Sequence
atgc intronic sequence ATGC exonic sequencegtatgatacaacatttatttcttttcttcccttaacttctagaattagtatgttctatctcatatactaatgtgtatgaaaaatctattacagGATACCCCTATAATTTGAATTTTGACTATGATGCACTCTCTCAGCTTCAGCATTTTTCCATCAACAACCTGGGGGATCCCTTCATTGAAAGCAATTATGG
Basic information
species | Glycine max |
transcript | GLYMA08G08130.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G08130.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S47_119V6.1 (Physcomitrella patens), 3'ss of exon 1
-----------gtatgatacaacatttatttcttttcttcccttaacttctagaattagta-tgttctatctcatat-actaatgtgtatgaaaaatctattacagGATACCCCTATAATTTGAATTTTGACTATGATGCACTCTCTCAGCTTCAGCATTTTTCCATCAACAACCTGGGGGATCCCTTCATTGAAAGCAATTATGG
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tcatggaagttggagcaagaagcttggactagcgaccccaacctgattacca-agttaatactggtcttcaccacctgaccgaaatttccga-----ttgctgcagGTTACCCCTACAATCTGGACTTCGATTATGGTGCTTTGTCACAGCTGCAGCATTTCTCCATCAACAATTTGGGTGATCCTTTCATCGAAAGCAATTACGG
upper sequence: GLYMA08G08130.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ11717 (Selaginella moellendorffii), 3'ss of exon 1
gtatgatacaacatttatttcttttcttcccttaacttctagaattagtatgttctatctcatatactaatgtgtatgaaaaatctattacagGATACCCCTATAATTTGAATTTTGACTATGATGCACTCTCTCAGCTTCAGCATTTTTCCATCAACAACCTGGGGGATCCCTTCATTGAAAGCAATTATGG
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-------gtaagagattctcttcttcttccttgctgctttggagt--gtttgtttgagctctt--------gcgattggaa-------tgcagGGTATCCATACAACCTGGATTTCGACTACGGTGCTCTCTCGCAGCTACAGCATTTTTCCATCAACAATCTGGGAGATCCTTTCATCGAGAGCAACTATGG
upper sequence: GLYMA08G08130.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ22493 (Selaginella moellendorffii), 3'ss of exon 1
gtatgatacaacatttatttcttttcttcccttaacttctagaattagtatgttctatctcatatactaatgtgtatgaaaaatctattacagGATACCCCTATAATTTGAATTTTGACTATGATGCACTCTCTCAGCTTCAGCATTTTTCCATCAACAACCTGGGGGATCCCTTCATTGAAAGCAATTATGG
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-------gtaagaaattttcttcttcctccttgctgctttggagt--gtttgtttgagctctt--------gcgattggaa-------tgcagGGTATCCATACAACCTGGATTTCGACTACGGTGCTCTCTCGCAGCTACAGCATTTTTCCATCAACAATCTGGGAGATCCTTTCATCGAGAGCAACTATGGMapped 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|209716599|gb|BW658982.1|BW658982EST: GTTGGCTAAATACAAAAAATCTCTGACTGAAAGGACCAACTATCATTTAG GATACCCCTATAATTTGAATTTTGACTATGATGCACTCTCTCAGCTTCAGC
genomic: GTTGGCTAAATACAAAAAATCTCTGACTGAAAGGACCAACTATCATTTAGgtatgataca ... tctattacagGATACCCCTATAATTTGAATTTTGACTATGATGCACTCTCTCAGCTTCAGC
EST:
gi|192294896|gb|FG987585.1|FG987585EST: GTTGGCTAAATACAAAAAATCTCTGACTGAAAGGACCAACTATCATTTAG GATACCCCTATAATTTGAATTTTGACTATGATGCACTCTCTCAGCTTCAGC
genomic: GTTGGCTAAATACAAAAAATCTCTGACTGAAAGGACCAACTATCATTTAGgtatgataca ... tctattacagGATACCCCTATAATTTGAATTTTGACTATGATGCACTCTCTCAGCTTCAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctagaattagtatgttctatctcatatactaatgtgtatgaaaaatctattacagGATACCCCTATAATTTGAATTTTGACTATGATGCACTCTCTCAGCTTCAGCATTTTTCCATCAACAACCTGGGGGATCCCTTCATTGAAAGCAATTATGG
tactaat putative branch site (score: 1)
tatgaaaaatctatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgatacaacatttatttcttttcttcccttaacttctagaattagtatgttctatctcatatactaatgtgtatgaaaaatctattacagGATACCCCTATAATTTGAATTTTGACTATGATGCACTCTCTCAGCTTCAGCATTTTTCCATCAACAACCTGGGGGATCCCTTCATTGAAAGCAATTATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA