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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttcagtcactggttaatgctgcctgaaatgcttgtggagcagaaatgttaacatttatgacatgtgattgttgtttcag

Basic information

species Glycine max
transcript GLYMA08G20830.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 5'ss of exon 3
CATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttcagtcac--tggt-----taatgctgcctgaaatg-cttgtggagcagaa--atgttaacatttatgacatgtg-attgt-tgtttcag---
 |  ||   ||  | || ||  | |||||    || ||  | |||   || |||||||| |||||||| || || || |||||||||||||| |||||||||  |   | | |   ||||     | ||  || ||    ||     || | ||||   |  |  | || |   |||  || | ||| |  ||  |   
-AGCGCCAGTC--GGAGTGAACTTGAGAGACAAGATTACCCGATTGCCAGGCATCCTGAATTCCGTTACAAGACTGAATTTCAGAGTCATGAACCTGAGgtatgtgaaacttaaaatggttttaattatagtgtctcccctggtccatgaatcagagtgacatatatatctgccacagttggactgtataattttgata

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G069631_T02 (Zea mays), 5'ss of exon 3
CATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttcagtcactggttaatgct--gcctgaaatg-cttgtggagcagaaatgttaacatttatgacatgtgattgttgtttcag----------------
 | |||   || || ||  ||||| |||||   || |||  | ||  ||| ||||||||||||||||| || || || |||||||||||||| |||||||||    |  |||     ||   | |   ||   | |  |   | |  ||  | ||| ||  || |   | ||||| ||  |                      
-AATGCTTGTCGAGGAGA-ACTTG-AGAGGCAAGAATATCTTGTTTCTAGGCATCCTGAGTTCCGTTACAAGACCGAATTTCAGAGTCATGAACCTGAGgta--cgtgggtcttaaattggcgatagaccgatagtaacaatttgttcatgagtgtcaa--ttgacttcttgtgactgaggcactgagccatatctagcttgg

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G165418_T02 (Zea mays), 5'ss of exon 4
CATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgt-aattttcagtcactg-gttaatgctgcctgaaatgcttgtggagcagaaatgttaacatttatgacatgtgattgttgtttcag--------------
 | |||    ||   || ||  |||||||    ||   | |  ||| |||||| || |||||||| || ||||| || |||||||||||||| |||||||| |||   ||||   |  || | |       ||  | | | |   ||   |  |||   ||| ||   |      ||     |  |              
-AATGCCAGCCAG--AGAGAACTGGAGAGACAAGATGTTCCAGTTACTAGACACCCAGAGTTCCGCTACAAAACTGAATTTCAGAGTCATGAACCTGAGgttaataagcagtttttctgtcattttctttagaggttcctctattgccatatagttg-tattgatacaagaaagctgagaagttggtgatgttaataaca

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 3
CATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgta-attttc--agtcactggttaatgctgcctgaaatgcttgtggagca---gaaatgttaacatttatgacatgtgattgttgtttcag
      |  || ||||  ||    ||||     || |||||||| || || ||||||||||| || || ||||| |||||||| || |||||||| |||||| ||| ||  |  || || ||| || |        | ||| || |  |   ||||| || |||   | |  |||| ||| |||  |   
---CATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtatattctcgcaagcattgtttagtggtattatttgt-cttatgaattacttgaaat-ttgaca---aagtgatgttattattgaatag-

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G165418_T01 (Zea mays), 5'ss of exon 3
--CATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgt-aattttcagtcactg-gttaatgctgcctgaaatgcttgtggagcagaaatgttaacatttatgacatgtgattgttgtttcag--------------
   | |||    ||   || ||  |||||||    ||   | |  ||| |||||| || |||||||| || ||||| || |||||||||||||| |||||||| |||   ||||   |  || | |       ||  | | | |   ||   |  |||   ||| ||   |      ||     |  |              
CAGAATGCCAGCCAG--AGAGAACTGGAGAGACAAGATGTTCCAGTTACTAGACACCCAGAGTTCCGCTACAAAACTGAATTTCAGAGTCATGAACCTGAGgttaataagcagtttttctgtcattttctttagaggttcctctattgccatatagttg-tattgatacaagaaagctgagaagttggtgatgttaataaca

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 3
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 5'ss of exon 5
CATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttcagtcactggttaatgctgcctgaaatgcttg--tggagcagaaatgttaacatttatgacatgtgattgttgtttcag
    | ||| | ||||| ||  | ||       || ||| | | |   || ||||| ||||| ||||||||||||||||||||||||||||| ||||||||| ||      | ||| ||  | ||  || |  |  |||  |  | |    || |     || |||   | |  ||||| |  |||
AGCAGTGGAACCAGAAGAGAGCTTGAAGAAGCTGATTAT-CCACTG--AGGCATCCAGAGTTTCGTTATAAAACAGAGTTTCAGAGTCATGACCCTGAGgtatttgatttactctgttttcttcttactcagctatttggctataccttttatctgtcttttcatgctctatccttgtt-taccag

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 3
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 3
CATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgta-attttcagtcactggttaatgctgcctg-aaatgcttgtggagcagaaatg--ttaacatttatgacatgtgattgttgtttcag
||| | || || || | |||  | |||  || ||| ||  |  ||||    ||||||||||| || ||||||||||| |||||||||||||| || |||||| |||   | | |       ||    | |   | |  |||||   |   |     | || |    ||   |   ||   ||||||||
CATGGAGGGTCCAGGAAGGATCTTGAGCAGACGGATTACCCAGTTAG---GCATCCTGAGTTTCGATATAAAACAGAATTTCAGAGTCATGAACCAGAGgtacattaaaacttatcaccagatttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaat--ctgtttcag

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 3
CATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttcagtcactggttaatgctgcctgaaatgcttgtggagcagaaat-gttaac--atttatgacatgtgattgttgtttcag-----------------------
||| | ||||||||||||||  | ||||||||||||||  | |||||    ||||| || || ||||||||||| ||||||||||| ||||| ||||||||| || |   |||   |||| | ||||||||| |   | || | ||    | | | ||     | ||| ||||  |  ||| | |                         
CATGGAGGATCAAGAAGGGATCTTGAGAGGATGGACTACCCAATTAG---GCATCCCGAATTTCGTTATAAAACTGAGTTTCAGAGCCATGAACCTGAGgtatttctt--tcatcagttactcctgcctgaagtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgctcag

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|207729375|gb|GD709147.1|GD709147
EST:     GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG                         TTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA
genomic: GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttca ... gttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA
EST: gi|193304649|gb|FK272694.1|FK272694
EST:     GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG                         TTTGACTATCTTAAGAGT
genomic: GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttca ... gttgtttcagTTTGACTATCTTAAGAGT
EST: gi|7690859|gb|AW758996.1|AW758996
EST:     GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG                         TTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA
genomic: GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttca ... gttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA
EST: gi|193635750|gb|FK580343.1|FK580343
EST:     GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG                         TTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA
genomic: GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttca ... gttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA
EST: gi|308099093|gb|HO760934.1|HO760934
EST:     GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG                         TTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA
genomic: GACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAGgtaattttca ... gttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAA