Sequence
atgc intronic sequence ATGC exonic sequence...tttgcaacatcatgatccagttatgggttggaagaatccctaaaaataataaaatgtcttgattccattgattggcattcatgtctatttgtttacaaagGTTGCATGTGATGTTCCTCTTTGGGCAACAATTGGAGGACAAGATGTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAG
Basic information
species | Glycine max |
transcript | GLYMA19G37310.2 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G37310.2 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os03g47949.1 (Oryza sativa), 3'ss of exon 8
tttgcaacatcatgatccagttatgggttggaagaatccctaaaaataataaaatgtcttg-att--ccattgattggcattc-atgt-ctatt-tgtttacaaagGTTGCATGTGATGTTCCTCTTTGGGCAACAATTGGAGGACAAGATGTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAG
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---------------------gtttggtttttatagtcctgtgtgtacattgattgttttgtactgctcattgttcaattttttatgttctatcgtttttgtctagGTTCCATGTGATGTTACACTTTGGGCTACAATTGGAGGCCAGGACGTGGATCGTCTTCCATCTGCTTCCACGTGCTATAACACACTCAAG
upper sequence: GLYMA19G37310.2 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G461948_T01 (Zea mays), 3'ss of exon 12
----tttgcaacatcatgatccagttatgggttggaagaatccctaaaaataataaaatgtcttgattccattgattggcattcatgtctatttgtttacaaagGTTGCATGTGATGTTCCTCTTTGGGCAACAATTGGAGGACAAGATGTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAG
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tccgttcttggtttttctacagtgatatcaacttgag--actcataatgtgctctaaatttgtttatgcaa--gaacgataattaacgttgttacttgatgtagGTTCCATGTGATGTAACACTTTGGGCATCAATTGGAGGCCAAGATGTAGATCGTCTTCCATCTGCTTCCACATGCTACAATACGCTCAAG
upper sequence: GLYMA19G37310.2 (Glycine max), 3'ss of exon 14
lower sequence: AT3G53090.1 (Arabidopsis thaliana), 3'ss of exon 12
tttgcaacatcatgatccagttatgggttggaagaatccctaaaaataataaaatgtct--tgattccattgattggcattcatgtctatttgtttacaa-agGTTGCATGTGATGTTCCTCTTTGGGCAACAATTGGAGGACAAGATGTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAG
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-------gtttgtttttgaacttaagcttagaaatgtatgtt----tgatattctgtttggtaattttgttttcttacttttgtgctttttcatcttctgcagGTCTCTTGTGATACCTCTCTTTGGGCTGCTATTGGAGGACAAGATGTAGAAAGACTTCCATCTGCTTCTACGTGCTACAATACTCTTAAG
upper sequence: GLYMA19G37310.2 (Glycine max), 3'ss of exon 14
lower sequence: Vv08s0007g04290.t01 (Vitis vinifera), 3'ss of exon 12
tttgcaacatcatgatccagttatgggttggaagaatccctaaaaataataaaatgtcttgattccattgattg--gcattcatgtctatttgtttacaaagGTTGCATGTGATGTTCCTCTTTGGGCAACAATTGGAGGACAAGATGTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAG
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tttttcatcccgc-attgcctttttgccccaaaaaatggggaaaagaaatattgatcctagcaggaaatgagaactgagttcagattt-tcactttctatagGTTGCATGCGATGTGCCTCTTTGGGCAACAATTGGGGGACAGGATGTAGAGCGACTTCCCTCAGCTTCCACATGCTACAACACGCTCAAGMapped 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|193376620|gb|FK343181.1|FK343181EST: GGGTTCAAATACTTGCAGCCACCTTTTACCATCCACAAG GTTGCATGTGATGTTCCTCTTTGGGCAACAATTGG
genomic: GGGTTCAAATACTTGCAGCCACCTTTTACCATCCACAAGgtatgttctt ... gtttacaaagGTTGCATGTGATGTTCCTCTTTGGGCAACAATTGG
EST:
gi|207688927|gb|GD672272.1|GD672272EST: ACCTTTTACCATCCACAAG GTTGCATGTGATGTTCCTCTTTGGGCAACAATTGGAGGACAAGATGTAGAT
genomic: ACCTTTTACCATCCACAAGgtatgttctt ... gtttacaaagGTTGCATGTGATGTTCCTCTTTGGGCAACAATTGGAGGACAAGATGTAGAT
EST:
gi|151407290|gb|EV277105.1|EV277105EST: CCCCATTACTTGGGTTCAAATACTTGCAGCCACCTTTTACCATCCACAAG GTTGCATGTGATGTTCCTCTTTGGGCAACAATTGGAGGACAAGATGTAGAT
genomic: CCCCATTACTTGGGTTCAAATACTTGCAGCCACCTTTTACCATCCACAAGgtatgttctt ... gtttacaaagGTTGCATGTGATGTTCCTCTTTGGGCAACAATTGGAGGACAAGATGTAGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataataaaatgtcttgattccattgattggcattcatgtctatttgtttacaaagGTTGCATGTGATGTTCCTCTTTGGGCAACAATTGGAGGACAAGATGTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAG
cattgat putative branch site (score: 4)
tttgttt putative PPT
tatttgtttacaaa 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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tttgcaacatcatgatccagttatgggttggaagaatccctaaaaataataaaatgtcttgattccattgattggcattcatgtctatttgtttacaaagGTTGCATGTGATGTTCCTCTTTGGGCAACAATTGGAGGACAAGATGTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT