Sequence
atgc intronic sequence ATGC exonic sequenceCATAAAACTATTGATAGTGTGCTAGCTAGAGGGGAGAAGCTGGATAGTTTAGTTGAGAAGAGTTCTGATCTGAGTGCCGCTTCGCAGgtacacctaaacatcctttatacaactttgcatttggaactagtatactcacagtcagacatctattatttgcgttactcttttttcagttactaaagtg...
Basic information
species | Glycine max |
transcript | GLYMA09G13840.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G13840.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g64650.2 (Oryza sativa), 5'ss of exon 5
CATAAAACTATTGATAGTGTGCTAGCTAGAGGGGAGAAGCTGGATAGTTTAGTTGAGAAGAGTTCTGATCTGAGTGCCGCTTCGCAGgtacacctaaacatcc-tttatacaactttgcat--ttggaactagtatactcacagtcagacatctattatttgcgttactcttttttcagttactaaagtg
|||||||||||||| |||||||| |||||||| | ||||||| || |||||||||||||| || |||||||| ||||| |||||| | | | | | | | | ||| | | | | || | | || || ||| | || | | ||| ||| |
CATAAAACTATTGAGAGTGTGCTCCAAAGAGGGGAAAGATTGGATAGCTTGGTTGAGAAGAGTTCAGACCTGAGTGCTGCTTCACAGgtaatcatgtgttttcatgtttgcttttttacttgatgagtgcttcttactttttgttctcactgtgattcctcaagtacatttgtttaggactacacat---
upper sequence: GLYMA09G13840.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G178244_T01 (Zea mays), 5'ss of exon 5
CATAAAACTATTGATAGTGTGCTAGCTAGAGGGGAGAAGCTGGATAGTTTAGTTGAGAAGAGTTCTGATCTGAGTGCCGCTTCGCAGgtacacctaaacatcctttatacaact-ttgcatttggaactagtatactcacagtcagacatctattatttgcgttactcttt-tttcagttactaaagtg
|||||||||||||||||||| || || ||||| |||| ||||||| || |||||||| ||||||||||| ||||| ||||| |||||| |||| | | |||| | || | || || || | || | | || | | || | || | || | | | | |||
CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTGGTTGAGAAAAGTTCTGATCTAAGTGCTGCTTCTCAGgtaatcctatatttactttgccggatgattttttatgctgttaacgtaaaccatgttaaaaatttgcttttgctgctaattttcactgtcataaatcaag--
upper sequence: GLYMA09G13840.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G387076_T02 (Zea mays), 5'ss of exon 6
CATAAAACTATTGATAGTGTGCTAGCTAGAGGGGAGAAGCTGGATAGTTTAGTTGAGAAGAGTTCTGATCTGAGTGCCGCTTCGCAGgtacacctaaacatcctttatacaactttgcatttggaactagtatactcacagtcagacatctattatttgcgttactcttttttcagttactaaagtg--
|||||||||||||| ||||| || || ||||| |||| ||||||| || |||||||| || |||||||||||||| ||||| |||||| |||| | |||| | |||| || | | | || | || ||| || || || |||| | | | | ||
CATAAAACTATTGAGAGTGTCCTTGCCAGAGGAGAGAGATTGGATAGCTTGGTTGAGAAAAGCTCTGATCTGAGTGCTGCTTCTCAGgtaaccctatttttactttgccagatgaattattttatttta-tgctgttaaagcataatatacgttaaa-gctttgctattttctgctaaattttactgtc
upper sequence: GLYMA09G13840.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv11s0206g00130.t01 (Vitis vinifera), 5'ss of exon 5
CATAAAACTATTGATAGTGTGCTAGCTAGAGGGGAGAAGCTGGATAGTTTAGTTGAGAAGAGTTCTGATCTGAGTGCCGCTTCGCAGgtacacctaaacatcctttatacaact-ttgcatttggaactagtatactcacagtcagacatctattatttgcgttactcttttttca-gttactaaagtg
||||| |||||||||||||| || || |||| ||||||||||| |||||||||||||| ||||| ||||| || | || || ||||||| || | | || ||| || |||| ||||| | | ||||| | || | | | | | | | | | | || ||
CATAAGACTATTGATAGTGTCCTTGCACGAGGTGAGAAGCTGGACAGTTTAGTTGAGAAAAGTTCAGATCTCAGCACAGCATCACAGgtacctgtacattaattgcatcttactgttatatttacccactctatacataggcccgtgcatctgt-atctccttcagcgtatctctatgcttcttaaca-Mapped 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|31469010|gb|CD411038.1|CD411038EST: AGCTGGATAGTTTAGTTGAGAAGAGTTCTGATCTGAGTGCCGCTTCGCAG GTTCTTTATTTATTCCATGCCTTTCTTGCCTTTGGTTTCAATCTTTTCTTG
genomic: AGCTGGATAGTTTAGTTGAGAAGAGTTCTGATCTGAGTGCCGCTTCGCAGgtacacctaa ... aattctgtagGTTCTTTATTTATTCCATGCCTTTCTTGCCTTTGGTTTCAATCTTTTCTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CATAAAACTATTGATAGTGTGCTAGCTAGAGGGGAGAAGCTGGATAGTTTAGTTGAGAAGAGTTCTGATCTGAGTGCCGCTTCGCAGgtacacctaaacatcctttatacaactttgcatttggaactagtatactcacagtcagacatctattatttgcgttactcttttttcagttactaaagtg
- - - - - - - - - - - - - - - - - - - GCTGGA