Sequence
atgc intronic sequence ATGC exonic sequence...aattctttcttttattaaaaaaatgtgtcttattgaatcacttatattatctctctgtctctatcaatatcatcaatttcttgctgcgccatgtatgcagGGATGAAAATCTTCCTCTTATTGTAGCTATTGATTTGCAACCAATGGCTCCAATTGAAGGTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACA
Basic information
species | Glycine max |
transcript | GLYMA15G07970.3 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G07970.3 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os06g49140.1 (Oryza sativa), 3'ss of exon 4
--aattctttcttttattaaaaaaatgtgtcttattgaatcacttatattatctctctgtctctatcaatatcatcaatttcttgctgcgccatgtatgc-agGGATGAAAATCTTCCTCTTATTGTAGCTATTGATTTGCAACCAATGGCTCCAATTGAAGGTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACA
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gtaagtactagtttcagcgcggcactgtctgttccagcaggg-ttatgtt----cttagcatctgattattttgcctcgttgtttatgggggat-tatactagAGAAGGTGACCTTCCTCTTATTGTTGCCATTGATTTGCAACCAATGGCTCCGATAGAAGGCGTTATACAAGTTCAAGGGGACATCACTAATGCTCGAACA
upper sequence: GLYMA15G07970.3 (Glycine max), 3'ss of exon 4
lower sequence: AT5G01230.1 (Arabidopsis thaliana), 3'ss of exon 5
--aattctttcttttattaaaaaaatgtgtc---ttattgaatcacttatattatctctctgtctctatcaatatc--atcaatttcttgctgc-gccatg-tatgcagGGATGAAAATCTTCCTCTTATTGTAGCTATTGATTTGCAACCAATGGCTCCAATTGAAGGTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACA
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gtaagtttctcttccaccatcgtttttctttagttgttttaatctgctagttagtaatccactatttgacaaggttgaactgatttgttactgttgaaacactatgcagAGATGGGGATCTTCCTCTTATAGTAGCCATCGATTTGCAGCCTATGGCTCCAATTGAAGGTGTCATCCAGGTTCAAGGGGACATAACTAATGCTCGGACT
upper sequence: GLYMA15G07970.3 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0007g01960.t01 (Vitis vinifera), 3'ss of exon 4
aattctttcttttattaaaaaaatgtgtc-ttattgaatcacttatattatctctctgtctctatcaata--tcatcaatttcttgctgcgccatg-tatgcagGGATGAAAATCTTCCTCTTATTGTAGCTATTGATTTGCAACCAATGGCTCCAATTGAAGGTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACA
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----cgggcctcaagggcttctaattgttactattatgtcaccctctttttgtgtaggaccttattgtcaagctaataactttttacttaatcaaaattttcagGGATGGTGATCTTCCTCTTATTGTGGCGATTGATTTGCAGCCCATGGCTCCAATTGAAGGGGTGATTCAAGTCCAGGGTGATATAACAAATGCTCGTACA
upper sequence: GLYMA15G07970.3 (Glycine max), 3'ss of exon 4
lower sequence: EFJ27494 (Selaginella moellendorffii), 3'ss of exon 4
aattctttcttttattaaaaaaatgtgtcttattgaatcacttatattatctctctgtctctatcaatatcatcaatttcttgctgcgccatgtatgcagGGATGAAAATCTTCCTCTTATTGTAGCTATTGATTTGCAACCAATGGCTCCAATTGAAGGTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACA
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--------------------gtaagagctttgc-------cttcctttttctctcctttctttgtgaggaaaaagatttatcactgtgttct---tctagGCAGGATGACCGACCTCTTATTGTGGCTATTGATCTGCAGCCAATGGCCCCTATTGATGGTGTCGTTCAAATTCAAGGAGACATCACTAGTGCACGAACT
upper sequence: GLYMA15G07970.3 (Glycine max), 3'ss of exon 4
lower sequence: EFJ07303 (Selaginella moellendorffii), 3'ss of exon 4
aattctttcttttattaaaaaaatgtgtcttattgaatcacttatattatctctc-tgtctctatcaatatcatcaatttcttgctgcgccatgtatgcagGGATGAAAATCTTCCTCTTATTGTAGCTATTGATTTGCAACCAATGGCTCCAATTGAAGGTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACA
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-------------gtgataagtaagagctttgc-------cttcctttttctctcctttctttgtgagga--aaagATTTATCACTGTGTTCT---TCTAGGCAGGATGATCGACCTCTTATTGTGGCTATTGATTTGCAGCCAATGGCCCCTATTGATGGTGTCGTTCAAATTCAAGG----------------------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|7926380|gb|AW832406.1|AW832406EST: GTTTTGAGTCGTAAATTGTATCTCCCAGCCAAGCTTGCACCTGATGCAAA GGATGAAAATCTTCCTCTTATTGTAGCTATTGATTTGCAACCAATGGCTCC
genomic: GTTTTGAGTCGTAAATTGTATCTCCCAGCCAAGCTTGCACCTGATGCAAAgtaagtttga ... atgtatgcagGGATGAAAATCTTCCTCTTATTGTAGCTATTGATTTGCAACCAATGGCTCC
EST:
gi|151411265|gb|EV281076.1|EV281076EST: GTTTTGAGTCGTAAATTGTATCTCCCAGCCAAGCTTGCACCTGATGCAAA GGATGAAAATCTTCCTCTTATTGTAGCTATTGATTTGCAACCAATGGCTCC
genomic: GTTTTGAGTCGTAAATTGTATCTCCCAGCCAAGCTTGCACCTGATGCAAAgtaagtttga ... atgtatgcagGGATGAAAATCTTCCTCTTATTGTAGCTATTGATTTGCAACCAATGGCTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attatctctctgtctctatcaatatcatcaatttcttgctgcgccatgtatgcagGGATGAAAATCTTCCTCTTATTGTAGCTATTGATTTGCAACCAATGGCTCCAATTGAAGGTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACA
aatatcatcaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattctttcttttattaaaaaaatgtgtcttattgaatcacttatattatctctctgtctctatcaatatcatcaatttcttgctgcgccatgtatgcagGGATGAAAATCTTCCTCTTATTGTAGCTATTGATTTGCAACCAATGGCTCCAATTGAAGGTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG