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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggatgcttgcctttatgtcccccccacaacttaaattgtttgtatttatgctaatttgtgaactttggtttgtgttgttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACTTCAAGAGTGGTCAGACCAAAATGAAATCTGTGTTGGTTGATTTTCTTGT

Basic information

species Glycine max
transcript GLYMA18G02210.4
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G02210.4 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g09250.2 (Oryza sativa), 3'ss of exon 5
gttggatgcttgcctttatgtcccccccacaacttaaattgtttgtatttatgctaatttgtgaactttggtttgtgttgttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACTTCAAGAGTGGTCAGACCAAAATGAAATCTGTGTTGGTTGATTTTCTTGT
           |  | ||  |  |       | |   ||    | |||||   |   ||  ||   |    ||||| ||  |||   |||||||||| |||||||| ||   ||  |||    |||||||||| ||||| ||||||||||| ||||| || ||||| ||||| ||||||||||| || ||
-----------gtatgtaattttctgtgtagagtagtatgcggtttattttctcaggttcatggctt---atttgt-ttactgtgtacagGGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATTTCAAGAGTGGACAGACAAAGATGAAGTCTGTCTTGGTTGATTTCCTAGT

upper sequence: GLYMA18G02210.4 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G155242_T01 (Zea mays), 3'ss of exon 5
--------------------------gttggatgcttgcctttatgtcccccccacaacttaaattgtttgtatttatgctaatttgtgaactttggtttgtgttgt-tgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACTTCAAGAGTGGTCAGACCAAAATGAAATCTGTGTTGGTTGATTTTCTTGT
                          | |  ||| |    |  || ||    ||| |  || |     |||||||| || |       |   | |  |   |||||  |||    |||||||||||||||||| ||    |  |||   ||||||||||| || |||||||||||||| |||||||| ||||||||||| ||||| ||||| |||||
gtgcgtggtttggtgtgtttgcaaaagcttcatggtg--ttgcatttctgttccaaagtttcatggtgttgtatttctgtt---ccaaggcttattatacctgttgcatgttcgtagGGCTGATTGATCTTGCTATAAAAAACAACTGCTTGATTGGTGGTGACGACTTCAAGAGTGGACAGACCAAGATGAAATCTGTCTTGGTCGATTTCCTTGT

upper sequence: GLYMA18G02210.4 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G004528_T03 (Zea mays), 3'ss of exon 5
gttggatgcttgcctttatgtcccccccacaacttaaattgtttgtatttatgctaatttgtgaactttggtttgtgttgttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACTTCAAGAGTGGTCAGACCAAAATGAAATCTGTGTTGGTTGATTTTCTTGT
   |  || ||   ||  |||   ||| |    |||   |||| | || | || | |         ||    |||| |  |  |  | |||||||||||||||||| |||  ||  |||    |||| ||||| || |||||||||||||| |||||||| |||||||| ||  ||||||||||||||||
---gtgtgtttagtttggtgtgttcccaaagttttatggtgtt-gcatctctgttcaaaaaacttattatacttgtttcatgtttgt-agGGCTGATTGATCTTGCTATCAAGAACAACTGCCTGATCGGTGGTGACGACTTCAAGAGTGGGCAGACCAAGATGAAATCGGTCCTGGTTGATTTTCTTGT

upper sequence: GLYMA18G02210.4 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G177461_T01 (Zea mays), 3'ss of exon 5
gttggatgcttgcctttatgtcccccccacaacttaaattgtttgtatttatgctaatttgtgaactttggtttgtgttgttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACTTCAAGAGTGGTCAGACCAAAATGAAATCTGTGTTGGTTGATTTTCTTGT
      ||| |  |  |       |  || || || |  ||| |||||||    |   | || |  ||  |||  ||          |||||||||| || ||||||||    | |||  |  |||| || || || ||||| |||||||| |||||||| ||||| ||||||||||| ||||| || ||
-----gtgcgtagcgctgca----ctacaaaattttacatgtgtgtatttgc-ttgtgtagtaatgttcagttcatgca--------cagGGCTGATGGAGCTTGCCATAAAAAAGAATTCGGTGATAGGAGGCGACGACTTTAAGAGTGGGCAGACCAAGATGAAGTCTGTGTTGGTCGATTTCCTCGT

upper sequence: GLYMA18G02210.4 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G392513_T02 (Zea mays), 3'ss of exon 3
-------------gttggatgcttgcctttatgtcccccccacaacttaaattgtttgtatttatgctaatttgtgaactttggtttgtgttgt-tgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACTTCAAGAGTGGTCAGACCAAAATGAAATCTGTGTTGGTTGATTTTCTTGT
              | |  || ||   ||  |||     | |    |||   |||| | |||| || | |     ||  | |  |  ||||||  |||    |||||||||||||||||| |||  ||  |||    |||| ||||| || |||||||||||||| |||||||| |||||||| ||  | ||||| || || ||
aacacttttgtgcctggtgtgtttagtttggtgtgtttgcaaagttttatggtgtt-gcatttctgttca---aagacttattatacgtgttgcatgtttgtagGGCTGATTGATCTTGCTATCAAGAACAACTGCCTGATCGGTGGTGACGACTTCAAGAGTGGGCAGACCAAGATGAAATCAGTCCTAGTTGAATTCCTAGT

upper sequence: GLYMA18G02210.4 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G392513_T01 (Zea mays), 3'ss of exon 1
gttggatgcttgcctttatgtcccccccacaacttaaattgtttgtatttatgctaatttgtgaactttggtttgtgttgt-tgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACTTCAAGAGTGGTCAGACCAAAATGAAATCTGTGTTGGTTGATTTTCTTGT
   |  || ||   ||  |||     | |    |||   |||| | |||| || | |     ||  | |  |  ||||||  |||    |||||||||||||||||| |||  ||  |||    |||| ||||| || |||||||||||||| |||||||| |||||||| ||  | ||||| || || ||
---gtgtgtttagtttggtgtgtttgcaaagttttatggtgtt-gcatttctgttca---aagacttattatacgtgttgcatgtttgtagGGCTGATTGATCTTGCTATCAAGAACAACTGCCTGATCGGTGGTGACGACTTCAAGAGTGGGCAGACCAAGATGAAATCAGTCCTAGTTGAATTCCTAGT

upper sequence: GLYMA18G02210.4 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G145638_T02 (Zea mays), 3'ss of exon 1
gttggatgcttgcctttatgtcccccccacaacttaaattgtttgtatttatgctaatttgtgaactttggtttgtgttgt-tgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACTTCAAGAGTGGTCAGACCAAAATGAAATCTGTGTTGGTTGATTTTCTTGT-
   |  || ||   ||  |||     | |    |||   |||| | |||| || | |     ||  | |  |   |||||  |||    |||||||||||||||||| |||  ||  |||    |||| ||||  || |||||||||||||| |||||||| |||||||| ||  |||||||||| ||||| 
---gtgtgtttagtttggtgtgtttgcaaagttttatggtgtt-gcatttctgttca---aagacttattatacttgttgcatgtttgtagGGCTGATTGATCTTGCTATCAAGAACAACTGCCTGATCGGTGTTGACGACTTCAAGAGTGG-CAGACCAAGATGAAATCAGTCCTGGTTGATTTCCTTGTT

upper sequence: GLYMA18G02210.4 (Glycine max), 3'ss of exon 5
lower sequence: AT4G39800.1 (Arabidopsis thaliana), 3'ss of exon 5
gttggatgcttgcctttatgtcccccccacaacttaaattgtttgtatttatgctaatttgtgaactttggtttgtgttgttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACTTCAAGAGTGGTCAGACCAAAATGAAATCTGTGTTGGTTGATTTTCTTGT
    | | | ||   ||  ||      |||   || |    |   ||||     | ||   |||  ||    ||| |   ||||  | ||| || |||||| | || |||  ||  ||   |||||| ||||||||||| |||||||||||||| ||||| ||||||||||| ||||||||||| || ||
----gtttcatgtagttgagttttaatcactcattgatcaatcaatattggaaatcatgactgatttt---cttgggggtttgttgt-agGTCTAATTGATATGGCGATCAGGAACAATGTTTTGATCGGTGGAGATGATTTCAAGAGTGGTCAAACCAAGATGAAATCTGTCTTGGTTGATTTCCTAGT

upper sequence: GLYMA18G02210.4 (Glycine max), 3'ss of exon 5
lower sequence: AT5G10170.1 (Arabidopsis thaliana), 3'ss of exon 5
gttggatgcttgcctttatgtcccccccacaacttaaattgtttgtatttatgctaatttgtgaactttggtttgtgttgttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACTTCAAGAGTGGTCAGACCAAAATGAAATCTGTGTTGGTTGATTTTCTTGT
    |   ||    |  |      |   | |   | |||    |  | || |    | |  | |  ||| | || | || |      ||||||| |||||  | |||||   ||| |||   ||||| ||||| |||||||||||||||||||||||||| ||||| |||||  | || ||||| |||||
----gtaactaaattaaactatatctagatagtattaatgaccttcaattttctatagtaatcacattttgcttatattata-----cagGGCTTATTGAATTAGCCATAAAGAGAAACTGCTTGATCGGTGGTGATGACTTCAAGAGTGGTCAGACCAAGATGAAGTCTGTCCTCGTCGATTTCCTTGT

upper sequence: GLYMA18G02210.4 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0031g00920.t01 (Vitis vinifera), 3'ss of exon 5
-------gttggatgcttgccttt---atgtcccccccacaacttaa----attgtttgtatttatgctaatttgtgaactt-tggtttgtgtt-gt-tgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACTTCAAGAGTGGTCAGACCAAAATGAAATCTGTGTTGGTTGATTTTCTTGT
        |  ||   || |||||   ||||       |  | || |    |  |   |  | ||  || | |  ||   || | ||   | || || |||| ||||||||||||||| | || ||   |||||| | |||||||||||| ||||| || ||||||||||| ||||| ||||||||||| ||||| ||||| |||||
gttcttaatctgaaattttccttttctatgtgaaggttatgaattcatcatagagggggcgtctaatctcactcatgtttttgttgtcaatctttgtatgtcttcagGGCTGATTGATTTGGCTATTAAGAGGAATAGTTTGATTGGTGGGGATGATTTTAAGAGTGGTCAAACCAAGATGAAATCTGTATTGGTGGATTTCCTTGT

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|6502144|gb|AW203517.1|AW203517
EST:     GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
EST: gi|19453629|gb|BM955039.1|BM955039
EST:     GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
EST: gi|11413502|gb|BF425513.1|BF425513
EST:     GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
EST: gi|193324768|gb|FK288036.1|FK288036
EST:     GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
EST: gi|193402716|gb|FK367178.1|FK367178
EST:     GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
EST: gi|193401065|gb|FK365430.1|FK365430
EST:     GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
EST: gi|4296509|gb|AI442485.1|AI442485
EST:     GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACCTTTGTACCAG                         GGCTTGAT-GATCTTGCCATCGCGAGGAAC
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCT-GATTGATCTTGCCATCGCGAGGAAC
EST: gi|19270872|gb|BM887128.1|BM887128
EST:     GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
EST: gi|120530142|gb|EH258276.1|EH258276
EST:     GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
EST: gi|6454183|gb|AW184796.1|AW184796
EST:     TTTCATTAATGGAAGTCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: TTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
EST: gi|208072570|gb|GD869830.1|GD869830
EST:     GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
EST: gi|193356088|gb|FK322689.1|FK322689
EST:     GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
EST: gi|207781450|gb|GD754001.1|GD754001
EST:     GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
EST: gi|207834410|gb|GD806311.1|GD806311
EST:     GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
EST: gi|13790045|gb|BG652636.1|BG652636
EST:     GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
EST: gi|193424429|gb|FK391230.1|FK391230
EST:     GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAG                         GGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT
genomic: GGAAAATGTTCCTTTCATTAATGGAAGCCCTCAGAACACTTTTGTACCAGgttggatgct ... ttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattgtttgtatttatgctaatttgtgaactttggtttgtgttgttgtcatcagGGCTGATTGATCTTGCCATCGCGAGGAACACTTTGATTGGTGGAGATGACTTCAAGAGTGGTCAGACCAAAATGAAATCTGTGTTGGTTGATTTTCTTGT
                tgctaat  putative branch site (score: 2)
          tatttatgctaattt  TA-rich tract