 260 16 246 2.03e-117 337
MS.gene018785.t1 MTR_1g046810 36.486 296 131 9 29 277 30 315 3.50e-41 144
MS.gene018785.t1 MTR_1g052185 31.868 273 129 13 29 268 23 271 1.63e-23 97.1
MS.gene018785.t1 MTR_4g073310 30.830 253 124 11 28 276 22 227 2.06e-15 73.9
MS.gene018785.t1 MTR_5g098470 34.177 158 73 8 33 166 54 204 2.08e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 50 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTGGTCTCGTATCTTAT+TGG 0.208428 1.2:+39486615 None:intergenic
AGCACCAACAACTTTCTTAA+AGG 0.236987 1.2:-39486837 MS.gene018785:CDS
TACCCTTCTTCGAATCATTT+TGG 0.242767 1.2:+39486694 None:intergenic
AAACAAAATTAAACACTAAA+TGG 0.270394 1.2:+39486191 None:intergenic
ATAATCCCAGCTCCGTTTCT+TGG 0.287583 1.2:+39486599 None:intergenic
GTTCTCTACATTGTTATCAT+TGG 0.335954 1.2:+39486329 None:intergenic
GTTTGAGTAATAAGTCCTTT+TGG 0.343516 1.2:+39486378 None:intergenic
TGAATCACCGTGACTGTAAA+AGG 0.346155 1.2:-39486500 MS.gene018785:CDS
TGTTAACATTGCTGAAATAA+TGG 0.391363 1.2:-39486559 MS.gene018785:CDS
TTTACCTTTAAGAAAGTTGT+TGG 0.419418 1.2:+39486833 None:intergenic
AACAAACACAAACATGCTAA+TGG 0.425038 1.2:-39486807 MS.gene018785:CDS
TAAGAAAGTTGTTGGTGCTA+TGG 0.440297 1.2:+39486841 None:intergenic
CTCTACATTGTTATCATTGG+AGG 0.445625 1.2:+39486332 None:intergenic
CTTTGAATGGACACATGAAA+TGG 0.459517 1.2:-39486722 MS.gene018785:CDS
TTGGTCTCGTATCTTATTGG+TGG 0.473127 1.2:+39486618 None:intergenic
ACGGTGATTCACATTAAGAT+TGG 0.473501 1.2:+39486512 None:intergenic
CAATGGATGGAAACTGATCT+AGG 0.474117 1.2:+39486658 None:intergenic
ATCCGTTTCATCACCTTCAT+CGG 0.483860 1.2:+39486302 None:intergenic
TGGTGCTATGGAATTGTTTG+TGG 0.484496 1.2:+39486853 None:intergenic
TGTGCTAGAGAATTCACAAC+TGG 0.492819 1.2:-39486891 MS.gene018785:CDS
CAAATACTTTGTCAGATCAA+TGG 0.494617 1.2:+39486641 None:intergenic
GAATTGTTTGTGGCCGCCGA+GGG 0.497780 1.2:+39486863 None:intergenic
TGAATAGAATTATGAGAAGA+AGG 0.504138 1.2:+39486993 None:intergenic
TTCATGTGTTCTTTGCAGCA+AGG 0.509354 1.2:-39486763 MS.gene018785:CDS
CAGCCAAAATGATTCGAAGA+AGG 0.519454 1.2:-39486697 MS.gene018785:CDS
TACCGATGAAGGTGATGAAA+CGG 0.519602 1.2:-39486304 MS.gene018785:CDS
CATGCTAATGGTATTAAGAT+CGG 0.524324 1.2:-39486795 MS.gene018785:CDS
GTGAGATTAAAGATTCCAAA+AGG 0.530313 1.2:-39486393 MS.gene018785:CDS
ACATTGTTATCATTGGAGGC+AGG 0.530674 1.2:+39486336 None:intergenic
ACGAGACCAAGAAACGGAGC+TGG 0.539882 1.2:-39486605 MS.gene018785:CDS
GGAATTGTTTGTGGCCGCCG+AGG 0.556033 1.2:+39486862 None:intergenic
AGCCAAAATGATTCGAAGAA+GGG 0.558347 1.2:-39486696 MS.gene018785:CDS
TTCACAACTGGTAATGCCCT+CGG 0.558819 1.2:-39486879 MS.gene018785:CDS
ATGAAGGTGATGAAACGGAT+GGG 0.561647 1.2:-39486299 MS.gene018785:CDS
GCAAAGAACACATGAATGGC+TGG 0.562308 1.2:+39486770 None:intergenic
GTAGAGAACAATACCGATGA+AGG 0.568109 1.2:-39486315 MS.gene018785:CDS
CGAGACCAAGAAACGGAGCT+GGG 0.594941 1.2:-39486604 MS.gene018785:CDS
CAATGAAAAGAACAGGTTGG+TGG 0.599420 1.2:-39486415 MS.gene018785:CDS
CAAAATTAAACACTAAATGG+TGG 0.600626 1.2:+39486194 None:intergenic
TACTTTGTCAGATCAATGGA+TGG 0.603001 1.2:+39486645 None:intergenic
TGAAGGTGATGAAACGGATG+GGG 0.603593 1.2:-39486298 MS.gene018785:CDS
TAAGATACGAGACCAAGAAA+CGG 0.610128 1.2:-39486611 MS.gene018785:CDS
GATGAAGGTGATGAAACGGA+TGG 0.616100 1.2:-39486300 MS.gene018785:CDS
AAACAATGAAAAGAACAGGT+TGG 0.620052 1.2:-39486418 MS.gene018785:CDS
TGCTGCAAAGAACACATGAA+TGG 0.640126 1.2:+39486766 None:intergenic
TAACATTGCTGAAATAATGG+TGG 0.655107 1.2:-39486556 MS.gene018785:CDS
ACAACTGGTAATGCCCTCGG+CGG 0.704742 1.2:-39486876 MS.gene018785:CDS
GAAAATGAGAAACATCAACA+AGG 0.726705 1.2:-39486939 MS.gene018785:CDS
GATGTGAAGATCAATGAACA+AGG 0.760498 1.2:-39486447 MS.gene018785:CDS
GTGAAGATCAATGAACAAGG+TGG 0.773369 1.2:-39486444 MS.gene018785:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GTAAAAACAATGAAAAGAAC+AGG - chr1.2:39486807-39486826 MS.gene018785:CDS 25.0%
! TGAATAGAATTATGAGAAGA+AGG + chr1.2:39486239-39486258 None:intergenic 25.0%
! TGTTAACATTGCTGAAATAA+TGG - chr1.2:39486670-39486689 MS.gene018785:CDS 25.0%
!! AATTAGAGTCACACATTTTT+CGG - chr1.2:39486966-39486985 MS.gene018785:CDS 25.0%
!! TTTACCTTTAAGAAAGTTGT+TGG + chr1.2:39486399-39486418 None:intergenic 25.0%
AAACAATGAAAAGAACAGGT+TGG - chr1.2:39486811-39486830 MS.gene018785:CDS 30.0%
AACAAACACAAACATGCTAA+TGG - chr1.2:39486422-39486441 MS.gene018785:CDS 30.0%
CAAATACTTTGTCAGATCAA+TGG + chr1.2:39486591-39486610 None:intergenic 30.0%
CATGCTAATGGTATTAAGAT+CGG - chr1.2:39486434-39486453 MS.gene018785:CDS 30.0%
GAAAATGAGAAACATCAACA+AGG - chr1.2:39486290-39486309 MS.gene018785:CDS 30.0%
GTGAGATTAAAGATTCCAAA+AGG - chr1.2:39486836-39486855 MS.gene018785:CDS 30.0%
GTTCTCTACATTGTTATCAT+TGG + chr1.2:39486903-39486922 None:intergenic 30.0%
TAACATTGCTGAAATAATGG+TGG - chr1.2:39486673-39486692 MS.gene018785:CDS 30.0%
! ATTAGAGTCACACATTTTTC+GGG - chr1.2:39486967-39486986 MS.gene018785:CDS 30.0%
! GTTTGAGTAATAAGTCCTTT+TGG + chr1.2:39486854-39486873 None:intergenic 30.0%
!! TCATCGAAAAAAGCTTTGAA+TGG - chr1.2:39486494-39486513 MS.gene018785:CDS 30.0%
!!! TTTTGATTTGAATGAGCTAC+TGG - chr1.2:39486991-39487010 MS.gene018785:CDS 30.0%
ACGGTGATTCACATTAAGAT+TGG + chr1.2:39486720-39486739 None:intergenic 35.0%
AGCACCAACAACTTTCTTAA+AGG - chr1.2:39486392-39486411 MS.gene018785:CDS 35.0%
AGCCAAAATGATTCGAAGAA+GGG - chr1.2:39486533-39486552 MS.gene018785:CDS 35.0%
CTCTACATTGTTATCATTGG+AGG + chr1.2:39486900-39486919 None:intergenic 35.0%
CTTTGAATGGACACATGAAA+TGG - chr1.2:39486507-39486526 MS.gene018785:CDS 35.0%
GATGTGAAGATCAATGAACA+AGG - chr1.2:39486782-39486801 MS.gene018785:CDS 35.0%
TAAGATACGAGACCAAGAAA+CGG - chr1.2:39486618-39486637 MS.gene018785:CDS 35.0%
TACTTTGTCAGATCAATGGA+TGG + chr1.2:39486587-39486606 None:intergenic 35.0%
TTCTTGGTCTCGTATCTTAT+TGG + chr1.2:39486617-39486636 None:intergenic 35.0%
! GTTTCATCCTTTTACAGTCA+CGG + chr1.2:39486739-39486758 None:intergenic 35.0%
! TACCCTTCTTCGAATCATTT+TGG + chr1.2:39486538-39486557 None:intergenic 35.0%
!! TAAGAAAGTTGTTGGTGCTA+TGG + chr1.2:39486391-39486410 None:intergenic 35.0%
ACATTGTTATCATTGGAGGC+AGG + chr1.2:39486896-39486915 None:intergenic 40.0%
ATCCGTTTCATCACCTTCAT+CGG + chr1.2:39486930-39486949 None:intergenic 40.0%
ATGAAGGTGATGAAACGGAT+GGG - chr1.2:39486930-39486949 MS.gene018785:CDS 40.0%
CAATGGATGGAAACTGATCT+AGG + chr1.2:39486574-39486593 None:intergenic 40.0%
CAGCCAAAATGATTCGAAGA+AGG - chr1.2:39486532-39486551 MS.gene018785:CDS 40.0%
GTAGAGAACAATACCGATGA+AGG - chr1.2:39486914-39486933 MS.gene018785:CDS 40.0%
GTGAAGATCAATGAACAAGG+TGG - chr1.2:39486785-39486804 MS.gene018785:CDS 40.0%
TACCGATGAAGGTGATGAAA+CGG - chr1.2:39486925-39486944 MS.gene018785:CDS 40.0%
TGAATCACCGTGACTGTAAA+AGG - chr1.2:39486729-39486748 MS.gene018785:CDS 40.0%
TGCTGCAAAGAACACATGAA+TGG + chr1.2:39486466-39486485 None:intergenic 40.0%
TGTGCTAGAGAATTCACAAC+TGG - chr1.2:39486338-39486357 MS.gene018785:CDS 40.0%
TTCATGTGTTCTTTGCAGCA+AGG - chr1.2:39486466-39486485 MS.gene018785:CDS 40.0%
TTGGTCTCGTATCTTATTGG+TGG + chr1.2:39486614-39486633 None:intergenic 40.0%
! CAATGAAAAGAACAGGTTGG+TGG - chr1.2:39486814-39486833 MS.gene018785:CDS 40.0%
!! TGGTGCTATGGAATTGTTTG+TGG + chr1.2:39486379-39486398 None:intergenic 40.0%
ATAATCCCAGCTCCGTTTCT+TGG + chr1.2:39486633-39486652 None:intergenic 45.0%
GATGAAGGTGATGAAACGGA+TGG - chr1.2:39486929-39486948 MS.gene018785:CDS 45.0%
GCAAAGAACACATGAATGGC+TGG + chr1.2:39486462-39486481 None:intergenic 45.0%
TGAAGGTGATGAAACGGATG+GGG - chr1.2:39486931-39486950 MS.gene018785:CDS 45.0%
! TTCACAACTGGTAATGCCCT+CGG - chr1.2:39486350-39486369 MS.gene018785:CDS 45.0%
ACGAGACCAAGAAACGGAGC+TGG - chr1.2:39486624-39486643 MS.gene018785:CDS 55.0%
CGAGACCAAGAAACGGAGCT+GGG - chr1.2:39486625-39486644 MS.gene018785:CDS 55.0%
GAATTGTTTGTGGCCGCCGA+GGG + chr1.2:39486369-39486388 None:intergenic 55.0%
! ACAACTGGTAATGCCCTCGG+CGG - chr1.2:39486353-39486372 MS.gene018785:CDS 55.0%
GGAATTGTTTGTGGCCGCCG+AGG + chr1.2:39486370-39486389 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 39486206 39487045 39486206 ID=MS.gene018785
chr1.2 mRNA 39486206 39487045 39486206 ID=MS.gene018785.t1;Parent=MS.gene018785
chr1.2 exon 39486206 39487045 39486206 ID=MS.gene018785.t1.exon1;Parent=MS.gene018785.t1
chr1.2 CDS 39486206 39487045 39486206 ID=cds.MS.gene018785.t1;Parent=MS.gene018785.t1
Gene Sequence

>MS.gene018785

ATGATGAAGAATTCTTTTTCTTCTTCTTCACCTTCTTCTCATAATTCTATTCATCATAAGCAAAAAAGCAATGTTGTTGATCATGAAAATGAGAAACATCAACAAGGTGCAAGACTTCACAAATGTGATTTGTGTGCTAGAGAATTCACAACTGGTAATGCCCTCGGCGGCCACAAACAATTCCATAGCACCAACAACTTTCTTAAAGGTAAAATCAACAAACACAAACATGCTAATGGTATTAAGATCGGAACCAGCCATTCATGTGTTCTTTGCAGCAAGGCTTTTTCATCGAAAAAAGCTTTGAATGGACACATGAAATGGCACAGCCAAAATGATTCGAAGAAGGGTAGTAACAATTACGACCTAGATCAGTTTCCATCCATTGATCTGACAAAGTATTTGCCACCAATAAGATACGAGACCAAGAAACGGAGCTGGGATTATATTCTTGATGTTGAAACTGTTAACATTGCTGAAATAATGGTGGATATGTCTCAGCTATCATCTGCCAATCTTAATGTGAATCACCGTGACTGTAAAAGGATGAAACTTTGCAGCAATGTTGATGATGATGATGTGAAGATCAATGAACAAGGTGGTAAAAACAATGAAAAGAACAGGTTGGTGGTGAGATTAAAGATTCCAAAAGGACTTATTACTCAAACATCTCAAGCTAGCAAGCAACCTGCCTCCAATGATAACAATGTAGAGAACAATACCGATGAAGGTGATGAAACGGATGGGGAATCAACTCTTGAATTAGAGTCACACATTTTTCGGGATTTTGATTTGAATGAGCTACTGGAAGATGATGTTGTAGATGAAACCACCATTTAG
Protein sequence

>MS.gene018785.t1

MMKNSFSSSSPSSHNSIHHKQKSNVVDHENEKHQQGARLHKCDLCAREFTTGNALGGHKQFHSTNNFLKGKINKHKHANGIKIGTSHSCVLCSKAFSSKKALNGHMKWHSQNDSKKGSNNYDLDQFPSIDLTKYLPPIRYETKKRSWDYILDVETVNIAEIMVDMSQLSSANLNVNHRDCKRMKLCSNVDDDDVKINEQGGKNNEKNRLVVRLKIPKGLITQTSQASKQPASNDNNVENNTDEGDETDGESTLELESHIFRDFDLNELLEDDVVDETTI