Sequence
atgc intronic sequence ATGC exonic sequencegtttgtatttgtctgttttgtttttgaattagtgatttcaatgttacttatggtgatgtttgtctattgcatgttgcagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACGTCTGAAAACACAAAGGTTGTGATTGATCACGGGGCTGTCCCAATTTTCGTGAAGCTAC
Basic information
species | Glycine max |
transcript | GLYMA10G29000.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G29000.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
gtttgtatttgt-ctgttttgtttt--tgaattagtgatttcaat---------gttacttatggtgatgtttgtctattgcatgttgcagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACGTCTGAAAACACAAAGGTTGTGATTGATCACGGGGCTGTCCCAATTTTCGTGAAGCTAC
|| ||| | | || |||| | | | || ||||| || ||| ||| || || | ||| || ||| |||| || || || ||||| | ||||| || || ||||| || || || || ||||||||||| |||||||| |||||||| ||||| || |||||||| |
gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
upper sequence: GLYMA10G29000.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 3
-------gtttgtatttgtctgttttgtttttgaattagtgatttcaatgttacttatggtgatgtttgtctattgcatgttgcagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACGTCTGAAAACACAAAGGTTGTGATTGATCACGGGGCTGTCCCAATTTTCGTGAAGCTAC
| || || | || | | | || || | || | || | | | ||||| | | ||| |||| || ||||| |||||| | |||||||| |||||||| || || ||||| ||||||||||| |||||||| |||||||| || || || |||||||| |
gtatgttgatttaatataaaccttatatcctgttgttgctggatgaaaatgaatttctcatcagctttgtaattc---ttttgtagTTCGAAGCAGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTC
upper sequence: GLYMA10G29000.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 3
------gtttgtatttgtctgttttgtttttgaattagtgatttcaatgttacttatggtgatg-tttgtctatt----gcatgttgcagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACGTCTGAAAACACAAAGGTTGTGATTGATCACGGGGCTGTCCCAATTTTCGTGAAGCTAC
| || | | | |||| ||||| | || | || | | | | || | |||| |||| || || ||||||| ||||| |||||| | ||||| || |||||||| || ||||| ||||| ||||| || |||||||| ||||||||||| | || ||||| || |
gtatgttatgataccctccctcatggcttttaaattattcatattgatatgatattttcagacgatttgattatttgaaaaatcctgtagTTTGAAGCAGCATGGGCTCTCACAAACATTGCTTCTGGGACATCTGACAACACTAAGGTGGTAATTGATCATGGGGCTGTCCCGGTGTTTGTGAAACTTC
upper sequence: GLYMA10G29000.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S230_50V6.1 (Physcomitrella patens), 3'ss of exon 3
----------------------gtttgtatt-tgtctgttttgtttttgaattagtgatttcaatgtta-cttatggtg-----atgtttgtct-attgcatgt------tgcagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACGTCTGAAAACACAAAGGTTGTGATTGATCACGGGGCTGTCCCAATTTTCGTGAAGCTAC
| || | | ||| | | | | ||| | | || | || | | | ||| | | | | ||| | || ||| ||||||| || || || ||||| ||||||||||| ||||| ||||| ||||| |||| ||| || ||||||||||| ||||| ||||||||||| |||| |
gtgctcactcggattttccctactgtgaactgtgtttaatct-ctattgtacaatcgagtacatcacgatcctgtgggggcagaacgagtatctcactgtgtgtatcgcatgcagTTCGAAGCTGCCTGGGCGTTGACAAATATTGCTTCCGGAACTTCTGATCACACCCGGGTGGTTATTGATCACGGAGCTGTGCCAATTTTCGTTCAGCTCCMapped 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|9986972|gb|BE661080.1|BE661080EST: TTTCTCGATTTGTTGAGTTTCTCATGAGGGAAGACTTTCCGCAGTTGCAG TTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACGTCTGAAAAC
genomic: TTTCTCGATTTGTTGAGTTTCTCATGAGGGAAGACTTTCCGCAGTTGCAGgtttgtattt ... catgttgcagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACGTCTGAAAAC
EST:
gi|10847521|gb|BF070194.1|BF070194EST: TTTCTCGATTTGTTGAGTTTCTCATGAGGGAAGACTTTCCGCAGTTGCAG TTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACGTCTGAAAAC
genomic: TTTCTCGATTTGTTGAGTTTCTCATGAGGGAAGACTTTCCGCAGTTGCAGgtttgtattt ... catgttgcagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACGTCTGAAAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaattagtgatttcaatgttacttatggtgatgtttgtctattgcatgttgcagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACGTCTGAAAACACAAAGGTTGTGATTGATCACGGGGCTGTCCCAATTTTCGTGAAGCTAC
atttcaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtatttgtctgttttgtttttgaattagtgatttcaatgttacttatggtgatgtttgtctattgcatgttgcagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACGTCTGAAAACACAAAGGTTGTGATTGATCACGGGGCTGTCCCAATTTTCGTGAAGCTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC