Sequence
atgc intronic sequence ATGC exonic sequencegtgagtggtggttatttcatgaaatccggtacttaaatttctttttatttatatatatgattttgttctccataaaagaaaagaaattgtacatgttcagaattcagacagatatgtacgagccttatttttttgctgatgtttttttaacaattactatgcaagtaactctaaagtttcttccagGCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAA
Basic information
species | Glycine max |
transcript | GLYMA09G39750.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G166018_T01 (Zea mays), 3'ss of exon 2
gtgagtggtggttatttcatgaaatccggtacttaaatttctttttatttatatatatgattttgttctccataaaagaaaagaaattgtacatgttcagaattcagacagatatgtacgagccttatttttttgctgatgtttttttaacaattactatgcaagtaactctaaagtttcttccagGCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAA-------
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------------------------------------------------------------------ttgtcttaaaaataggtgagttg--ccttaccgaaatcta-----------atgaaggttatttcaattgaaccattttctgaacactga--atgttttttgtttgaatatg-----cagGCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGTGTCTTTAATAACATAAATGGCTGCATTTCTACAGGGAAAGAGGTAGCTT
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G035098_T01 (Zea mays), 3'ss of exon 4
gtgagtggtggttatttcatgaaatccggtacttaaatttctttttatttatatatatgattttgttctccataaaagaaaagaaattgtacatgttcagaattcagacagatatgtacgagccttatttttttgctgatgtttttttaacaattactatgcaagtaactctaaagtttcttccagGCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAA
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---------------------------------------------------------------------------------------------------------------------------gttatttcaattgaaccattttctgaacactgaatgttt---tttgtttgaa----tatgcagGCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGTGTCTTTAATAACATAAATGGCTGCATTTCTACAGGGAAAGAG
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G120329_T01 (Zea mays), 3'ss of exon 2
gtgagtggtggttatttcatgaaatccggtacttaaatttctttttatttatatatatgattttgttctccataaaagaaaagaaattgtacatgttcagaattcagacagatatgta-cgagccttatttttttgctgatgtttttttaacaattactatgcaagtaactctaaagtttcttccagGCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAA
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-----------------------------------------------------------------------------gtcttaaaaataggtgtgagttggctt---accgaaatctaatgaaggttatttcaattgaaccattttctgaacactga--atgttttttgtttgaatatg-----cagGCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGTGTCTTTAATAACATAAATGGCTGCATTTCTACAGGGAAAGAG
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 2
gtgagtggtggtt---atttcatgaaatccggtactta-----aatttctttttatttatatatatgattttgttctccataaaagaaaagaaattgtacatgttcagaattcagacagatatgtacgagccttattt--ttttgctgatgtttttttaacaattactatgcaagtaactctaaagtttcttccagGCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAA
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gtgactagcaatttaaattgtttaaacttttgttctaatgaaaaattttctgttatttttat-cgttataataagttcctgtgcatttcatattttaaagaagaa-agagtttacaatagggtgtttatatttggttgggcatgtacaaggaattattcagatcaaacatgtaaataattgtgtaatt--tttcagGCTATTGATCCTAGAACTCGCATGGTTTTATTCAAAATGCTGAATCGAGGTGTGTTCCATGATATTAACGGCTGCATTTCAACTGGAAAAGAA
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ12123 (Selaginella moellendorffii), 3'ss of exon 3
gtgagtggtggttatttcatgaaatccggtacttaaatttctttttatttatatatatgattttgttctccataaaagaaaagaaattgtacatgttcagaattcagacagatatgtacgagccttatttttttgctgatgtttttttaacaattactatgcaagtaactctaaagtttcttccagGCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAA-------
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--------------------------------------------------------------------------------------------------------------------------------------------gtaaaaaaaaatcatgttttcttcttgcttatgacaaagattgcagGTTTTGGACCCTCGAACTCGAATGGTGCTTTTCAAAATGTTAAATCGGGGAGTCTTTCATGATATCAATGGCTGCATTTCCACCGGAAAAGAGGCAAGCTMapped 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|208165133|gb|GD965809.1|GD965809EST: CTACTGTTGAGCAG GCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGT
genomic: CTACTGTTGAGCAGgtgagtggtg ... tttcttccagGCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgctgatgtttttttaacaattactatgcaagtaactctaaagtttcttccagGCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAA
tttcttcc CT-rich tract
atgtttttttaacaat 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtggtggttatttcatgaaatccggtacttaaatttctttttatttatatatatgattttgttctccataaaagaaaagaaattgtacatgttcagaattcagacagatatgtacgagccttatttttttgctgatgtttttttaacaattactatgcaagtaactctaaagtttcttccagGCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA