Sequence
atgc intronic sequence ATGC exonic sequenceGGTGGATGGGAGGATGATGAGACTGTTACAGAAGCTGCTTGCCGCGAGGCTTTAGAGGAAGCAGGAGTTAAAGGAATACTAAGAgtaggttcaatttccctctaggttgtttaagtattggttatagtccattctccatcatggaatgtttaaacataccaattagaatgacacaacaaaggga...
Basic information
species | Glycine max |
transcript | GLYMA16G05080.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G05080.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G12880.1 (Arabidopsis thaliana), 5'ss of exon 3
GGTGGATGGGAGGATGATGAGACTGTTACAGAAGCTGCTTGCCGCGAGGCTTTAGAGGAAGCAGGAGTTAAAGGAATACTAAGAgtaggttcaatttccctctaggt----tgtttaagtattggttatagtccattctccatcatggaatgtttaaacataccaattagaatgacacaacaaaggga
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GGAGGATGGGAAGATGATGAGACTGTTCTTGAAGCTGCTTCTCGTGAAGCCATTGAAGAAGCAGGAGTTAAAGGAATACTTAGAgtaagtttacacctttattaaacaaaacactaagaaagctattttaaagttttttgaattagatgtgttttggtcatgtttttgtttatag-------------
upper sequence: GLYMA16G05080.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G26690.2 (Arabidopsis thaliana), 5'ss of exon 3
GGTGGATGGGAGGATGATGAGACTGTTACAGAAGCTGCTTGCCGCGAGGCTTTAGAGGAAGCAGGAGTTAAAGGAATACTAAGAgtaggttcaatttccctctaggttgtttaagtattggttatagtccattctccatcatggaatgtttaaacataccaattagaatgacacaacaaaggga
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GGAGGATGGGAAGATGATGAAACTGTTCTTGAAGCTGCTTCTCGTGAAGCTATGGAAGAAGCAGGAGTTAAAGGAATACTAAGAgtaagtt---tttttattaaggcagt-----cattctttatcgaaagttctt--gtataga---tttaagattggtgtgttgtgtag-------------
upper sequence: GLYMA16G05080.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv14s0068g00870.t01 (Vitis vinifera), 5'ss of exon 3
GGTGGATGGGAGGATGATGAGACTGTTACAGAAGCTGCTTGCCGCGAGGCTTTAGAGGAAGCAGGAGTTAAAGGAATACTAAGAgtaggttcaatttccctctaggttgtttaagtattggttatagtccattctc---catcatggaatgtttaaacataccaattagaatgacacaacaaaggga
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GGTGGATGGGAGGATGATGAGACCGTTGAAGAAGCAGCATGCCGTGAAGCCTTAGAGGAAGCAGGAGTGAAAGGAATTCTTAATgtatgtcccttttcctgcttgataattgccattgtagctattgtggatgtgcatatgtattccattacttgaac-tgcaagaagagagaacttcactttgc--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|19054175|gb|BM732842.1|BM732842EST: CTGCTTGCCGCGAGGCTTTAGAGGAAGCAGGAGTTAAAGGAATACTAAGA GAAATTCCACTAGGAATATGGGAGTTCAGAAGCAAAACCAGTCAAGGCTTA
genomic: CTGCTTGCCGCGAGGCTTTAGAGGAAGCAGGAGTTAAAGGAATACTAAGAgtaggttcaa ... tcattttcagGAAATTCCACTAGGAATATGGGAGTTCAGAAGCAAAACCAGTCAAGACTTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTGGATGGGAGGATGATGAGACTGTTACAGAAGCTGCTTGCCGCGAGGCTTTAGAGGAAGCAGGAGTTAAAGGAATACTAAGAgtaggttcaatttccctctaggttgtttaagtattggttatagtccattctccatcatggaatgtttaaacataccaattagaatgacacaacaaaggga
- - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctccatc