Sequence
atgc intronic sequence ATGC exonic sequence...ttgaagattgatactttctgatatttctatgtttgctgttttttctttcttacatatgtttatatcaaatctctgacaattcaatctttgttttctatagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT
Basic information
species | Glycine max |
transcript | GLYMA12G08490.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G08490.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G471805_T01 (Zea mays), 3'ss of exon 2
---------------------------------------------------------------------ttgaagattgatactttctgatatttc-tatgtttgctgttttttctttcttacatatgttt---atatcaaatctctgacaattcaatctttgttttct---------atagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT
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gtgaggagaagtggagaactggagtagcaccagatgaatctcgcttcttaaagagattttgcatttaagaaaaagaattagactttgcatcagaaggcggatcaacttcatcttcttttttagctgtagttgcgaaacttaatggtgggtgatctgaatttcttttgcctctggcctgacagGATCCAAACTCCAAGCACCTTGGGACCACGGTCTGGGATGCATCAATGGTGTTTGTCAAGTTCTTG
upper sequence: GLYMA12G08490.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G013981_T03 (Zea mays), 3'ss of exon 2
-----------------------------------------------------ttgaagattgatactt---tctgatatttctatgt----ttgctgttttttctttcttacatat---gtttatatcaaatctctgacaattcaatctttgtttt----------ctatagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT
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gtgacgagaactagagtagcaagatgaatcttgcctcttaaaaaaagtttcttttaagaaaaaataattgggctttggattaggaggtggatcaacttcatcttctattcaagctgtagcggccatacttaatggtgggtgatctgaattttcttttgtttctggaattacagGATCCAAACTCCAAGCACCATGGGACCACGGTCTGGGATGCATCAATGGTGTTTGTCAAGTTTTTG
upper sequence: GLYMA12G08490.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv03s0017g01120.t01 (Vitis vinifera), 3'ss of exon 4
ttgaagattgatactttctgatatttctatgtttgctgttttttctttcttacatatgtttatatcaaatctctgacaattcaatctttgttttct----atagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT
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-tcatagcagagaattttaagtatt---atgttggttatattaattctctagcacatctctttataacttccctgatgctgccaattttttcttcttgtggtagGATCCCAATTCGAAGCATTTAGGAACTACGGTTTGGGATGCATCAATGGTATTTGTGAAATTTCTG
upper sequence: GLYMA12G08490.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0061g00490.t01 (Vitis vinifera), 3'ss of exon 4
ttgaagattgatactttctgatatttctatgtttgctgttttttctttcttacatatgtttatatcaaatctctgacaattcaatctttgttttct----atagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT
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tcatagcagaatattttaagg----attatgttggttatattaattctctagcacatctctttataacttccctgatgctgccaattttttcttcttgtggtagGATCCCAATTCGAAGCATTTAGGAACTACGGTTTGGGATGCATCAATGGTATTTGTGAAATTTCTGMapped 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|213618377|gb|DB969375.1|DB969375EST: CATTTGAGATGCCATTGGAGGTTATGGGCCATGAGTTACAGTTTTCTCAG GATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTG
genomic: CATTTGAGATGCCATTGGAGGTTATGGGCCATGAGTTACAGTTTTCTCAGgtattatact ... ttttctatagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTG
EST:
gi|12773344|gb|BG238271.1|BG238271EST: CATTTGAGATGCCATTGGAGGTTATGGGCCATGAGTTACAGTTTTCTCAG GATCCCAATTCCAAGCACTTANGGACTACAGTATGGGATGCATCACTTGTG
genomic: CATTTGAGATGCCATTGGAGGTTATGGGCCATGAGTTACAGTTTTCTCAGgtattatact ... ttttctatagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcttacatatgtttatatcaaatctctgacaattcaatctttgttttctatagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT
tctttgttttctat CT-rich tract
atatgtttatatcaaa 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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgaagattgatactttctgatatttctatgtttgctgttttttctttcttacatatgtttatatcaaatctctgacaattcaatctttgttttctatagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT
- - - - - - -ctttctg
- - - - - - - - - - - - - - - - -tgctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctgaca