Sequence
atgc intronic sequence ATGC exonic sequenceTATCTCAGCACAGCGGAGTTTGCAATGCGTGAGGAATTGTCACTTAAAGCAGCTATTCTTGCTGAGAAGTTTGCACCAGACCTTTCATGgtaatgcaatagaccctactagaaaaataatagaataatattgtttcttatttagtgttttgaacttttgatgtgttctttcatctttttctgtagcttg...
Basic information
species | Glycine max |
transcript | GLYMA17G05410.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os03g02150.1 (Oryza sativa), 5'ss of exon 12
TATCTCAGCACAGCGGAGTTTGCAATGCGTGAGGAATTGTCACTTAAAGCAGCTATTCTTGCTGAGAAGTTTGCACCAGACCTTTCATGgtaatgcaatagaccctac-tagaaaaataatagaataatattgtttcttatttagtgttttgaacttttgatgtgttctttcatctttttctgtagcttg-
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TATCTTAACACAGCTGAATTTGCAATGCGCGAAGAGCTGTCCCTGAAGGCAGCTATCCTTGCTGAGAAATTCGCTCCAGATCTTTCATGgtaaagtattttttgcgatacagccaatttttccagttactttgttgtgaaat--gtgagctattttttagatgattagtgtgtgatgtatttataaatgaa
upper sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G137236_T01 (Zea mays), 5'ss of exon 13
-----------TATCTCAGCACAGCGGAGTTTGCAATGCGTGAGGAATTGTCACTTAAAGCAGCTATTCTTGCTGAGAAGTTTGCACCAGACCTTTCATGgtaatgcaatagaccctac-tagaaaaataatagaataatattgtttcttatttagtgtttt-gaacttttgatgtgttctttcatctttttctgtagcttg
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TTACCTCACAGTACCTTGATACAGCAGAATTTGCAATGCGTGAAGAGTTGTCTCTGAAGGCAGCTATTCTTGCAGAAAAATTTGCTCCGCAACTATTGTGgtaagattttgatcacaacgtctgccagttttccagttactgtgttgcaaatttggcatttttgtaggacatatgtgaccattgcaaccatgcagttaca--
upper sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 12
lower sequence: AT5G22780.1 (Arabidopsis thaliana), 5'ss of exon 12
TATCTCAGCACAGCGGAGTTTGCAATGCGTGAGGAATTGTCACTTAAAGCAGCTATTCTTGCTGAGAAGTTTGCACCAGACCTTTCATGgtaatgcaatagaccctactagaaaaataatagaataatattgtttcttatttagtgttttgaacttttgatgtgttctttcatctttttctgtagc--ttg-----------------------------
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TATCTTAGCACAGCAGAATTTTCTATGCGGGAGGAATTATCACTTAAAGCTGCTATTCTTGCTGAGAAGTTTGCTCCTGATCTTTCATGgtaaagaga--------actcgacaagaagtatatgtacattttttcatgcacactatag-agacatgtgctgtgccctttagatccttacacaagcaattggtcaaagatgttaattttgatgttctcag
upper sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 12
lower sequence: AT5G22770.2 (Arabidopsis thaliana), 5'ss of exon 13
TATCTCAGCACAGCGGAGTTTGCAATGCGTGAGGAATTGTCACTTAAAGCAGCTATTCTTGCTGAGAAGTTTGCACCAGACCTTTCATGgtaatg------caatagaccctactagaaaaata-----ataga-ataatattgtttcttatttagtgttttgaacttttgatgtgttctttc-atctttttctgtagcttg-----------------------------
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TATCTTAGCACAGCAGAGTTTTCCATGCGGGAAGAATTATCACTTAAAGCTGCTATCCTTGCTGAGAAGTTTGCTCCTGATCTATCATGgtgaggataactcgatacgaagtatatgtacacttcattcatgcacacaaatttggttacagtaacatgcattatccatttggtgtgacctttagatccttgcaaatcaactggttaaagatgttaattttgatgttttcag
upper sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 12
TATCTCAGCACAGCGGAGTTTGCAATGCGTGAGGAATTGTCACTTAAAGCAGCTATTCTTGCTGAGAAGTTTGCACCAGACCTTTCATGgtaatgcaatagaccctactagaaaaataatagaata-atattgtttcttatttagtgttttgaacttttgatgtgttctttcatctttttctgtagcttg---
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TATCTCAGCAGTGCTGACTTTGCTATGCGCGAGGAATTGTCACTAAAAGCAGCAATCCTAGCTGAGAAATTTGCCCCTGACCTATCATGgtaagg--atggtccgt-ctgtgcaagaaatggtatatgttctgttatacagttgagttgtaggacatgatattatcaatttcgtcacatccag-atcatatacMapped 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|193557084|gb|FK512727.1|FK512727EST: TCACTTAAAGCAGCTATTCTTGCTGAGAAGTTTGCACCAGACCTTTCATG GTATGTTGACGTGATTCTTCAATTAATTGACAAGGCCGGAGATTTTGTTAG
genomic: TCACTTAAAGCAGCTATTCTTGCTGAGAAGTTTGCACCAGACCTTTCATGgtaatgcaat ... ttttatacagGTATGTTGACGTGATTCTTCAATTAATTGACAAGGCCGGAGATTTTGTTAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATCTCAGCACAGCGGAGTTTGCAATGCGTGAGGAATTGTCACTTAAAGCAGCTATTCTTGCTGAGAAGTTTGCACCAGACCTTTCATGgtaatgcaatagaccctactagaaaaataatagaataatattgtttcttatttagtgttttgaacttttgatgtgttctttcatctttttctgtagcttg
- - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaataa