AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene87737

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene87737.t1 MTR_7g072630 93.123 349 14 1 1 339 1 349 0.0 620
MS.gene87737.t1 MTR_7g072875 92.701 274 10 1 76 339 14 287 0.0 504
MS.gene87737.t1 MTR_4g028930 49.140 407 110 16 1 337 1 380 7.44e-91 276
MS.gene87737.t1 MTR_5g075210 39.617 366 170 11 1 336 1 345 3.35e-62 202
MS.gene87737.t1 MTR_2g018030 60.606 66 26 0 271 336 277 342 2.65e-25 104
MS.gene87737.t1 MTR_8g087530 57.576 66 28 0 271 336 258 323 3.24e-22 95.9
MS.gene87737.t1 MTR_8g103520 53.226 62 29 0 271 332 224 285 2.09e-16 79.0
MS.gene87737.t1 MTR_0907s0020 44.928 69 38 0 264 332 95 163 1.47e-14 71.2
MS.gene87737.t1 MTR_4g052040 45.070 71 39 0 262 332 90 160 7.66e-14 69.3
MS.gene87737.t1 MTR_4g132740 47.619 63 33 0 273 335 83 145 4.37e-13 66.6
MS.gene87737.t1 MTR_3g111780 42.500 80 46 0 253 332 180 259 1.86e-12 67.4
MS.gene87737.t1 MTR_7g105790 44.068 59 33 0 274 332 113 171 3.09e-12 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene87737.t1 AT1G06920 32.791 369 156 14 1 337 1 309 9.56e-41 145
MS.gene87737.t1 AT2G30400 32.703 370 162 11 1 336 1 317 3.16e-39 141
MS.gene87737.t1 AT5G58360 30.791 354 158 11 1 336 5 289 1.04e-34 129
MS.gene87737.t1 AT5G01840 34.118 340 141 10 1 335 1 262 1.52e-34 127
MS.gene87737.t1 AT4G18830 39.450 109 58 1 235 335 238 346 2.07e-19 88.2
MS.gene87737.t1 AT5G19650 50.000 66 33 0 270 335 153 218 9.32e-16 75.9
MS.gene87737.t1 AT3G52525 46.032 63 34 0 272 334 67 129 2.65e-13 67.4
MS.gene87737.t1 AT2G18500 41.791 67 39 0 269 335 224 290 4.02e-13 69.7
MS.gene87737.t1 AT2G36026 48.214 56 29 0 277 332 92 147 5.55e-12 64.3

Find 40 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACACGGTCTGTTCTGATTTC+TGG 0.132362 7.1:+29500207 None:intergenic
TCAAAGTGTTCAAGCAAATA+TGG 0.233458 7.1:-29499597 MS.gene87737:CDS
AATGATGAACACAACGTTAA+AGG 0.235673 7.1:-29499982 MS.gene87737:CDS
TTCTTCCTTTGTTGTGTTGT+TGG 0.243928 7.1:+29500480 None:intergenic
AGAATTGTTCTACTGATTAT+CGG 0.312127 7.1:+29499564 None:intergenic
CATTAGAACATCAAAGGATT+TGG 0.325611 7.1:-29499677 MS.gene87737:CDS
TGTAGATTCTATTGCTTGTT+TGG 0.346884 7.1:+29500358 None:intergenic
TTTGTTGTGTTGTTGGTGTT+TGG 0.367246 7.1:+29500487 None:intergenic
GAGAGGTAATGGGAAATTAC+AGG 0.389366 7.1:-29500578 None:intergenic
ATGATGAACACAACGTTAAA+GGG 0.389606 7.1:-29499981 MS.gene87737:CDS
TACGTCTTCCACCATCGTTT+CGG 0.400519 7.1:-29499806 MS.gene87737:CDS
CCATCGTTTCGGCTGGCAAC+CGG 0.420330 7.1:-29499795 MS.gene87737:CDS
GTTCACCAGGTGTGAAACTT+AGG 0.443025 7.1:-29499882 MS.gene87737:CDS
TCTGTTCTGATTTCTGGCTC+AGG 0.447190 7.1:+29500213 None:intergenic
TTTCTTGGATTGCTTTGGTA+GGG 0.457667 7.1:+29500408 None:intergenic
TCGGGTTTGGTTACAATTGG+TGG 0.459629 7.1:+29500072 None:intergenic
GGAGATGATGATGAAGTCTT+TGG 0.474574 7.1:+29500279 None:intergenic
CAGACATGATGCCTAATGCT+TGG 0.484513 7.1:-29500545 MS.gene87737:CDS
CTGTTCTGATTTCTGGCTCA+GGG 0.485970 7.1:+29500214 None:intergenic
AGCTTGTAAAACCAAGCATT+AGG 0.493200 7.1:+29500534 None:intergenic
CTAACAGAAAATCTTCTACT+TGG 0.507243 7.1:+29499904 None:intergenic
AGGAGATTTCAGAGAATCAA+TGG 0.515867 7.1:-29499722 MS.gene87737:CDS
ATTCACCAAGAATTTCAAAC+CGG 0.519789 7.1:-29499855 MS.gene87737:CDS
TCTTCCACCATCGTTTCGGC+TGG 0.529072 7.1:-29499802 MS.gene87737:CDS
CTATCAAGTGGAGAATCAAA+TGG 0.529685 7.1:+29500258 None:intergenic
ACTCATCTGAATTCAAAGAA+AGG 0.530280 7.1:+29499635 None:intergenic
AACTATCTGAAAGACTTCTC+CGG 0.535892 7.1:+29499776 None:intergenic
GAACAACATTAGAACATCAA+AGG 0.551741 7.1:-29499683 MS.gene87737:CDS
GGAAAATTCAAACACATGGC+CGG 0.552191 7.1:-29499834 MS.gene87737:CDS
AAACACCAACAACACAACAA+AGG 0.563217 7.1:-29500485 MS.gene87737:CDS
TCGATTATGATGTCGTTCGT+CGG 0.569783 7.1:+29500177 None:intergenic
GTTGCCAGCCGAAACGATGG+TGG 0.586748 7.1:+29499798 None:intergenic
GATTCTCTGAAATCTCCTTG+TGG 0.590560 7.1:+29499727 None:intergenic
CCGGTTGCCAGCCGAAACGA+TGG 0.591822 7.1:+29499795 None:intergenic
AACCGGAAAATTCAAACACA+TGG 0.611341 7.1:-29499838 MS.gene87737:CDS
GATTCTGCAGAGCTATCAAG+TGG 0.613063 7.1:+29500246 None:intergenic
TTGATCCTAAGTTTCACACC+TGG 0.631177 7.1:+29499877 None:intergenic
AGATTTCAGAGAATCAATGG+TGG 0.652480 7.1:-29499719 MS.gene87737:CDS
AAGTCATCATTGAATCCACA+AGG 0.674680 7.1:-29499742 MS.gene87737:CDS
CGTTCGTCGGAAGAAGAACA+CGG 0.706093 7.1:+29500190 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACTAAAAGTCAAGATTTTGA+AGG - chr7.1:29500187-29500206 MS.gene87737:CDS 25.0%
!! ATTTGATGAATTTTTGCTTC+TGG + chr7.1:29500144-29500163 None:intergenic 25.0%
!! GTAAAGTAGTAAGATTTTCT+TGG + chr7.1:29499753-29499772 None:intergenic 25.0%
!! TAACAAGTAGTTGAACTTTT+CGG + chr7.1:29500093-29500112 None:intergenic 25.0%
!! TTTGATGAATTTTTGCTTCT+GGG + chr7.1:29500143-29500162 None:intergenic 25.0%
!!! TGTTTTGATGATGATTTTCT+TGG + chr7.1:29499822-29499841 None:intergenic 25.0%
AATGATGAACACAACGTTAA+AGG - chr7.1:29500161-29500180 MS.gene87737:CDS 30.0%
ACTCATCTGAATTCAAAGAA+AGG + chr7.1:29500511-29500530 None:intergenic 30.0%
ATGATGAACACAACGTTAAA+GGG - chr7.1:29500162-29500181 MS.gene87737:CDS 30.0%
ATTCACCAAGAATTTCAAAC+CGG - chr7.1:29500288-29500307 MS.gene87737:CDS 30.0%
CATTAGAACATCAAAGGATT+TGG - chr7.1:29500466-29500485 MS.gene87737:CDS 30.0%
CTAACAGAAAATCTTCTACT+TGG + chr7.1:29500242-29500261 None:intergenic 30.0%
GAACAACATTAGAACATCAA+AGG - chr7.1:29500460-29500479 MS.gene87737:CDS 30.0%
TGTAGATTCTATTGCTTGTT+TGG + chr7.1:29499788-29499807 None:intergenic 30.0%
! AACAAGTAGTTGAACTTTTC+GGG + chr7.1:29500092-29500111 None:intergenic 30.0%
! AAGATTTTCTTGGATTGCTT+TGG + chr7.1:29499743-29499762 None:intergenic 30.0%
! TCAAAGTGTTCAAGCAAATA+TGG - chr7.1:29500546-29500565 MS.gene87737:CDS 30.0%
! TTTTACAAGCTTAGAGACAT+GGG - chr7.1:29499621-29499640 MS.gene87737:CDS 30.0%
!! ATTTTCCGGTTTGAAATTCT+TGG + chr7.1:29500296-29500315 None:intergenic 30.0%
!!! CTTTGTTTTTGATGTGTTTG+AGG + chr7.1:29499712-29499731 None:intergenic 30.0%
!!! TTTGATGATGATTTTCTTGG+TGG + chr7.1:29499819-29499838 None:intergenic 30.0%
AAACACCAACAACACAACAA+AGG - chr7.1:29499658-29499677 MS.gene87737:CDS 35.0%
AACCGGAAAATTCAAACACA+TGG - chr7.1:29500305-29500324 MS.gene87737:CDS 35.0%
AACTATCTGAAAGACTTCTC+CGG + chr7.1:29500370-29500389 None:intergenic 35.0%
AAGTCATCATTGAATCCACA+AGG - chr7.1:29500401-29500420 MS.gene87737:CDS 35.0%
AGATTTCAGAGAATCAATGG+TGG - chr7.1:29500424-29500443 MS.gene87737:CDS 35.0%
AGCTTGTAAAACCAAGCATT+AGG + chr7.1:29499612-29499631 None:intergenic 35.0%
AGGAGATTTCAGAGAATCAA+TGG - chr7.1:29500421-29500440 MS.gene87737:CDS 35.0%
CTATCAAGTGGAGAATCAAA+TGG + chr7.1:29499888-29499907 None:intergenic 35.0%
TTTCTTGGATTGCTTTGGTA+GGG + chr7.1:29499738-29499757 None:intergenic 35.0%
! AGATTTTCTGTTAGTTCACC+AGG - chr7.1:29500248-29500267 MS.gene87737:CDS 35.0%
! GTTTTACAAGCTTAGAGACA+TGG - chr7.1:29499620-29499639 MS.gene87737:CDS 35.0%
! TTCTTCCTTTGTTGTGTTGT+TGG + chr7.1:29499666-29499685 None:intergenic 35.0%
! TTTGTTGTGTTGTTGGTGTT+TGG + chr7.1:29499659-29499678 None:intergenic 35.0%
! TTTTCTTGGATTGCTTTGGT+AGG + chr7.1:29499739-29499758 None:intergenic 35.0%
!! AGATTTTGAAGGAAGAACAG+AGG - chr7.1:29500198-29500217 MS.gene87737:CDS 35.0%
!!! GTCTTTGGTGTTCTTCTTTT+TGG + chr7.1:29499852-29499871 None:intergenic 35.0%
!!! TTTTCGGGTTTGGTTACAAT+TGG + chr7.1:29500077-29500096 None:intergenic 35.0%
GGAAAATTCAAACACATGGC+CGG - chr7.1:29500309-29500328 MS.gene87737:CDS 40.0%
TCGATTATGATGTCGTTCGT+CGG + chr7.1:29499969-29499988 None:intergenic 40.0%
TTGATCCTAAGTTTCACACC+TGG + chr7.1:29500269-29500288 None:intergenic 40.0%
! GGAGATGATGATGAAGTCTT+TGG + chr7.1:29499867-29499886 None:intergenic 40.0%
! GGCCATGTGTTTGAATTTTC+CGG + chr7.1:29500310-29500329 None:intergenic 40.0%
!! GATTCTCTGAAATCTCCTTG+TGG + chr7.1:29500419-29500438 None:intergenic 40.0%
!!! GTAGTTGAACTTTTCGGGTT+TGG + chr7.1:29500087-29500106 None:intergenic 40.0%
ACACGGTCTGTTCTGATTTC+TGG + chr7.1:29499939-29499958 None:intergenic 45.0%
CAGACATGATGCCTAATGCT+TGG - chr7.1:29499598-29499617 MS.gene87737:CDS 45.0%
GATTCTGCAGAGCTATCAAG+TGG + chr7.1:29499900-29499919 None:intergenic 45.0%
GTTCACCAGGTGTGAAACTT+AGG - chr7.1:29500261-29500280 MS.gene87737:CDS 45.0%
TACGTCTTCCACCATCGTTT+CGG - chr7.1:29500337-29500356 MS.gene87737:CDS 45.0%
! TCGGGTTTGGTTACAATTGG+TGG + chr7.1:29500074-29500093 None:intergenic 45.0%
! TGGTGGAAGACGTACTTTTC+CGG + chr7.1:29500331-29500350 None:intergenic 45.0%
!! CTGTTCTGATTTCTGGCTCA+GGG + chr7.1:29499932-29499951 None:intergenic 45.0%
!! TCTGTTCTGATTTCTGGCTC+AGG + chr7.1:29499933-29499952 None:intergenic 45.0%
CGTTCGTCGGAAGAAGAACA+CGG + chr7.1:29499956-29499975 None:intergenic 50.0%
TCTTCCACCATCGTTTCGGC+TGG - chr7.1:29500341-29500360 MS.gene87737:CDS 55.0%
CCATCGTTTCGGCTGGCAAC+CGG - chr7.1:29500348-29500367 MS.gene87737:CDS 60.0%
GTTGCCAGCCGAAACGATGG+TGG + chr7.1:29500348-29500367 None:intergenic 60.0%
CCGGTTGCCAGCCGAAACGA+TGG + chr7.1:29500351-29500370 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 29499573 29500592 29499573 ID=MS.gene87737
chr7.1 mRNA 29499573 29500592 29499573 ID=MS.gene87737.t1;Parent=MS.gene87737
chr7.1 exon 29499573 29500592 29499573 ID=MS.gene87737.t1.exon1;Parent=MS.gene87737.t1
chr7.1 CDS 29499573 29500592 29499573 ID=cds.MS.gene87737.t1;Parent=MS.gene87737.t1
Gene Sequence

>MS.gene87737

ATGGGAAATTACAGGTTCAAATTATCAGACATGATGCCTAATGCTTGGTTTTACAAGCTTAGAGACATGGGAAGAACAAGAAACCAAACACCAACAACACAACAAAGGAAGAAAAAGCAATCTTCAAGTTCAACAACCTCAAACACATCAAAAACAAAGCAACCCTACCAAAGCAATCCAAGAAAATCTTACTACTTTACAAGAGAGCTTAACCAAACAAGCAATAGAATCTACAACACTTCACCACCAAGAAAATCATCATCAAAACAACAAAGACCAAAAAGAAGAACACCAAAGACTTCATCATCATCTCCATTTGATTCTCCACTTGATAGCTCTGCAGAATCAGAAGAACTCCCTGAGCCAGAAATCAGAACAGACCGTGTTCTTCTTCCGACGAACGACATCATAATCGATGTTGACGACAATTCTATCATAGCAACAAGAAAAGATGATAAGCTAAATGAGTATGATTCATTATCAGAACTCATGAAACTTCCACCAATTGTAACCAAACCCGAAAAGTTCAACTACTTGTTAAACTATGCAAAGAAGAAAGAAACAAAACCCAGAAGCAAAAATTCATCAAATGATGAACACAACGTTAAAGGGTCACTAAAAGTCAAGATTTTGAAGGAAGAACAGAGGAGCATCAACACAAACACACCAAGTAGAAGATTTTCTGTTAGTTCACCAGGTGTGAAACTTAGGATCAATTCACCAAGAATTTCAAACCGGAAAATTCAAACACATGGCCGGAAAAGTACGTCTTCCACCATCGTTTCGGCTGGCAACCGGAGAAGTCTTTCAGATAGTTTTGCAATTGTGAAGTCATCATTGAATCCACAAGGAGATTTCAGAGAATCAATGGTGGAGATGATTGTTCAGAACAACATTAGAACATCAAAGGATTTGGAAGATCTTCTTGCTTGTTACCTTTCTTTGAATTCAGATGAGTATCATGAACTTATTATCAAAGTGTTCAAGCAAATATGGTTTGATTTAACCGATAATCAGTAG
Protein sequence

>MS.gene87737.t1

MGNYRFKLSDMMPNAWFYKLRDMGRTRNQTPTTQQRKKKQSSSSTTSNTSKTKQPYQSNPRKSYYFTRELNQTSNRIYNTSPPRKSSSKQQRPKRRTPKTSSSSPFDSPLDSSAESEELPEPEIRTDRVLLPTNDIIIDVDDNSIIATRKDDKLNEYDSLSELMKLPPIVTKPEKFNYLLNYAKKKETKPRSKNSSNDEHNVKGSLKVKILKEEQRSINTNTPSRRFSVSSPGVKLRINSPRISNRKIQTHGRKSTSSTIVSAGNRRSLSDSFAIVKSSLNPQGDFRESMVEMIVQNNIRTSKDLEDLLACYLSLNSDEYHELIIKVFKQIWFDLTDNQ