Sequence
atgc intronic sequence ATGC exonic sequence...caatgctcttgtcaggatgtcttactttacatgatcatttttttccctttccttacgtgaattcttggttttacaatgttcctttcatctctgacaaaagTCCAATATGAGAATTCTGGTTACTGGAGGAGCTGGATTTATTGGCTCTCACCTAGTTGACAAATTGATGGAAAATGAAAAAAATGAG
Basic information
species | Glycine max |
transcript | GLYMA11G15010.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G15010.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 2
caatgctcttgtcaggatgtcttactttacatgatcatttttttccctttccttacgtgaattcttggttttacaatgttcctttcatctctgacaaaagTCCAATATGAGAATTCTGGTTACTGGAGGAGCTGGATTTATTGGCTCTCACCTAGTTGACAAATTGATGGAAAATGAAAAAAATGAG-------------
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acattcattacccgtggtgatgcaacaactatactaacacaaatcactatgatccatgtagtggtagaaattgatttgttgaatgattttgaaaatacagTCGAATATGAGGATCTTGGTGACCGGAGGAGCTGGATTCATTGGTTCACATCTCGTTGATAAATTGATGCAAAACGAAAAGAATGAAGTAATCGTTGCGG
upper sequence: GLYMA11G15010.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 3'ss of exon 2
caatgctcttgtcagg--atgtcttactttacatgatcatttttttccctttccttacgtgaattcttggttttacaatgttcctttcatctctgacaaaagTCCAATATGAGAATTCTGGTTACTGGAGGAGCTGGATTTATTGGCTCTCACCTAGTTGACAAATTGATGGAAAATGAAAAAAATGAG
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-tctgcatctggttgtctatgatttagtttgtatagtaaagttgtactatgttcttaataagatgtttaaagtgagtgc-ttttttttttttcattttgcagTCAAATATGAGGATTTTGATCTCAGGAGGAGCTGGATTCATTGGTTCTCACCTTGTTGATAAGCTGATGGAAAACGAAAAGAATGAG
upper sequence: GLYMA11G15010.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 3'ss of exon 2
------caatgctcttgtcaggatgtcttactttacatgatcatttttttccctttccttacgtgaattcttggttttacaatg-ttcctttcatctctgacaaaagTCCAATATGAGAATTCTGGTTACTGGAGGAGCTGGATTTATTGGCTCTCACCTAGTTGACAAATTGATGGAAAATGAAAAAAATGAG
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tccaatcatcacattcatgccaacacatcattgcactagatcattacttttattatctttaactaattcct-------acagtaattcctttcactcttgatggcagTCCAATATGAGAATATTGGTCACTGGAGGAGCTGGATTCATTGGTTCACATTTGGTGGACAAGCTGATGGAAAATGAAAAGAATGAGMapped 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|18040716|gb|BM309010.1|BM309010EST: CAAAGCAACCTCCCATGCCATCTCCCTTGCGTTTTTCCAAGTTCTTTCAG TCCAATATGAGAATTCTGGTTACTGGAGGAGCTGGATTTATTGGCTCTCAC
genomic: CAAAGCAACCTCCCATGCCATCTCCCTTGCGTTTTTCCAAGTTCTTTCAGgtgaactctc ... ctgacaaaagTCCAATATGAGAATTCTGGTTACTGGAGGAGCTGGATTTATTGGCTCTCAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctttccttacgtgaattcttggttttacaatgttcctttcatctctgacaaaagTCCAATATGAGAATTCTGGTTACTGGAGGAGCTGGATTTATTGGCTCTCACCTAGTTGACAAATTGATGGAAAATGAAAAAAATGAG
tgttcctttcatctct CT-rich tract
ttttacaat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caatgctcttgtcaggatgtcttactttacatgatcatttttttccctttccttacgtgaattcttggttttacaatgttcctttcatctctgacaaaagTCCAATATGAGAATTCTGGTTACTGGAGGAGCTGGATTTATTGGCTCTCACCTAGTTGACAAATTGATGGAAAATGAAAAAAATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
-aatgctc
- - - - - - - - - - - - - - -catgatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctttca