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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATAGAGCTGGGGGATACACCAGATTGCTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacattgctacttactttttgatagtctagttttactgttttagactcattttttaggttcatttgggtaacccaccccacttgatttcacttaa...

Basic information

species Glycine max
transcript GLYMA06G15680.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G15680.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G64650.1 (Arabidopsis thaliana), 5'ss of exon 5
GGATAGAGCTGGGGGATACACCAGATTGCTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgag-tacattgcta--cttactttttgatagtctagttttactgttttagactcattttttaggttcatttgggtaacccaccccacttgatttcacttaa
 ||||||||||| |||||||| ||| ||||||| || || ||||| || ||||||||||| || |||||||||||||||| |   |  || ||   |||  || ||  ||    |    || ||  || || |  |  |||||   || ||    |||  |    |      |  | || |
AGATAGAGCTGGTGGATACACAAGAATGCTTCGTACTCGCATTCGTGTTGGTGATGCTGCCCCAATGGCCTATATCGAgtaaaacaagtttcttttctttattctttttaacagaagcatattgaattcgagtt-tagtttagtcacagtta--caacaaaatggatgatgctatatttta

upper sequence: GLYMA06G15680.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G09770.1 (Arabidopsis thaliana), 5'ss of exon 5
GGATAGAGCTGGGGGATACACCAGATTGCTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacattgctacttactttttgatagt-ctagttttactgttttagactcattttttaggttcatttgggtaacccaccccacttga----tttcacttaa---------------------------------
 ||||||||||| |||||||| ||| |||| || || || || ||||| ||||||||||| || |||||||||||||||| |    | |     ||  || |   |  | || |||||||  |  ||    ||| ||    | |||  |  | |         | |||     ||||   | |                                 
AGATAGAGCTGGTGGATACACAAGACTGCTACGTACTCGCATACGAGTTGGTGATGCTGCTCCTATGGCCTATATCGAgtaaaactagtttcttttctttatcagtctttctggttttacattcatatctccatgtt---agatcaaataagaagtgttaatgatttggaagctttctggtgaactaatttggtcgatacttgatactttggatag

upper sequence: GLYMA06G15680.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv04s0044g00980.t01 (Vitis vinifera), 5'ss of exon 5
GGATAGAGCTGGGGGATACACCAGATTGCTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacattgctacttactttttgata-gtctagttttactgttttagactcattttttaggttcatttgggt-aacccaccccacttgatttcacttaa-
 ||||||||||| ||||| || ||||| ||||| || || || ||||| |||||||||||||| ||||||||||| |||| ||   ||||    | |||| ||  |  |  |  ||||   |  | |  |   | | | |   |  | |   |  |   |    |   ||| | ||   | 
AGATAGAGCTGGTGGATATACAAGATTACTTCGAACTCGCATACGAGTTGGTGATGCTGCACCAATGGCCTATATTGAgtaag---attgtatttgacttgttattgcgattgttttttaggagtcaagcatctgtctgacactagtgtctttcgaatgattttagaagatgttacaatat

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|298180743|gb|HO022182.1|HO022182
EST:     CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGA                         GTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCAACTCCTCA
genomic: CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacat ... tttgaaacagGTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
EST: gi|298170767|gb|HO015743.1|HO015743
EST:     CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGA                         GTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCAACTCCTCA
genomic: CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacat ... tttgaaacagGTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
EST: gi|192322981|gb|FK016712.1|FK016712
EST:     CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGA                         GTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
genomic: CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacat ... tttgaaacagGTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
EST: gi|192306136|gb|FG993698.1|FG993698
EST:     CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGA                         GTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
genomic: CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacat ... tttgaaacagGTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
EST: gi|22927036|gb|BU544175.1|BU544175
EST:     CTTCGGACCCGTATTCGAGTGGGTGATGNNNNNNNGATGGCCTATATCGA                         GTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
genomic: CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacat ... tttgaaacagGTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
EST: gi|151396812|gb|EV266685.1|EV266685
EST:     CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGA                         GTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
genomic: CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacat ... tttgaaacagGTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
EST: gi|192306137|gb|FG993699.1|FG993699
EST:     CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGA                         GTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
genomic: CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacat ... tttgaaacagGTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
EST: gi|192317271|gb|FK010502.1|FK010502
EST:     CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGA                         GTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
genomic: CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacat ... tttgaaacagGTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
EST: gi|298174884|gb|HO014801.1|HO014801
EST:     CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGA                         GTTTATTGACAGAGAAAATGAGCTTAGACAGGCAAAGGCACCAACTCCTCA
genomic: CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacat ... tttgaaacagGTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
EST: gi|151407106|gb|EV276921.1|EV276921
EST:     CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGA                         GTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
genomic: CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacat ... tttgaaacagGTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
EST: gi|151395463|gb|EV265340.1|EV265340
EST:     CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGA                         GTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
genomic: CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacat ... tttgaaacagGTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
EST: gi|192317270|gb|FK010501.1|FK010501
EST:     CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGA                         GTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
genomic: CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacat ... tttgaaacagGTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
EST: gi|192299353|gb|FG990749.1|FG990749
EST:     CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGA                         GTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
genomic: CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacat ... tttgaaacagGTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
EST: gi|58020226|gb|CX706968.1|CX706968
EST:     CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGA                         GTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA
genomic: CTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacat ... tttgaaacagGTTTATTGACAGAGAAAATGAGCTTAGGCAGGCAAAGGCACCGACTCCTCA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGATAGAGCTGGGGGATACACCAGATTGCTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGAgtgagtacattgctacttactttttgatagtctagttttactgttttagactcattttttaggttcatttgggtaacccaccccacttgatttcacttaa

- - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccaccc