Sequence
atgc intronic sequence ATGC exonic sequenceCTGTTCCGAAAACAACAAGCGTCTCATTCATTTCTCTACGTCTGAAGTCTATGGGAAAACCATTGGAAGCTTCCTCCCCAAAGATAGTCCTCTTCGTCAGgtgacctttcactttctttggaccaagttactactactattgatctgtgcataaccagtgacgatttcaaattttacaatgcatcaaagttttgttattg...
Basic information
species | Glycine max |
transcript | GLYMA17G05440.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G05440.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os01g73790.1 (Oryza sativa), 5'ss of exon 3
CTGTTCCGAAAACAACAAGCGTCTCATTCATTTCTCTACGTCTGAAGTCTATGGGAAAACCATTGGAAGCTTCCTCCCCAAAGATAGTCCTCTTCGTCAGgtgacctttcactttctttggaccaagttactactactattgatctgtgcataaccagtgacgatttca-aattttacaatgcatcaaagttttgttattg----
||| || || ||||||||||||||||| || ||||| |||| || ||||| || || ||||| || ||||||||||||| || ||||| || |||| | | || | | | | || | || || | | ||| | ||| | || | | ||| |||| | |||
CTGCTCTGAGAACAACAAGCGTCTCATCCACTTCTCCACGTGCGAGGTCTACGGCAAGACCATCGGCAGCTTCCTCCCCACCGACCACCCTCTCCGCAAGgtcatccaccatatcact----ctattttgacgtttcttctggataataatgtgcttgtgccaattgtacaagtctgtgtgacattttcttttt-tggttggttg
upper sequence: GLYMA17G05440.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G167872_T02 (Zea mays), 5'ss of exon 1
CTGTTCCGAAAACAACAAGCGTCTCATTCATTTCTCTACGTCTGAAGTCTATGGGAAAACCATTGGAAGCTTCCTCCCCAAAGATAGTCCTCTTCGTCAGgtgacctttcactttctttggaccaagttactactactattgatctgtgcataaccagtgacgatt-tcaaattttacaatgcatcaaagttttgttattg----
||| ||||| |||| |||||||||||| || ||||| |||| || |||||||| || ||||| || ||||||||||||||||| || || || ||||||| | ||||||| | | | | | | || | | | ||| || ||| | | | | | | ||| | || |
CTGCTCCGAGAACAGCAAGCGTCTCATCCACTTCTCCACGTGCGAGGTCTATGGCAAGACCATCGGCAGCTTCCTCCCCAAAGACCACCCGCTCCGCAAGgtgacgtgat-ttttctttctatccactcaacccccctccaaagtcacatt---ctggccacgcttgtcagaccgttctttttagttttggttt-tcatcggtca
upper sequence: GLYMA17G05440.1 (Glycine max), 5'ss of exon 1
lower sequence: AT2G27860.1 (Arabidopsis thaliana), 5'ss of exon 3
CTGTTCCGAAAACAACAAGCGTCTCATTCATTTCTCTACGTCTGAAGTCTATGGGAAAACCATTGGAAGCTTCCTCCCCAAAGATAGTCCTCTTCGTCAGgtgacctttcactttctttggaccaagttactactactattgatctgtgcataaccagtgacgattt-caaattttacaatgcatcaaagttt-tgttattg-
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CTGTTCTGAGAACAACAAGCGTCTCATTCACTTTTCTACCTGTGAAGTTTATGGAAAAACCATTGGAAGCTTTCTTCCTAAGGATCATCCTCTGCGTGATgtaa--tgcctttttgtacatttcgctttccacatgttattg-tctttttatcaatctcatcgatgaatgtactgaggaacatgttgaagctgacgttttcgt
upper sequence: GLYMA17G05440.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv06s0061g01120.t01 (Vitis vinifera), 5'ss of exon 3
CTGTTCCGAAAACAACAAGCGTCTCATTCATTTCTCTACGTCTGAAGTCTATGGGAAAACCATTGGAAGCTTCCTCCCCAAAGATAGTCCTCTTCGTCAGgtgacctttcactttctttggaccaagttactactactattgatctgtgcataaccagtgacgatttcaaattttacaatgcatcaaagttttgttattg-----
|||||| || |||||||||||||||||||| ||||| || | |||||||||||||||||| ||||| ||||| || ||||||||| || || | ||||||| | || ||||| | | | | | || | ||||| ||| || | | | | || | |||| | |||
CTGTTCGGAGAACAACAAGCGTCTCATTCACTTCTCGACTTGTGAAGTCTATGGGAAAACGATTGGGAGCTTTCTTCCCAAAGATTCACCCCTCTGGCAGgtgagat----ctctctttcaattctccttttttttttttttcctcatacataag-agttcgaatctgtctctgtgtattgtagttgtcttttttcatttttata
upper sequence: GLYMA17G05440.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 3
CTGTTCCGAAAACAACAAGCGTCTCATTCATTTCTCTACGTCTGAAGTCTATGGGAAAACCATTGGAAGCTTCCTCCCCAAAGATAGTCCTCTTCGTCAGgtgacctttcactttctttggaccaagttactactactattgatctgtgcataaccagtgacgatttcaaattttacaatgcatcaaagttttgttattg---
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CTGTTCAGAAAACAACAAGCGTCTCATTCACTTCTCGACTTGTGAAGTCTATGGGAAAACGATTGGGAGCTTTCTTCCCAAAGATTCACCTCTCCGGCAGgtgagatctctctc-ctctgtatttgttttgttttgtt-tggttttgtttg-gttttgttttttttttttttcacgcatagagctcgaatctgtcttctgtatMapped 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|208272402|gb|GE065852.1|GE065852EST: ATGGGAAAACCATTGGAAGCTTCCTCCCCAAAGATAGTCCTCTTCGTCAG GATCCTGCATACTACGTACTTAAGGAGGATGAATCTCCTTGTATTTTTGGT
genomic: ATGGGAAAACCATTGGAAGCTTCCTCCCCAAAGATAGTCCTCTTCGTCAGgtgacctttc ... ttttgtgtagGATCCTGCATACTACGTACTTAAGGAGGATGAATCTCCTTGTATTTTTGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGTTCCGAAAACAACAAGCGTCTCATTCATTTCTCTACGTCTGAAGTCTATGGGAAAACCATTGGAAGCTTCCTCCCCAAAGATAGTCCTCTTCGTCAGgtgacctttcactttctttggaccaagttactactactattgatctgtgcataaccagtgacgatttcaaattttacaatgcatcaaagttttgttattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG