Sequence
atgc intronic sequence ATGC exonic sequenceTGCTCTTATTGCTCATTTTCAGAATTCAAGCCTAATGAATGAAGATAAACGTTGCCGCCCCATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcagcttgttctttagttgtaactattttgcttttgctaactacaatgtattatggaactactatatctgcttgttattttccttttgctaacta...
Basic information
species | Glycine max |
transcript | GLYMA06G17250.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G17250.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os05g01240.2 (Oryza sativa), 5'ss of exon 14
TGCTCTTATTGCTCATTTTCAGAATTCAAGCCTAATGAATGAAGATAAACGTTGCCGCCCCATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgta-aatcagcttgttctttagttgtaactattttgcttttgctaactacaatgtattatggaactactatatctgcttgttattttccttttgctaacta----------------------------------------------
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TGCTTTGATTGCTCATTTTCAGAATTCTAGCCTGATGAATGAAGACAAATGGTGTCGACCTATGCTTTTCCACAAAGATGGTCCAAATGCAGGAGATCAGgtgtgaatatctctagtgcttattgtatacactaaatataccatatgagtgac-cacttctgactgaccctattcgcacaaaatgattgacatggcggttttatacatattattattttctgataaagatacatattattattgcag
upper sequence: GLYMA06G17250.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G459746_T01 (Zea mays), 5'ss of exon 14
TGCTCTTATTGCTCATTTTCAGAATTCAAGCCTAATGAATGAAGATAAACGTTGCCGCCCCATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcagcttgttctttagttgtaactattttgcttttgctaactacaatgtattatggaactactatatctgcttgttattttccttttgctaacta---
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AGCTCTGATTGCTCATTTCCAGAACTCTAGTTTGATGAATGAGGACAAACGTTGCCGCCCCATACTCTTCCACTCAGATGGTCCTAATGCAGGAGATCAGgtatgcttatttcttttttattt-tgtcgttggtactttccctg-ctatcttgttctccagttacattatgtttcgctgc-agtgcactgtgacgagtcttct
upper sequence: GLYMA06G17250.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G156956_T01 (Zea mays), 5'ss of exon 13
TGCTCTTATTGCTCATTTTCAGAATTCAAGCCTAATGAATGAAGATAAACGTTGCCGCCCCATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcagcttgttctttagttgtaactattttgcttttgctaactacaatgtattatggaactactatatctgcttgttattttccttttgctaacta
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CGCTTTGATTGCTCATTTCCAGAATTCTAGCCTGATGAATGAAGAGAAATGGTGCCGCCCTATGCTTTTCCACAAAGATGGCCCGAACGCAGGAGACCAGgta---cgggtaattatcttgttgtcggcgctc-gctgt-----acctccatgt-ttgtgcaatgactgacgcaga--gttgcatccgttcttatcag--
upper sequence: GLYMA06G17250.1 (Glycine max), 5'ss of exon 12
lower sequence: AT5G07290.1 (Arabidopsis thaliana), 5'ss of exon 13
TGCTCTTATTGCTCATTTTCAGAATTCAAGCCTAATGAATGAAGATAAACGTTGCCGCCCCATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcagcttgttctttagttgtaactattttgcttttgctaactacaatgtattatggaactactatatctgcttgttattttccttttgcta-acta
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AGCTCTTATTGCCCATTTCCAGAACTCAAGTTTGATGAACGAAGACAAACGTTGCAGGCCTATTCTCTTCCACACTGCTGGTCCAAATGCTGGTGATCAGgtaaggaagacaagggctcaattgatatccttattcaaactataacctctttctgttgca-agtaatcatatcatctggtagttatgtattcactatagcg
upper sequence: GLYMA06G17250.1 (Glycine max), 5'ss of exon 12
lower sequence: AT5G61960.2 (Arabidopsis thaliana), 5'ss of exon 13
TGCTCTTATTGCTCATTTTCAGAATTCAAGCCTAATGAATGAAGATAAACGTTGCCGCCCCATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaa--tcagcttgttctttagttgtaact-attttgcttttgctaactaca---atgtattatggaactactatatctgcttgttattttccttttgctaacta-------------------------------------------
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AGCTCTTATTGCCCATTTCCAGAACTCAAGCTTAATGAACGAAGACAAACGTTGCCGACCTATTCTCTTCCACACTGATGGTCCAAATGCTGGTGATCAGgtaaagattaaagcttcatacaattccgtcttgtttggttcccattatccatatgcacttccttcacttcaagtgtgatttcattatatcataagattagtgagtaaaagaagattcatatgatttcctttgttgttatatcaccacag
upper sequence: GLYMA06G17250.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv17s0000g00240.t01 (Vitis vinifera), 5'ss of exon 14
TGCTCTTATTGCTCATTTTCAGAATTCAAGCCTAATGAATGAAGATAAACGTTGCCGCCCCATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcagcttgttctttagttgtaa-ctattttgcttttgctaactacaatgtattatggaactactatatctgcttgttattttccttttgctaacta
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TGCTCTTATTGCTCATTTCCAAAACTCGAGCTTGATGAATGAGGATAAACGTTGCCGCCCTATTCTATTTCATACTGATGGTCCAAATGCAGGTGATCAGgtaggacatctgacataaagtatgttctctattttgttgttgg-atctcggatgtaaacctgtttaagaatattctttattctaattggtaatgactattaMapped 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|9205510|gb|BE331734.1|BE331734EST: GTTGCCGCCCCATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCG GAGCCTTTCCCCTTGGGTAACAATATTAGAGTGAGGCCTGGAAAAATTCGC
genomic: GTTGCCGCCCCATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcagc ... gtttctgcagGAGCCTTTCCCCTTGGGTAACAATATTAGAGTGAGGCCTGGAAAAATTCGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCTCTTATTGCTCATTTTCAGAATTCAAGCCTAATGAATGAAGATAAACGTTGCCGCCCCATTCTCTTCCATACAGATGGCCCAAATGCTGGTGATCCGgtaaatcagcttgttctttagttgtaactattttgcttttgctaactacaatgtattatggaactactatatctgcttgttattttccttttgctaacta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG