AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene25251


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene25251.t1 MTR_5g053510 88.235 85 10 0 144 228 25 109 1.18e-50 160
MS.gene25251.t1 MTR_4g123470 34.314 204 124 5 11 211 14 210 2.67e-30 112
MS.gene25251.t1 MTR_1g054495 27.876 226 156 6 1 225 1 220 7.03e-25 98.2
MS.gene25251.t1 MTR_0014s0220 30.631 222 131 7 5 225 623 822 3.16e-23 97.8
MS.gene25251.t1 MTR_4g053550 52.113 71 33 1 24 93 47 117 1.51e-19 81.3
MS.gene25251.t1 MTR_4g085790 28.000 225 155 5 1 224 1 219 1.53e-19 84.0
MS.gene25251.t1 MTR_7g025150 28.000 225 155 5 1 224 1 219 4.87e-19 82.8
MS.gene25251.t1 MTR_1g041870 32.778 180 104 5 49 228 13 175 1.36e-16 75.1
MS.gene25251.t1 MTR_1g054485 31.343 134 89 3 1 133 1 132 1.15e-14 70.1
MS.gene25251.t1 MTR_7g039210 21.212 231 152 5 1 203 1 229 7.04e-12 63.5
MS.gene25251.t1 MTR_4g069750 29.897 97 67 1 1 96 1 97 8.82e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 40 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGAATTCTTCAAGAAATTT+TGG 0.074446 8.2:-7402457 None:intergenic
CAGACTTCAATGATTTCTTA+TGG 0.226332 8.2:+7402904 MS.gene25251:CDS
AATGTAACTTTCAACAATTC+AGG 0.262321 8.2:+7402529 MS.gene25251:CDS
GATTTGCATTGCAGAGAAAA+AGG 0.315663 8.2:-7402944 None:intergenic
TGTACTCAAACGACAAGTTT+TGG 0.321936 8.2:+7402257 MS.gene25251:CDS
TGGAATCTGATAGATGTTAA+TGG 0.336468 8.2:+7402496 MS.gene25251:CDS
TCGATGATTTGAAACCAGTT+TGG 0.373591 8.2:+7402476 MS.gene25251:CDS
AACGAATAGTGTCTCCAATC+TGG 0.387174 8.2:-7403070 None:intergenic
AGACTTCAATGATTTCTTAT+GGG 0.387413 8.2:+7402905 MS.gene25251:CDS
AATATATACAAAACCTGATC+TGG 0.390568 8.2:-7402303 None:intergenic
AAATAAAATGATTTGCGGTT+CGG 0.410181 8.2:-7402727 None:intergenic
AACTGTACATCTTCCAGATC+AGG 0.417936 8.2:+7402290 MS.gene25251:CDS
TATTCAGCGATTCATTGCTT+TGG 0.421950 8.2:-7403001 None:intergenic
GATGGCAGAAAGATCTGAAT+TGG 0.422050 8.2:+7402774 MS.gene25251:CDS
GCTGTAACAAACTCTTCATT+CGG 0.423810 8.2:-7402966 None:intergenic
CTCTTTCCACTTCAAATGGC+TGG 0.424705 8.2:+7402225 None:intergenic
AGCCGATTCATACTAACTCT+TGG 0.438013 8.2:+7402646 MS.gene25251:CDS
TCCATCCTGTAGTGAGTAAA+GGG 0.439850 8.2:-7402558 None:intergenic
TTCCAAGAGTTAGTATGAAT+CGG 0.446733 8.2:-7402648 None:intergenic
CATAAGAAATCATTGAAGTC+TGG 0.456714 8.2:-7402903 None:intergenic
TTTGTCTGATGCCTTCGAAA+TGG 0.461961 8.2:-7402600 None:intergenic
TGCTTCTGCTGTGGAAGGGA+GGG 0.473215 8.2:-7402696 None:intergenic
AAATCGTGCTAAACTATGTT+GGG 0.473587 8.2:+7402620 MS.gene25251:CDS
TGTCAAAATAAAATGATTTG+CGG 0.475450 8.2:-7402732 None:intergenic
ACATCTATCAGATTCCAAAC+TGG 0.476477 8.2:-7402490 None:intergenic
CAAATCGTGCTAAACTATGT+TGG 0.476784 8.2:+7402619 MS.gene25251:CDS
TTCCTATAGACATGAACAAA+AGG 0.483981 8.2:-7403119 None:intergenic
ATTCGTTTCAAGTTCTTCGA+TGG 0.500169 8.2:+7403086 MS.gene25251:CDS
TTCGTTTCAAGTTCTTCGAT+GGG 0.505866 8.2:+7403087 MS.gene25251:CDS
AACAACAATGCATTCCAGAT+TGG 0.510902 8.2:+7403056 MS.gene25251:CDS
ATCCTCCCTTTACTCACTAC+AGG 0.520199 8.2:+7402553 MS.gene25251:CDS
GTCCATCCTGTAGTGAGTAA+AGG 0.525188 8.2:-7402559 None:intergenic
CACTTTGACTCATTTGCAGA+TGG 0.525652 8.2:+7402756 MS.gene25251:CDS
GTGCTTCTGCTGTGGAAGGG+AGG 0.535843 8.2:-7402697 None:intergenic
TTTGTGCTTCTGCTGTGGAA+GGG 0.552787 8.2:-7402700 None:intergenic
GATTCATACTAACTCTTGGA+AGG 0.611155 8.2:+7402650 MS.gene25251:CDS
TCCCTTTACTCACTACAGGA+TGG 0.611661 8.2:+7402557 MS.gene25251:CDS
AAGAAATCATTGAAGTCTGG+TGG 0.620565 8.2:-7402900 None:intergenic
GAAGGGAGGGAATTCATCAG+TGG 0.689324 8.2:-7402683 None:intergenic
ATCCTGTAGTGAGTAAAGGG+AGG 0.695428 8.2:-7402555 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATTATTAAGTTTACAAAC+AGG - chr8.2:7402372-7402391 None:intergenic 15.0%
!! TATTATTAAGTTTACAAACA+GGG - chr8.2:7402371-7402390 None:intergenic 15.0%
!!! AAAATTGGTTTTTGTTAAAT+TGG - chr8.2:7402863-7402882 None:intergenic 15.0%
!! ATACTAAGTTAAAAAATGGT+TGG + chr8.2:7403021-7403040 MS.gene25251:CDS 20.0%
!! CTGAATACTAAGTTAAAAAA+TGG + chr8.2:7403017-7403036 MS.gene25251:CDS 20.0%
!! TACTAAGTTAAAAAATGGTT+GGG + chr8.2:7403022-7403041 MS.gene25251:CDS 20.0%
!! TGTCAAAATAAAATGATTTG+CGG - chr8.2:7402735-7402754 None:intergenic 20.0%
! AATATATACAAAACCTGATC+TGG - chr8.2:7402306-7402325 None:intergenic 25.0%
! AATGTAACTTTCAACAATTC+AGG + chr8.2:7402529-7402548 MS.gene25251:CDS 25.0%
! AGACTTCAATGATTTCTTAT+GGG + chr8.2:7402905-7402924 MS.gene25251:CDS 25.0%
!! AAACCAATTTTGCAAATTAC+AGG + chr8.2:7402872-7402891 MS.gene25251:intron 25.0%
!! AAATAAAATGATTTGCGGTT+CGG - chr8.2:7402730-7402749 None:intergenic 25.0%
!! CGAATTCTTCAAGAAATTTT+GGG - chr8.2:7402459-7402478 None:intergenic 25.0%
!! TAAATGTTGATTATGTGTAC+AGG + chr8.2:7402417-7402436 MS.gene25251:intron 25.0%
!! TCGAATTCTTCAAGAAATTT+TGG - chr8.2:7402460-7402479 None:intergenic 25.0%
AAATCGTGCTAAACTATGTT+GGG + chr8.2:7402620-7402639 MS.gene25251:CDS 30.0%
ACATAGTTTGGTTAGAAAAC+AGG - chr8.2:7402831-7402850 None:intergenic 30.0%
ATCAGATAAAAAACAGCAGT+TGG - chr8.2:7402337-7402356 None:intergenic 30.0%
CAGACTTCAATGATTTCTTA+TGG + chr8.2:7402904-7402923 MS.gene25251:CDS 30.0%
CATAAGAAATCATTGAAGTC+TGG - chr8.2:7402906-7402925 None:intergenic 30.0%
TGGAATCTGATAGATGTTAA+TGG + chr8.2:7402496-7402515 MS.gene25251:CDS 30.0%
TGGTGAAAAAACACATAGTT+TGG - chr8.2:7402843-7402862 None:intergenic 30.0%
TTCCAAGAGTTAGTATGAAT+CGG - chr8.2:7402651-7402670 None:intergenic 30.0%
TTCCTATAGACATGAACAAA+AGG - chr8.2:7403122-7403141 None:intergenic 30.0%
! AGAGATTTTTACCATTTCGA+AGG + chr8.2:7402589-7402608 MS.gene25251:CDS 30.0%
! GAACCTGTAATTTGCAAAAT+TGG - chr8.2:7402878-7402897 None:intergenic 30.0%
!!! AAGAAATTTTGGGTTCACTT+CGG - chr8.2:7402449-7402468 None:intergenic 30.0%
AACAACAATGCATTCCAGAT+TGG + chr8.2:7403056-7403075 MS.gene25251:CDS 35.0%
AAGAAATCATTGAAGTCTGG+TGG - chr8.2:7402903-7402922 None:intergenic 35.0%
ACATCTATCAGATTCCAAAC+TGG - chr8.2:7402493-7402512 None:intergenic 35.0%
CAAATCGTGCTAAACTATGT+TGG + chr8.2:7402619-7402638 MS.gene25251:CDS 35.0%
GATTCATACTAACTCTTGGA+AGG + chr8.2:7402650-7402669 MS.gene25251:CDS 35.0%
GATTTGCATTGCAGAGAAAA+AGG - chr8.2:7402947-7402966 None:intergenic 35.0%
GCTGTAACAAACTCTTCATT+CGG - chr8.2:7402969-7402988 None:intergenic 35.0%
TATTCAGCGATTCATTGCTT+TGG - chr8.2:7403004-7403023 None:intergenic 35.0%
! CTCCTTTTGTTCATGTCTAT+AGG + chr8.2:7403117-7403136 MS.gene25251:CDS 35.0%
! GTACTCAAACGACAAGTTTT+GGG + chr8.2:7402258-7402277 MS.gene25251:CDS 35.0%
! TCGATGATTTGAAACCAGTT+TGG + chr8.2:7402476-7402495 MS.gene25251:CDS 35.0%
! TGTACTCAAACGACAAGTTT+TGG + chr8.2:7402257-7402276 MS.gene25251:CDS 35.0%
!! ATTCGTTTCAAGTTCTTCGA+TGG + chr8.2:7403086-7403105 MS.gene25251:CDS 35.0%
!! TTCGTTTCAAGTTCTTCGAT+GGG + chr8.2:7403087-7403106 MS.gene25251:CDS 35.0%
AACGAATAGTGTCTCCAATC+TGG - chr8.2:7403073-7403092 None:intergenic 40.0%
AACTGTACATCTTCCAGATC+AGG + chr8.2:7402290-7402309 MS.gene25251:CDS 40.0%
CACTTTGACTCATTTGCAGA+TGG + chr8.2:7402756-7402775 MS.gene25251:CDS 40.0%
GATGGCAGAAAGATCTGAAT+TGG + chr8.2:7402774-7402793 MS.gene25251:CDS 40.0%
TCCATCCTGTAGTGAGTAAA+GGG - chr8.2:7402561-7402580 None:intergenic 40.0%
TTTGTCTGATGCCTTCGAAA+TGG - chr8.2:7402603-7402622 None:intergenic 40.0%
! AGCCGATTCATACTAACTCT+TGG + chr8.2:7402646-7402665 MS.gene25251:CDS 40.0%
ATCCTCCCTTTACTCACTAC+AGG + chr8.2:7402553-7402572 MS.gene25251:CDS 45.0%
ATCCTGTAGTGAGTAAAGGG+AGG - chr8.2:7402558-7402577 None:intergenic 45.0%
GTCCATCCTGTAGTGAGTAA+AGG - chr8.2:7402562-7402581 None:intergenic 45.0%
TCCCTTTACTCACTACAGGA+TGG + chr8.2:7402557-7402576 MS.gene25251:CDS 45.0%
TTTGTGCTTCTGCTGTGGAA+GGG - chr8.2:7402703-7402722 None:intergenic 45.0%
! TTTTGTGCTTCTGCTGTGGA+AGG - chr8.2:7402704-7402723 None:intergenic 45.0%
!!! CTCAAACGACAAGTTTTGGG+AGG + chr8.2:7402261-7402280 MS.gene25251:CDS 45.0%
!!! GTAGTTTTGTGCTTCTGCTG+TGG - chr8.2:7402708-7402727 None:intergenic 45.0%
GAAGGGAGGGAATTCATCAG+TGG - chr8.2:7402686-7402705 None:intergenic 50.0%
TGCTTCTGCTGTGGAAGGGA+GGG - chr8.2:7402699-7402718 None:intergenic 55.0%
GTGCTTCTGCTGTGGAAGGG+AGG - chr8.2:7402700-7402719 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 7402240 7403151 7402240 ID=MS.gene25251
chr8.2 mRNA 7402240 7403151 7402240 ID=MS.gene25251.t1;Parent=MS.gene25251
chr8.2 exon 7402240 7402311 7402240 ID=MS.gene25251.t1.exon1;Parent=MS.gene25251.t1
chr8.2 CDS 7402240 7402311 7402240 ID=cds.MS.gene25251.t1;Parent=MS.gene25251.t1
chr8.2 exon 7402439 7402795 7402439 ID=MS.gene25251.t1.exon2;Parent=MS.gene25251.t1
chr8.2 CDS 7402439 7402795 7402439 ID=cds.MS.gene25251.t1;Parent=MS.gene25251.t1
chr8.2 exon 7402894 7403151 7402894 ID=MS.gene25251.t1.exon3;Parent=MS.gene25251.t1
chr8.2 CDS 7402894 7403151 7402894 ID=cds.MS.gene25251.t1;Parent=MS.gene25251.t1
Gene Sequence

>MS.gene25251

ATGGCTGGATATCGTGCTGTACTCAAACGACAAGTTTTGGGAGGTTTTGAAACTGTACATCTTCCAGATCAGGTTTTGTATATATTCATCTTTACCAACTGCTGTTTTTTATCTGATACAATACTATACCCTGTTTGTAAACTTAATAATATTATCGATTGCATTCATCTTCGTTTATAAATGTTGATTATGTGTACAGGAATTCGCCGAAGTGAACCCAAAATTTCTTGAAGAATTCGATGATTTGAAACCAGTTTGGAATCTGATAGATGTTAATGGAAACTATCATAATGTAACTTTCAACAATTCAGGAATCCTCCCTTTACTCACTACAGGATGGACTGACATCAGAGATTTTTACCATTTCGAAGGCATCAGACAAATCGTGCTAAACTATGTTGGGCAAAGCCGATTCATACTAACTCTTGGAAGGACGCTTCAGACCACTGATGAATTCCCTCCCTTCCACAGCAGAAGCACAAAACTACCGAACCGCAAATCATTTTATTTTGACATCACTTTGACTCATTTGCAGATGGCAGAAAGATCTGAATTGGTATAATTTAATTCTAATCACATATATTTGATCCTGTTTTCTAACCAAACTATGTGTTTTTTCACCAATTTAACAAAAACCAATTTTGCAAATTACAGGTTCTGCCACCAGACTTCAATGATTTCTTATGGGATAGTGATTTCGATTACCTTTTTCTCTGCAATGCAAATCCGAATGAAGAGTTTGTTACAGCTGAAATTGAATACCAAAGCAATGAATCGCTGAATACTAAGTTAAAAAATGGTTGGGAGACATTCTGTAACAACAATGCATTCCAGATTGGAGACACTATTCGTTTCAAGTTCTTCGATGGGAAAAACACTCCTTTTGTTCATGTCTATAGGAACAATCCTTAA

Protein sequence

>MS.gene25251.t1

MAGYRAVLKRQVLGGFETVHLPDQEFAEVNPKFLEEFDDLKPVWNLIDVNGNYHNVTFNNSGILPLLTTGWTDIRDFYHFEGIRQIVLNYVGQSRFILTLGRTLQTTDEFPPFHSRSTKLPNRKSFYFDITLTHLQMAERSELVLPPDFNDFLWDSDFDYLFLCNANPNEEFVTAEIEYQSNESLNTKLKNGWETFCNNNAFQIGDTIRFKFFDGKNTPFVHVYRNNP