Sequence
atgc intronic sequence ATGC exonic sequencegtaagaatagaatagcacataataaaaaagtgaacttttatactcttttgtgtggcttatatgaaactgaaatgggattgttttgaaatgtagGGAAACTTGGGATGGGCACTGATGCAACAGAACAATTACATAGAAGCAGAAGACGCCTACCGTCGCGCGCTTTCGATAGCCCCAGATAACAACAAGATGT
Basic information
species | Glycine max |
transcript | GLYMA02G05170.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G05170.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G51280.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagaatagaatagcacata-ataaaaaagtgaacttttatactcttttgtgtggcttatatgaaactgaaatgggattgttttgaaatgtagGGAAACTTGGGATGGGCACTGATGCAACAGAACAATTACATAGAAGCAGAAGACGCCTACCGTCGCGCGCTTTCGATAGCCCCAGATAACAACAAGATGT
||||| | | | | || | | | | | ||| | ||||||| || | || || | ||||| ||||||| ||||||||||||||||||| |||||||||| |||| | | ||||| ||||| || ||| | | || | || ||||| ||||| |||||||| ||||
gtaagcagcaatttcaaaatgtgcattatgtttagcaattac-caagtttgtgttaattct---taattggatgatgattggtttgaaa--cagGGAAACTTGGGATGGGCTCTGATGCAACGAGACAACTTTGTGGAAGCTGAAGATGCATACAGAAGAGCTTTATCAATAGCACCAGACAACAACAAAATGT
upper sequence: GLYMA02G05170.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0023g03720.t01 (Vitis vinifera), 3'ss of exon 3
gtaagaatagaatagcacataataaaaaagtgaacttttatactcttttgtgtggcttatatgaaactgaaat-gggattgttttgaaatgtagGGAAACTTGGGATGGGCACTGATGCAACAGAACAATTACATAGAAGCAGAAGACGCCTACCGTCGCGCGCTTTCGATAGCCCCAGATAACAACAAGATGT
|||||| | | | || | || | | | | || | || | || | || ||| | | |||| ||||| ||||||||| ||||||| |||||||| || || ||||||||||| |||||| | || || ||||| || || |||||||| ||||||||||
----------gtaagcacacggtttttctgctagtttc---agtcctctatctcactcccttaaactccatattgagacgaatttccatttcagGGGAACTTAGGATGGGCATTGATGCAGCAGAACAACTATATCGAAGCAGAAGATGCCTACAGGCGGGCACTTTCCATGGCTCCAGATAATAACAAGATGT
upper sequence: GLYMA02G05170.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0023g03740.t01 (Vitis vinifera), 3'ss of exon 3
gtaagaatagaatagcacataataaaaaagtgaacttttatactcttttgtgtggcttatatgaaactgaaatgggattgttttgaaatgtagGGAAACTTGGGATGGGCACTGATGCAACAGAACAATTACATAGAAGCAGAAGACGCCTACCGTCGCGCGCTTTCGATAGCCCCAGATAACAACAAGATGT
|||||| | | | || | |||| | || | | | || || ||| | | |||| ||||| ||||||||| ||||||| | |||||| || || ||||||||||| |||||| | || || ||||| || | |||||||| ||||||||||
----------gtaagcacacggtttttctgctagtttcagtcctctatc-----tctccctaaactccatattgagacgaatttccatttcagGGGAACTTAGGATGGGCATTGATGCAGCGGAACAACTATATCGAAGCAGAAGATGCCTACAGGCGGGCACTTTCAATGACTCCAGATAATAACAAGATGTMapped 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|193563127|gb|FK520302.1|FK520302EST: AAGGAAAGAAGTTTCAAGTCTCTGTGGAGCAAGAAGCCACTAGATTGCTG GGAAACTTGGGATGGGCACTGATGCAACAGAACAATTACATAGAAGCAGAA
genomic: AAGGAAAGAAGTTTCAAGTCTCTGTGGAGCAAGAAGCCACTAGATTGCTGgtaagaatag ... tgaaatgtagGGAAACTTGGGATGGGCACTGATGCAACAGAACAATTACATAGAAGCAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatactcttttgtgtggcttatatgaaactgaaatgggattgttttgaaatgtagGGAAACTTGGGATGGGCACTGATGCAACAGAACAATTACATAGAAGCAGAAGACGCCTACCGTCGCGCGCTTTCGATAGCCCCAGATAACAACAAGATGT
ttgtttt CT-rich tract
ttatatgaaa TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaatagaatagcacataataaaaaagtgaacttttatactcttttgtgtggcttatatgaaactgaaatgggattgttttgaaatgtagGGAAACTTGGGATGGGCACTGATGCAACAGAACAATTACATAGAAGCAGAAGACGCCTACCGTCGCGCGCTTTCGATAGCCCCAGATAACAACAAGATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG