Sequence
atgc intronic sequence ATGC exonic sequenceTTGATGATGTCACTTTCCATCAATGTGTAAATTTGACAAGGTTCAACTCAGAGAAGACAGTTAGTTTTGTGCCACCTGATGGTGAATTTGAACTAATGAAgtaagctcttgccttttcattgtatctcatgctatataaatttttgtgaacctacaacaaacgtattaaatttgtactttggtgggaaaaaggggcagat...
Basic information
species | Glycine max |
transcript | GLYMA11G04600.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G04600.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv02s0012g00910.t01 (Vitis vinifera), 5'ss of exon 8
TTGATGATGTCACTTTCCATCAATGTGTAAATTTGACAAGGTTCAACTCAGAGAAGACAGTTAGTTTTGTGCCACCTGATGGTGAATTTGAACTAATGAAgtaagctcttgccttttcattgtat-ctcatgctatataaatttttgtgaacctacaacaaacgtattaaatttgtactttggtgggaaaaaggggcagat---
|||||||||| |||||||| || || ||||||||||| ||||| |||||||| ||||| || |||||||||||||| ||||||||||||||| | ||||||||||||| ||| |||| | ||||||| | || | || | | | | | | |||||| ||| | | | | | | || |
TTGATGATGTTACTTTCCACCAGTGCGTAAATTTGACGAGGTTTAACTCAGAAAAGACCGTCAGTTTTGTGCCACCAGATGGTGAATTTGAATTGATGAAgtaagctcaaaattttctcttgtttactcatgc-gttcaacctctttttattatgtattg--ccttgtaaattagtagtgatg-aagtattaatgacatcttga
upper sequence: GLYMA11G04600.1 (Glycine max), 5'ss of exon 8
lower sequence: PP1S54_156V6.1 (Physcomitrella patens), 5'ss of exon 8
TTGATGATGTCACTTTCCATCAATGTGTAAATTTGACAAGGTTCAACTCAGAGAAGACAGTTAGTTTTGTGCCACCTGATGGTGAATTTGAACTAATGAAgtaagctcttg--ccttttcattgtatctcatgctatataaatttttgtg--aacctacaacaaacgtattaaatttgtactttggtgggaaaaaggggcagat--------------------------------------------------------------------------------------------
||||||| ||||| ||||| || ||||| ||| | || || ||||| | ||||||||||| ||||| || ||||| ||||| || |||||||| |||||||||| ||||| | | | || | | | | || || | ||| | ||| ||| | || | | | | |
TTGATGACGTCACATTCCACCAGTGTGTGAATCTTACGAGATTCAATGCCGAGAAGACAGTCAGTTTCGTTCCACCGGATGGAGAGTTTGAACTGATGAAgtaagttcttgagctatgtacttttggccaggaatgaagtgcgttcagttctagttcacagggagtgtaaccgcgctgtcacctttcggaagagaacataatttaatgatctagttgatgctactatatcttgcatgcggacagtggtctttacctgcggcacatcctaagctttgagcattttatcaatgcacag
upper sequence: GLYMA11G04600.1 (Glycine max), 5'ss of exon 8
lower sequence: PP1S197_28V6.1 (Physcomitrella patens), 5'ss of exon 8
TTGATGATGTCACTTTCCATCAATGTGTAAATTTGACAAGGTTCAACTCAGAGAAGACAGTTAGTTTTGTGCCACCTGATGGTGAATTTGAACTAATGAAgtaagctcttgccttttcattgtatctcatgctata--taaatttttgtgaacctacaaca--aacgtattaaatttgtacttt-ggtgggaaaaaggggcagat
|||||||||| || ||||| |||||||| ||| | ||||| |||| | ||||||||||| |||||||| ||||| ||||| ||||||||||| ||||||||| || || || ||||||| | || | | || | | | || || || | | | | | || | ||| ||| |
TTGATGATGTTACATTCCACCAATGTGTCAATCTCACAAGATTCACTGCTGAGAAGACAGTCAGTTTTGTTCCACCCGATGGAGAATTTGAACTCATGAAgtaaattcctga----tctatgtatcttttactggaagtgaactgctacaattctttctcatgaagttcgtcgactcatgctctcaacttttggaagaagcata-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|51335335|gb|CO979201.1|CO979201EST: GAGAAGACAGTTAGTTTTGTGCCACCTGATGGTGAATTTGAACTAATGAA ATATCGTATCACTGAGGGTGTTAATCTTCCCTTCAAAGTATTGCCAACCAT
genomic: GAGAAGACAGTTAGTTTTGTGCCACCTGATGGTGAATTTGAACTAATGAAgtaagctctt ... atattggtagATATCGTATCACTGAGGGTGTTAATCTTCCCTTCAAAGTATTGCCAACCAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGATGATGTCACTTTCCATCAATGTGTAAATTTGACAAGGTTCAACTCAGAGAAGACAGTTAGTTTTGTGCCACCTGATGGTGAATTTGAACTAATGAAgtaagctcttgccttttcattgtatctcatgctatataaatttttgtgaacctacaacaaacgtattaaatttgtactttggtgggaaaaaggggcagat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttggtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggggcag