AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene019327

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene019327.t1 MTR_7g072630 92.550 349 13 2 1 336 1 349 0.0 639
MS.gene019327.t1 MTR_7g072875 90.876 274 12 2 76 336 14 287 1.47e-174 486
MS.gene019327.t1 MTR_4g028930 48.157 407 111 16 1 334 1 380 4.82e-90 275
MS.gene019327.t1 MTR_5g075210 40.111 359 175 11 1 333 1 345 5.63e-62 201
MS.gene019327.t1 MTR_2g018030 60.606 66 26 0 268 333 277 342 2.64e-25 104
MS.gene019327.t1 MTR_8g087530 57.576 66 28 0 268 333 258 323 3.34e-22 95.9
MS.gene019327.t1 MTR_8g103520 53.226 62 29 0 268 329 224 285 1.89e-16 79.0
MS.gene019327.t1 MTR_0907s0020 45.205 73 40 0 257 329 91 163 9.44e-15 72.0
MS.gene019327.t1 MTR_4g052040 46.875 64 34 0 266 329 97 160 1.58e-13 68.6
MS.gene019327.t1 MTR_4g132740 47.619 63 33 0 270 332 83 145 3.80e-13 66.6
MS.gene019327.t1 MTR_3g111780 30.688 189 101 3 152 329 90 259 2.57e-12 66.6
MS.gene019327.t1 MTR_7g105790 44.068 59 33 0 271 329 113 171 2.83e-12 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene019327.t1 AT1G06920 34.857 350 171 13 1 334 1 309 4.66e-41 146
MS.gene019327.t1 AT2G30400 33.243 367 161 11 1 333 1 317 5.30e-40 143
MS.gene019327.t1 AT5G58360 31.339 351 157 10 1 333 5 289 1.57e-35 131
MS.gene019327.t1 AT5G01840 34.125 337 142 10 1 332 1 262 1.98e-34 127
MS.gene019327.t1 AT4G18830 55.385 65 29 0 268 332 282 346 2.43e-19 87.8
MS.gene019327.t1 AT5G19650 50.000 66 33 0 267 332 153 218 8.79e-16 75.9
MS.gene019327.t1 AT3G52525 46.032 63 34 0 269 331 67 129 3.04e-13 67.0
MS.gene019327.t1 AT2G18500 41.791 67 39 0 266 332 224 290 4.55e-13 69.3
MS.gene019327.t1 AT2G36026 48.214 56 29 0 274 329 92 147 6.17e-12 63.9

Find 37 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACACGGTCTGTTCTGATTTC+TGG 0.132362 7.3:+32290455 None:intergenic
AATGATGAACTCAACGTTAA+AGG 0.223254 7.3:-32290230 MS.gene019327:CDS
TCAAAGTGTTCAAGCAAATA+TGG 0.233458 7.3:-32289854 MS.gene019327:CDS
TTCTTCCTTTGTTGTGTTGT+TGG 0.243928 7.3:+32290728 None:intergenic
AGAATTGTTCTACTGATTAT+CGG 0.312127 7.3:+32289821 None:intergenic
CATTAGAACATCAAAGGATT+TGG 0.325611 7.3:-32289934 MS.gene019327:CDS
TGTAGATTCTATTGCTTGTT+TGG 0.346884 7.3:+32290606 None:intergenic
CGAAAGACTTCTCCGGTTAC+CGG 0.357509 7.3:+32290040 None:intergenic
TTTGTTGTGTTGTTGGTGTT+TGG 0.367246 7.3:+32290735 None:intergenic
TGTCGTCTGGTTCCGGTAAC+CGG 0.384473 7.3:-32290052 MS.gene019327:CDS
ATGATGAACTCAACGTTAAA+GGG 0.407057 7.3:-32290229 MS.gene019327:CDS
AAAAGTGTGTCGTCTGGTTC+CGG 0.412570 7.3:-32290059 MS.gene019327:CDS
CGGTAACCGGAGAAGTCTTT+CGG 0.428330 7.3:-32290039 MS.gene019327:CDS
TCGATTATGATATCGTTTGT+TGG 0.442199 7.3:+32290425 None:intergenic
GTTCACCAGGTGTGAAACTT+AGG 0.443025 7.3:-32290130 MS.gene019327:CDS
TCTGTTCTGATTTCTGGCTC+AGG 0.447190 7.3:+32290461 None:intergenic
TCGGGTTTGGTTACAATTGG+TGG 0.459629 7.3:+32290320 None:intergenic
GGAGATGATGATGAAGTCTT+TGG 0.474574 7.3:+32290527 None:intergenic
CAGACATGATGCCTAATGCT+TGG 0.484513 7.3:-32290793 MS.gene019327:CDS
CTGTTCTGATTTCTGGCTCA+GGG 0.485970 7.3:+32290462 None:intergenic
AGCTTGTAAAACCAAGCATT+AGG 0.493200 7.3:+32290782 None:intergenic
CTAACAGAAAATCTTCTACT+TGG 0.507243 7.3:+32290152 None:intergenic
GGCAGGAAAAGTGTGTCGTC+TGG 0.513012 7.3:-32290065 MS.gene019327:CDS
CTATCAAGTGGAGAATCAAA+TGG 0.529685 7.3:+32290506 None:intergenic
ACTCATCTGAATTCAAAGAA+AGG 0.530280 7.3:+32289892 None:intergenic
GGAAAATTCAAACACATGGC+AGG 0.547159 7.3:-32290082 MS.gene019327:CDS
GAACAACATTAGAACATCAA+AGG 0.551741 7.3:-32289940 MS.gene019327:CDS
AACTATCCGAAAGACTTCTC+CGG 0.559644 7.3:+32290033 None:intergenic
TTTCTTGGATTGCTTTGGTG+GGG 0.559822 7.3:+32290656 None:intergenic
AAACACCAACAACACAACAA+AGG 0.563217 7.3:-32290733 MS.gene019327:CDS
ATTCACCAAGAATTTCAAGC+AGG 0.584426 7.3:-32290103 MS.gene019327:CDS
GATTCTCTAAAATCTCCTTG+TGG 0.610956 7.3:+32289984 None:intergenic
GATTCTGCAGAGCTATCAAG+TGG 0.613063 7.3:+32290494 None:intergenic
AGCAGGAAAATTCAAACACA+TGG 0.619102 7.3:-32290086 MS.gene019327:CDS
TTGATCCTAAGTTTCACACC+TGG 0.631177 7.3:+32290125 None:intergenic
AAGTCATCATTGAATCCACA+AGG 0.674680 7.3:-32289999 MS.gene019327:CDS
CGTTTGTTGGAAGAAGAACA+CGG 0.712833 7.3:+32290438 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACTAAAAGTCAAGATTTTGA+AGG - chr7.3:32290444-32290463 MS.gene019327:CDS 25.0%
!! ATTTGATGAATTTTTGCTTC+TGG + chr7.3:32290401-32290420 None:intergenic 25.0%
!! GTAAAGTAGTAAGATTTTCT+TGG + chr7.3:32290010-32290029 None:intergenic 25.0%
!! TAACAAGTAGTTGAACTTTT+CGG + chr7.3:32290350-32290369 None:intergenic 25.0%
!! TTTGATGAATTTTTGCTTCT+GGG + chr7.3:32290400-32290419 None:intergenic 25.0%
!!! TGTTTTGATGATGATTTTCT+TGG + chr7.3:32290079-32290098 None:intergenic 25.0%
AATGATGAACTCAACGTTAA+AGG - chr7.3:32290418-32290437 MS.gene019327:CDS 30.0%
ACTCATCTGAATTCAAAGAA+AGG + chr7.3:32290759-32290778 None:intergenic 30.0%
ATGATGAACTCAACGTTAAA+GGG - chr7.3:32290419-32290438 MS.gene019327:CDS 30.0%
CATTAGAACATCAAAGGATT+TGG - chr7.3:32290714-32290733 MS.gene019327:CDS 30.0%
CTAACAGAAAATCTTCTACT+TGG + chr7.3:32290499-32290518 None:intergenic 30.0%
GAACAACATTAGAACATCAA+AGG - chr7.3:32290708-32290727 MS.gene019327:CDS 30.0%
TCGATTATGATATCGTTTGT+TGG + chr7.3:32290226-32290245 None:intergenic 30.0%
TGTAGATTCTATTGCTTGTT+TGG + chr7.3:32290045-32290064 None:intergenic 30.0%
! AACAAGTAGTTGAACTTTTC+GGG + chr7.3:32290349-32290368 None:intergenic 30.0%
! AAGATTTTCTTGGATTGCTT+TGG + chr7.3:32290000-32290019 None:intergenic 30.0%
! ATTTTCCTGCTTGAAATTCT+TGG + chr7.3:32290553-32290572 None:intergenic 30.0%
! TCAAAGTGTTCAAGCAAATA+TGG - chr7.3:32290794-32290813 MS.gene019327:CDS 30.0%
! TTTTACAAGCTTAGAGACAT+GGG - chr7.3:32289878-32289897 MS.gene019327:CDS 30.0%
!! AGATTTTAGAGAATCAATGG+TGG - chr7.3:32290672-32290691 MS.gene019327:CDS 30.0%
!! AGGAGATTTTAGAGAATCAA+TGG - chr7.3:32290669-32290688 MS.gene019327:CDS 30.0%
!! CTTTGATTTTGATGTGTTTG+AGG + chr7.3:32289969-32289988 None:intergenic 30.0%
!!! TTTGATGATGATTTTCTTGG+TGG + chr7.3:32290076-32290095 None:intergenic 30.0%
AAACACCAACAACACAACAA+AGG - chr7.3:32289915-32289934 MS.gene019327:CDS 35.0%
AAGTCATCATTGAATCCACA+AGG - chr7.3:32290649-32290668 MS.gene019327:CDS 35.0%
AGCAGGAAAATTCAAACACA+TGG - chr7.3:32290562-32290581 MS.gene019327:CDS 35.0%
AGCTTGTAAAACCAAGCATT+AGG + chr7.3:32289869-32289888 None:intergenic 35.0%
ATTCACCAAGAATTTCAAGC+AGG - chr7.3:32290545-32290564 MS.gene019327:CDS 35.0%
CTATCAAGTGGAGAATCAAA+TGG + chr7.3:32290145-32290164 None:intergenic 35.0%
! AGATTTTCTGTTAGTTCACC+AGG - chr7.3:32290505-32290524 MS.gene019327:CDS 35.0%
! ATTTTCTTGGATTGCTTTGG+TGG + chr7.3:32289997-32290016 None:intergenic 35.0%
! GTTTTACAAGCTTAGAGACA+TGG - chr7.3:32289877-32289896 MS.gene019327:CDS 35.0%
! TTCTTCCTTTGTTGTGTTGT+TGG + chr7.3:32289923-32289942 None:intergenic 35.0%
! TTTGTTGTGTTGTTGGTGTT+TGG + chr7.3:32289916-32289935 None:intergenic 35.0%
! TTTTCTTGGATTGCTTTGGT+GGG + chr7.3:32289996-32290015 None:intergenic 35.0%
!! AGATTTTGAAGGAAGAACAG+AGG - chr7.3:32290455-32290474 MS.gene019327:CDS 35.0%
!! GATTCTCTAAAATCTCCTTG+TGG + chr7.3:32290667-32290686 None:intergenic 35.0%
!!! GTCTTTGGTGTTCTTCTTTT+TGG + chr7.3:32290109-32290128 None:intergenic 35.0%
!!! TTTTCGGGTTTGGTTACAAT+TGG + chr7.3:32290334-32290353 None:intergenic 35.0%
AACTATCCGAAAGACTTCTC+CGG + chr7.3:32290618-32290637 None:intergenic 40.0%
GGAAAATTCAAACACATGGC+AGG - chr7.3:32290566-32290585 MS.gene019327:CDS 40.0%
TTGATCCTAAGTTTCACACC+TGG + chr7.3:32290526-32290545 None:intergenic 40.0%
TTTCTTGGATTGCTTTGGTG+GGG + chr7.3:32289995-32290014 None:intergenic 40.0%
! CGTTTGTTGGAAGAAGAACA+CGG + chr7.3:32290213-32290232 None:intergenic 40.0%
! GGAGATGATGATGAAGTCTT+TGG + chr7.3:32290124-32290143 None:intergenic 40.0%
!!! GTAGTTGAACTTTTCGGGTT+TGG + chr7.3:32290344-32290363 None:intergenic 40.0%
ACACGGTCTGTTCTGATTTC+TGG + chr7.3:32290196-32290215 None:intergenic 45.0%
CAGACATGATGCCTAATGCT+TGG - chr7.3:32289855-32289874 MS.gene019327:CDS 45.0%
GATTCTGCAGAGCTATCAAG+TGG + chr7.3:32290157-32290176 None:intergenic 45.0%
GTTCACCAGGTGTGAAACTT+AGG - chr7.3:32290518-32290537 MS.gene019327:CDS 45.0%
! AAAAGTGTGTCGTCTGGTTC+CGG - chr7.3:32290589-32290608 MS.gene019327:CDS 45.0%
! TCGGGTTTGGTTACAATTGG+TGG + chr7.3:32290331-32290350 None:intergenic 45.0%
!! CTGTTCTGATTTCTGGCTCA+GGG + chr7.3:32290189-32290208 None:intergenic 45.0%
!! TCTGTTCTGATTTCTGGCTC+AGG + chr7.3:32290190-32290209 None:intergenic 45.0%
CGAAAGACTTCTCCGGTTAC+CGG + chr7.3:32290611-32290630 None:intergenic 50.0%
CGGTAACCGGAGAAGTCTTT+CGG - chr7.3:32290609-32290628 MS.gene019327:CDS 50.0%
! GGCAGGAAAAGTGTGTCGTC+TGG - chr7.3:32290583-32290602 MS.gene019327:CDS 55.0%
! TGTCGTCTGGTTCCGGTAAC+CGG - chr7.3:32290596-32290615 MS.gene019327:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 32289830 32290840 32289830 ID=MS.gene019327
chr7.3 mRNA 32289830 32290840 32289830 ID=MS.gene019327.t1;Parent=MS.gene019327
chr7.3 exon 32289830 32290840 32289830 ID=MS.gene019327.t1.exon1;Parent=MS.gene019327.t1
chr7.3 CDS 32289830 32290840 32289830 ID=cds.MS.gene019327.t1;Parent=MS.gene019327.t1
Gene Sequence

>MS.gene019327

ATGGGAAATTACAAGTTCAAATTATCAGACATGATGCCTAATGCTTGGTTTTACAAGCTTAGAGACATGGGAAGAACAAGAAACCAAACACCAACAACACAACAAAGGAAGAAAAAGCAATCTTCAAGTTCAACAACCTCAAACACATCAAAATCAAAGCAACCCCACCAAAGCAATCCAAGAAAATCTTACTACTTTACAAGAGAGCTTAACCAAACAAGCAATAGAATCTACAACACTTCACCACCAAGAAAATCATCATCAAAACAACAAAGACCAAAAAGAAGAACACCAAAGACTTCATCATCATCTCCATTTGATTCTCCACTTGATAGCTCTGCAGAATCAGAAGAACTCCCTGAGCCAGAAATCAGAACAGACCGTGTTCTTCTTCCAACAAACGATATCATAATCGATGTTGATGACAATTCTATCATAGCAACAAGAAAAGATGATAAGCTAAATGAGTATGATTCATTATCAGAACTCATGAAACTTCCACCAATTGTAACCAAACCCGAAAAGTTCAACTACTTGTTAAACTATGCAAAGAAGAAAGAAACAAAACCCAGAAGCAAAAATTCATCAAATGATGAACTCAACGTTAAAGGGTCACTAAAAGTCAAGATTTTGAAGGAAGAACAGAGGAGCATCAACACAAACACACCAAGTAGAAGATTTTCTGTTAGTTCACCAGGTGTGAAACTTAGGATCAATTCACCAAGAATTTCAAGCAGGAAAATTCAAACACATGGCAGGAAAAGTGTGTCGTCTGGTTCCGGTAACCGGAGAAGTCTTTCGGATAGTTTTGCAATTGTGAAGTCATCATTGAATCCACAAGGAGATTTTAGAGAATCAATGGTGGAGATGATTGTTCAGAACAACATTAGAACATCAAAGGATTTGGAAGATCTTCTTGCTTGTTACCTTTCTTTGAATTCAGATGAGTATCATGAACTTATTATCAAAGTGTTCAAGCAAATATGGTTTGATTTAACCGATAATCAGTAG
Protein sequence

>MS.gene019327.t1

MGNYKFKLSDMMPNAWFYKLRDMGRTRNQTPTTQQRKKKQSSSSTTSNTSKSKQPHQSNPRKSYYFTRELNQTSNRIYNTSPPRKSSSKQQRPKRRTPKTSSSSPFDSPLDSSAESEELPEPEIRTDRVLLPTNDIIIDVDDNSIIATRKDDKLNEYDSLSELMKLPPIVTKPEKFNYLLNYAKKKETKPRSKNSSNDELNVKGSLKVKILKEEQRSINTNTPSRRFSVSSPGVKLRINSPRISSRKIQTHGRKSVSSGSGNRRSLSDSFAIVKSSLNPQGDFRESMVEMIVQNNIRTSKDLEDLLACYLSLNSDEYHELIIKVFKQIWFDLTDNQ