Sequence
atgc intronic sequence ATGC exonic sequencegtcagagcgcatccatggctcaagggttgcaattttttttctctcttctgccacttctgtttttcagattatcaaagttgagtgtacaaaagaatcccagacattctaaaccttaaaaattttgtgtgtagATATTCCATGAAAAAATGCCTCCAGAAGCAATAGATCTTGCTTCCCGGCTTCTGCAGTATTCCCCAAGTCTTCGATGTACTGCG
Basic information
species | Glycine max |
transcript | GLYMA08G12370.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G12370.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os01g10840.1 (Oryza sativa), 3'ss of exon 9
-----------------------------------gtcagagcgcatccatggctcaagggttgcaattttttttctctcttctgccacttctgtttttcagattatcaaagttgagtgtacaaaagaatcccagacattctaaaccttaaaaattttgtgtgtagATATTCCATGAAAAAATGCCTCCAGAAGCAATAGATCTTGCTTCCCGGCTTCTGCAGTATTCCCCAAGTCTTCGATGTACTGCG
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gtagccatgttttcttatattggatcaccttcctcataccattttacttgcagggcattgtaggccacttcaaaaccagtttctgcatcatgtttaatttgaaataaaaaaaatgtatctgcagctgcttaactgatccatctgttgttctttcgcttaccaccagATTTTCCACAAGAGAATGCCTCCAGAAGCCATAGACCTTGCTTCCCGTCTTCTCCAATATTCACCAAGTCTACGCTGCACTGCT
upper sequence: GLYMA08G12370.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G472625_T01 (Zea mays), 3'ss of exon 9
gtcagagcgcatccatggctcaagggttgcaattttttttctctcttctgccacttctgtttttcagattatcaaagttgagtgtacaaaagaatcccagacattctaaaccttaaaaattttgtgtgtagATATTCCATGAAAAAATGCCTCCAGAAGCAATAGATCTTGCTTCCCGGCTTCTGCAGTATTCCCCAAGTCTTCGATGTACTGCG
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----------------------aagggcgc----ttaaagaaattgtttgcagatcttagc-----gaaaatttgagctcagaatgcatcagttactgactgattgttccactttccgttttatcctccagATTTTCCACAAGAGAATGCCTCCGGAAGCCATTGACCTTGCTTCCCGTCTCCTTCAGTATTCGCCAAGTCTTCGCTGCTCTGCT
upper sequence: GLYMA08G12370.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G045330_T02 (Zea mays), 3'ss of exon 9
-------------------------------------------------------------gtcagagcgcatccatggctcaagggttgcaattttttttctctcttctgccacttctgtttttcagat--tatcaaagttgagtgtacaaaa-gaatcccagacattctaaaccttaaaaattttgtg------tgtagATATTCCATGAAAAAATGCCTCCAGAAGCAATAGATCTTGCTTCCCGGCTTCTGCAGTATTCCCCAAGTCTTCGATGTACTGCG
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gtattcatatgttaaatcatgtttctgttcacatctattatccattttacctgcaggtactgtagttgtatacttgtagtccacagtccaaaatgttttcaaagggcgctgaagaacttgtttg-cagatcatatcgaaactttgagctcagaatgcatcaattactaactgatgcctctactttccgttttatcctccagATTTTCCACAAGAGAATGCCTCCTGAAGCCATAGACCTTGCTTCTCGTCTCCTTCAGTATTCACCAAGTCTTCGCTGCTCTGCT
upper sequence: GLYMA08G12370.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv10s0003g01480.t01 (Vitis vinifera), 3'ss of exon 9
gtcagagcgcatccatggctcaagggttgcaattttttttctctcttctgccacttctgtttttcagattat-caaagttgagtgtacaaaagaatcccagacattctaaaccttaaaaattttgtgtgtagATATTCCATGAAAAAATGCCTCCAGAAGCAATAGATCTTGCTTCCCGGCTTCTGCAGTATTCCCCAAGTCTTCGATGTACTGCG
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-----------------------gaatgtgggctccatttctaactggtgcacgtatttttgtaaatgctatgtcaaattg---gtgaaagaggattc---acatt---gatgtttaaattcttgggtttagGTCTTTCACAAACGAATGCCTCCTGAAGCAATCGATCTTGCTTCTCGACTTCTGCAATACTCACCAAGTCTTCGCTGCACAGCTMapped 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|208071419|gb|GD872222.1|GD872222EST: AGGAAGTTTCCTGTACGAATCCAAACTACAATGATTTCAAGTTTCCACAG ATATTCCATGAAAAAATGCCTCCAGAAGCAATAGATCTTGCTTCCCGGCTT
genomic: AGGAAGTTTCCTGTACGAATCCAAACTACAATGATTTCAAGTTTCCACAGgtcagagcgc ... ttgtgtgtagATATTCCATGAAAAAATGCCTCCAGAAGCAATAGATCTTGCTTCCCGGCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgagtgtacaaaagaatcccagacattctaaaccttaaaaattttgtgtgtagATATTCCATGAAAAAATGCCTCCAGAAGCAATAGATCTTGCTTCCCGGCTTCTGCAGTATTCCCCAAGTCTTCGATGTACTGCG
ttctaaa putative branch site (score: 2)
attctaaaccttaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagagcgcatccatggctcaagggttgcaattttttttctctcttctgccacttctgtttttcagattatcaaagttgagtgtacaaaagaatcccagacattctaaaccttaaaaattttgtgtgtagATATTCCATGAAAAAATGCCTCCAGAAGCAATAGATCTTGCTTCCCGGCTTCTGCAGTATTCCCCAAGTCTTCGATGTACTGCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG