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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGTCGATCAGGCTGAGGCGTTCGCCATCGACGAGTCCAATCTGTTCGACAAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgttcgctctggagtctgggttatattatagctctcacttgctaagctccatttttcgattaaaatctggtgtagactaggagattttggttga...

Basic information

species Arabidopsis thaliana
transcript AT4G32690.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G32690.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv04s0008g04210.t01 (Vitis vinifera), 5'ss of exon 1
GCGTCGATCAGGCTGAGGCGTTCGCCATCGACGAGTCCAATCTGTTCGACAAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgttcgct-ctggagtctgggttatattatagctctcacttgctaagctccatttt--tcgattaaaatctggtgtagactaggagattttggttga
| |||   ||    || || || |  |||||| |  ||||||| ||  | ||  | || |||||||| ||||||||||| |||||||||||||| |||||||  | |     |   |  |   |   || | || ||  |     |   |   |  |  |||  | |||   |    |  | | | | || ||   |  |   
GAGTCTCCCAAAACGACGCCTTTGAAATCGACAACACCAATCTCTTTCAGAAATTGGGCCTTCAGACCTTCATCAACCTCTCCACCAATTTCTACACCAGgttctttaccaacaattacacaattttttgttttttaaattgttttaatttgacgtctgtttgattgatgggaggaagtcggaaaatgggggaaaatttt---
















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|116438119|gb|EG480711.1|EG480711
EST:     AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAG                         GGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
genomic: AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgtt ... tgggtattagGGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
EST: gi|116438101|gb|EG480693.1|EG480693
EST:     AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAG                         GGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
genomic: AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgtt ... tgggtattagGGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
EST: gi|116438051|gb|EG480643.1|EG480643
EST:     AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAG                         GGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
genomic: AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgtt ... tgggtattagGGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
EST: gi|86051380|gb|DR347135.1|DR347135
EST:     AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTHCTATACCAG                         GGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
genomic: AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgtt ... tgggtattagGGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
EST: gi|116438082|gb|EG480674.1|EG480674
EST:     AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAG                         GGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
genomic: AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgtt ... tgggtattagGGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
EST: gi|86051381|gb|DR347136.1|DR347136
EST:     AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAG                         GGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
genomic: AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgtt ... tgggtattagGGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
EST: gi|86051379|gb|DR347134.1|DR347134
EST:     AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACSAG                         GGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
genomic: AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgtt ... tgggtattagGGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
EST: gi|116438080|gb|EG480672.1|EG480672
EST:     AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAG                         GGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
genomic: AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgtt ... tgggtattagGGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
EST: gi|116438049|gb|EG480641.1|EG480641
EST:     AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTTTATACCAA                         GGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
genomic: AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgtt ... tgggtattagGGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
EST: gi|116473420|gb|EG516012.1|EG516012
EST:     AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAG                         GGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
genomic: AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgtt ... tgggtattagGGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
EST: gi|116438100|gb|EG480692.1|EG480692
EST:     AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAG                         GGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
genomic: AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgtt ... tgggtattagGGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
EST: gi|116473442|gb|EG516034.1|EG516034
EST:     AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAG                         GGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
genomic: AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgtt ... tgggtattagGGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
EST: gi|116438012|gb|EG480604.1|EG480604
EST:     AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAG                         GGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
genomic: AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgtt ... tgggtattagGGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
EST: gi|19877196|gb|AU238027.1|AU238027
EST:     AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAG                         GGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA
genomic: AAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgtt ... tgggtattagGGTATATGATGACGAAGAAGAATGGTTTCAATCAATATTTTCTAACTCTAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGTCGATCAGGCTGAGGCGTTCGCCATCGACGAGTCCAATCTGTTCGACAAGCTTGGTCTTCAGACATTCATCAACCTATCCACCAATTTCTATACCAGgtattgtgttcgctctggagtctgggttatattatagctctcacttgctaagctccatttttcgattaaaatctggtgtagactaggagattttggttga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cgctctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctcactt