Sequence
atgc intronic sequence ATGC exonic sequenceTAAAGATCGTCCATCTTGGTTCCGTGACTGTCGGAGCCTAGAAGTTTTTACTATGTTTCCTGCTGGAAATGGAGGAACCATTGAACTTGTTTACACGCAGgtgagcctcaaatttaagacttatttgttggttctgttttttttttttgttcctatgattatacttaatttgctacag
Basic information
species | Glycine max |
transcript | GLYMA12G08080.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os03g01890.1 (Oryza sativa), 5'ss of exon 7
TAAAGATCGTCCATCTTGGTTCCGTGACTGTCGGAGCCTAGAAGTTTTTACTATGTTTCCTGCTGGAAATGGAGGAACCATTGAACTTGTTTACACGCAGgtgagcctcaa---atttaagacttatttgttggttctgttttttttttttgttcctatgattatacttaatttgctacag------------------------
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GAAAGATCGTCCATCTTGGTTCCGTGATTGTCGAAACCTGGAAGTCTTTACAATGATTCCAGCAGGAAATGGAGGAACGGTTGAACTTGTCTACACACAGgtgaacactgtttcattttaca-ttgtataatggtatatcctcagtcttctctatcaatgcatgtgcttcatgccatgaacattattacttgtttttgcttacag
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os10g33960.2 (Oryza sativa), 5'ss of exon 6
TAAAGATCGTCCATCTTGGTTCCGTGACTGTCGGAGCCTAGAAGTTTTTACTATGTTTCCTGCTGGAAATGGAGGAACCATTGAACTTGTTTACACGCAGgtgagcctcaaatttaagacttatttgttgg--------ttctgttttttttttttgtt-cctatgattatacttaatttgctacag-----------------
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AAAAGACCGCCCATCTTGGTTCCGTGATTGTCGAAGTCTTGAAGTCTTCACAATGTTTCCAGCTGGAAATGGTGGCACGATCGAACTTGTTTACATGCAGgtgagcgttacatccta-acttttttcttgaattaagtatcccatcattaatttttgccacatgcattccctttttatttatcattcttggctttttcgctcag
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G469551_T02 (Zea mays), 5'ss of exon 7
TAAAGATCGTCCATCTTGGTTCCGTGACTGTCGGAGCCTAGAAGTTTTTACTATGTTTCCTGCTGGAAATGGAGGAACCATTGAACTTGTTTACACGCAGgtgagcctcaaatttaagacttatttgttggttctgttttttttttttgttcctatg--attatacttaatttgctacag
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GAAAGATCGTCCATCTTGGTTTCGTGATTGTCGGAGTCTTGAAGTCTATACAATGTTACCAGCTGGAAATGGTGGAACCATTGAACTTGTTTACATGCAGgttagctatacgttgctgatcattacatttgttaaaaaacaatggtgctcttatatgtagttttggtttttttccttcag
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G042250_T03 (Zea mays), 5'ss of exon 7
TAAAGATCGTCCATCTTGGTTCCGTGACTGTCGGAGCCTAGAAGTTTTTACTATGTTTCCTGCTGGAAATGGAGGAACCATTGAACTTGTTTACACGCAGgtgagcctcaaatttaagacttatttgttggttctgttttttttttttgtt----cctatgatta--tacttaatttgctacag------------
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GAAAGATCGTCCCTCTTGGTTCCGTGATTGTCGAAGTCTGGAAGTGTTTACAATGTTTCCAGCTGGAAATGGGGGAACAATTGAACTTATCTACATGCAGgtgggcatttctattttgcttcattggttatgtttcttcagcatttctggtgaactgtatgacccattatgtggatggtaatatttgtatgtgcag
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G109987_T01 (Zea mays), 5'ss of exon 7
TAAAGATCGTCCATCTTGGTTCCGTGACTGTCGGAGCCTAGAAGTTTTTACTATGTTTCCTGCTGGAAATGGAGGAACCATTGAACTTGTTTACACGCAGgtgagcctcaaatttaagacttatttgttggttctgttttttttttttgttcctatgattatacttaatttgctacag----------------------------
||||||||||| |||||||||||||| || || || || ||||| ||||| | |||||| ||||||||||| ||||| ||||||||| |||||| ||||||| || || ||| | | || ||| | ||||| || | ||| ||| | | | | | |||
GAAAGATCGTCCCTCTTGGTTCCGTGATTGCCGAAGTCTTGAAGTGTTTACAAGGTTTCCAGCTGGAAATGGGGGAACAATTGAACTTATTTACATGCAGgtgtgc---aatttttattttgcttcattgttgatgtttcttcagcat-ttctggtgagc-tgcatgactcattacgtggatggtaatatttgtatgttattgcag
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 6
lower sequence: AT5G60690.1 (Arabidopsis thaliana), 5'ss of exon 6
TAAAGATCGTCCATCTTGGTTCCGTGACTGTCGGAGCCTAGAAGTTTTTACTATGTTTCCTGCTGGAAATGGAGGAACCATTGAACTTGTTTACACGCAGgtgagcctcaaatttaagacttatttgttggttctgttttttttttttgttcct--atgattatactta----atttgctacag
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CAAAGATCGGCCATCTTGGTTCCGTGACTGTAGGAGCCTTGAAGTTTTCACTATGTTCCCGGCTGGTAATGGTGGCACAATCGAGCTTGTTTATATGCAGgtgaatcctttagcctcttctggtttagtt-ttctatctctaacacttgaagatgaatgaataaagttgtgacatttgtt-cag
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv06s0004g02800.t01 (Vitis vinifera), 5'ss of exon 6
TAAAGATCGTCCATCTTGGTTCCGTGACTGTCGGAGCCTAGAAGTTTTTACTATGTTTCCTGCTGGAAATGGAGGAACCATTGAACTTGTTTACACGCAGgtgagcctcaaa-----tttaa--------------gacttatttgttggttctgttttttttttttgttcctatgattatacttaatttgctacag-----------------------------
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CAAAGATCGTCCATCTTGGTTCCGGGACTGTCGGAGCCTTGAAGTTTTCACCATGTTTCCAGCTGGAAATGGAGGAACTGTTGAACTCTTATACACACAGgtaaacgacaatagctttttgatgggagtaaacgacagcattttgaatatctcaaatcttctttgaatatcctgtattgaaattcagcttgtctggactaatgaatacaaacaaaatgcctttcagMapped 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|24136783|gb|BU927293.1|BU927293EST: CTATGTTTCCTGCTGGAAATGGAGGAACCATTGAACTTGTTTACACGCAG ACATATGCTCCAACAACACTGGCTCCTGCCCGGGATTTCTGGACGCTGAGA
genomic: CTATGTTTCCTGCTGGAAATGGAGGAACCATTGAACTTGTTTACACGCAGgtgagcctca ... tttgctacagACATATGCTCCAACAACACTGGCTCCTGCCCGGGATTTCTGGACGCTGAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAAAGATCGTCCATCTTGGTTCCGTGACTGTCGGAGCCTAGAAGTTTTTACTATGTTTCCTGCTGGAAATGGAGGAACCATTGAACTTGTTTACACGCAGgtgagcctcaaatttaagacttatttgttggttctgttttttttttttgttcctatgattatacttaatttgctacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA