Sequence
atgc intronic sequence ATGC exonic sequenceTTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagtttagttgggtatgctaaacccaagtttgcaaggttttgctgctatttatcagtgaagtaatgcatgatcattctctggtatttccatctcccta...
Basic information
species | Glycine max |
transcript | GLYMA08G40770.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G40770.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g40590.1 (Oryza sativa), 5'ss of exon 5
TTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagtttagt-tgggtatgctaaacc-caagtttgcaaggttttg-----ctgctatttatcagtgaagtaatgcatgatcattctctggtatttccatctcccta
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TTTGGACTAGCTAAAGATGGCCCTGAGGGTGATAAAACACATGTATCTACTCGAGTCATGGGAACTTATGGATATGCAGCTCCGGAGTATGTCATGACAGgtgagttgatcattactttgttagttggcttgcttgagtaattttgaaatattgcatcatgctgctgaacctctatccaaacttgcacatgtagtaaaat-------
upper sequence: GLYMA08G40770.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os09g19700.1 (Oryza sativa), 5'ss of exon 5
TTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagtttagttgggtatgctaaacccaagtttgcaaggttttgctgctatttatcag--tgaagtaatgcatgatcattctctggtatttccatctcccta---
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TTTGGGCTTGCCAAAGATGGCCCTGTAGGTGACAAAACTCACGTGTCTACTCGAGTAATGGGAACATATGGTTATGCAGCTCCGGAGTATGTTATGACAGgtaagt---gcttcatcagtcatcaccagggttg-acgttaccgccggtaaccgcgggggtacggtaatata-aataccgcagtaacctccttaaattcaaataa
upper sequence: GLYMA08G40770.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G150806_T01 (Zea mays), 5'ss of exon 5
TTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagttta--gttgggtatgctaaacccaagtttgcaaggttttgctgctatttatcagtgaagtaatgcatgatcattctctggtatttccatctcccta--
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TTTGGGCTTGCAAAAGACGGACCTGTAGGTGATAAAACTCATGTCTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagcacattgtcagattttctctaccttc-tttcttaccctctctttcggagtacaactg---taacatctgatcatgtgcgtacatactccttccacaccc
upper sequence: GLYMA08G40770.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
TTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagt--ttagttgggtatgctaaacccaagtttgcaaggttttgctgctatttatcagtgaagtaatgcatgatcattctctggtatttccatctcccta
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TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatatttgccatgactgtgtccatcgaactctggtggtgagca--agtctggccactgccagtgctaccagtgagcaacgaaccattca
upper sequence: GLYMA08G40770.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G028037_T02 (Zea mays), 5'ss of exon 5
TTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagttta---gttg-ggtat-gctaaacccaagtttgcaaggttttgctgctatttatcagtgaagtaatgcatgat-cattctctggtatttccatctcccta
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TTTGGACTTGCTAAAGATGGCCCTGAGGGTGATAAAACACATGTGTCAACTAGGGTCATGGGAACATATGGATATGCTGCACCTGAATATGTAATGACAGgtgagttgataaattataatattgcttaatctatgttcata----ttcatagtggatatttcatgtggttgtttattaggtgttctgtaaacatgtcatctggc--
upper sequence: GLYMA08G40770.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv01s0026g01620.t01 (Vitis vinifera), 5'ss of exon 5
TTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagtttagttgggtatgctaaacccaagtttgcaaggttttgctgctatttatcagtgaagtaatgcatgatcattctctggtatttccatctc-ccta--
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TTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATGCTGCCCCTGAATATGTGATGACAGgtaagagca--tgcgtattcggctttcaatattgagccaaaaaaatgaactctctttttaaagaaat-catattccctgttgattttatccattaaatctggtMapped 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|17518732|gb|BM187774.1|BM187774EST: TCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGG GACATCTTACATCAAGAAGTGATGTGTACAGTTTCGGAGTGGTACTACTTG
genomic: TCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagtttag ... tttgtggcagGACATCTTACATCAAGAAGTGATGTGTACAGTTTCGGAGTGGTACTACTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagtttagttgggtatgctaaacccaagtttgcaaggttttgctgctatttatcagtgaagtaatgcatgatcattctctggtatttccatctcccta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatctcc