Sequence
atgc intronic sequence ATGC exonic sequencegtaaattcacaataacatttttatgttataaatctgatttaggttgttctatgaaatcttatctaatgatgatgttcatttgcagGTGGATCCAGGATTTTTAATTCCATGTTTGGAGGAGGTTGTGATCACAGTGAGATCACCACTAAATGCCGAACAAAAAATGAGTACTCTTGAATCCTTGT
Basic information
species | Glycine max |
transcript | GLYMA15G05200.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G05200.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os09g28120.1 (Oryza sativa), 3'ss of exon 3
gtaaattcacaataacatttttatgttataaatctga--tttaggttgttctatgaaatcttatctaatga-tgatgttcatt---------tgcagGTGGATCCAGGATTTTTAATTCCATGTTTGGAGGAGGTTGTGATCACAGTGAGATCACCACTAAATGCCGAACAAAAAATGAGTACTCTTGAATC-CTTGT
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gtgagtgtttggtttggctttcgcggcatagcattgaactttaggttgttatgtaaggtattgatagatggctaatatttgtgaattgtgaatgcagTTAGATGCAAGGTTCTGCATCCCTTGCTTGGAAGAGGTTTTGATCACAGTGCGCTCACCACTAAATGCTGAGCAGAAGCTGAACACCCTCGAGTCGCTTG-
upper sequence: GLYMA15G05200.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G10780.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaaattcacaataacatttttat-gttataaatctgatttaggttgttctatgaaatcttatctaatgatgatgt----------tcatttgcagGTGGATCCAGGATTTTTAATTCCATGTTTGGAGGAGGTTGTGATCACAGTGAGATCACCACTAAATGCCGAACAAAAAATGAGTACTCTTGAATCCTTGT
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-----gtaaaaataatctcttcttcatcagaaaccttccttac-cgatgaagtcaaagcctacttatcaataatgtaacctccattctctttgcagCTTGAGACCGGATTTACAATACCGTGTTTGGAGGAGGTTGTTATCACAGTGAGATCTCCACTGAACGCAGAACAGAAGATGAACACGCTTGAATCACTAG
upper sequence: GLYMA15G05200.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0034g01430.t01 (Vitis vinifera), 3'ss of exon 2
gtaaattcacaataacatttttatgttataaatc-tgattta---ggttgttcta----tgaaatcttatctaa---tgatgatgttcatt--tgcagGTGGATCCAGGATTTTTAATTCCATGTTTGGAGGAGGTTGTGATCACAGTGAGATCACCACTAAATGCCGAACAAAAAATGAGTACTCTTGAATCCTTGT
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gtaaattgatgagatcataacaatgctattccccctgattcaaaaggatgctcaaaatttagcattttaacaaagattggtctttttcattcttgcagGTGGATTCAAGTTTTGTGATTCCATGTCTAGAGGAGGTGCTGGTCACAGTGAGATCACCATTAAATGCTGAACAGAAAATGAGCACTCTAGAATCACTACMapped 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|192306315|gb|FG996887.1|FG996887EST: TTCATGGAGCCATGTTTGCAGCACTTTGCCAGAGGAACAGCCTGAAACAT GTGGATCCAGGATTTTTAATTCCATGTTTGGAGGAGGTTGTGATCACAGTG
genomic: TTCATGGAGCCATGTTTGCAGCACTTTGCCAGAGGAACAGCCTGAAACATgtaaattcac ... tcatttgcagGTGGATCCAGGATTTTTAATTCCATGTTTGGAGGAGGTTGTGATCACAGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatctgatttaggttgttctatgaaatcttatctaatgatgatgttcatttgcagGTGGATCCAGGATTTTTAATTCCATGTTTGGAGGAGGTTGTGATCACAGTGAGATCACCACTAAATGCCGAACAAAAAATGAGTACTCTTGAATCCTTGT
atctaat putative branch site (score: 3)
ttcattt putative PPT
aaatcttatctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaattcacaataacatttttatgttataaatctgatttaggttgttctatgaaatcttatctaatgatgatgttcatttgcagGTGGATCCAGGATTTTTAATTCCATGTTTGGAGGAGGTTGTGATCACAGTGAGATCACCACTAAATGCCGAACAAAAAATGAGTACTCTTGAATCCTTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA