Sequence
atgc intronic sequence ATGC exonic sequenceCTCCGAGTCATGTGCACAGGTTGTATTTCCAGGGCCCAAATACATTCAGTGAACCTTGGCATCTACCTCATTGTCCTCCAGAGCAAGTAAAAGATATTGTgtatgcctctttttccttaaaatatagttgatcctcatctagtgtcaatgtatttagtattttagttatgtacaccctgcaagaggatttcagttaatgttaacattaaaattgacattttaactattaagtatatgacttcatattgcag
Basic information
species | Glycine max |
transcript | GLYMA08G03550.1 |
intron # | 17 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G03550.1 (Glycine max), 5'ss of exon 17
lower sequence: LOC_Os05g09360.1 (Oryza sativa), 5'ss of exon 13
CTCCGAGTCATGTGCACAGGTTGTATTTCCAGGGCCCAAATACATTCAGTGAACCTTGGCATCTACCTCATTGTCCTCCAGAGCAAGTAAAAGATATTGTgtatgcctctttttccttaaaatatagttgatcctcatctagtgtcaatgtatttagtattttag---ttatgtacaccctgcaagaggatttcagttaatgttaacattaaaattg-acattttaactattaagtatatgacttca--tattgcag---------
||| |||||||||||||| |||||||| ||| || || || ||||||||||||||||||||||| || || || ||||| | || |||||||| | | | ||| || | ||| | | | || || ||| || ||| | || ||| | | || | | | || || | |||||| || | | || || | ||| | |
CTCACTGTCATGTGCACAGGATGTATTTCATGGGTCCCAACACCTTCAGTGAACCTTGGCATCTACCACACACCCCACCTGAGCAGATTTCTGAGATTGTgtacgtagatctgtccacaagtaaatcaagattatttttgaacaaca-tgcattcagcctttgggctcttttgtcattcttttttccttatctttactggttttgctttttttgccacaaattttacctgtctcatttaagattatgtttatcgtatttttgttag
upper sequence: GLYMA08G03550.1 (Glycine max), 5'ss of exon 17
lower sequence: LOC_Os01g09246.1 (Oryza sativa), 5'ss of exon 15
CTCCGAGTCATGTGCACAGGTTGTATTTCCAGGGCCCAAATACATTCAGTGAACCTTGGCATCTACCTCATTGTCCTCCAGAGCAAGTAAAAGATATTGTgtatgcctctttttcctta---aaatatagttgatcctcatctagtgtcaatgtatttagtattttagttat-gtacaccctgcaagaggatttcagtta-atgttaacattaaaattgacattttaactattaagtatatgacttcatattgcag
| | | ||||| |||||| |||||||| |||||| || || |||||||||||||||||||| || || || ||||| || | || |||||||||| | | ||| | | || || | | | | ||||||||| | |||||| || || | | | | | | || | || |||
CGCATGGGCATGTACACAGGATGTATTTCATGGGCCCCAACACCTTCAGTGAACCTTGGCATCTCCCACACACCCCACCAGAACAGATTTCTGAGATTGTgtatgtgtacatgccctcacatagatctaactactacctgaacaaattcaatgtatcttctattttggtaattgcatatgttttatccgtgttacttttgcatgcag-------------------------------------------------
upper sequence: GLYMA08G03550.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G350818_T02 (Zea mays), 5'ss of exon 8
CTCCGAGTCATGTGCACAGGTTGTATTTCCAGGGCCCAAATACATTCAGTGAACCTTGGCATCTACCTCATTGTCCTCCAGAGCAAGTAAAAGATATTGTgtatgc-ctctttttccttaaaatatagttgatcctcatctagtgtcaatgtatttagtattttagttatgtacaccctgcaagaggatttcagttaatgttaacattaaaattgacattttaactattaagtatatgacttcatattgcag
||| |||||||||||||| |||||||| ||||||||| || |||||||||||||||||||| || || || |||||||| | ||| |||||||||| ||| | | || | | || | | || || | | | | ||| || | | | | | | | | | || | | || |
CTCACTGTCATGTGCACAGGATGTATTTCATGGGCCCAAACACCTTCAGTGAACCTTGGCATCTCCCACACACCCCGCCAGAGCAGATTTCAGAGATTGTgtatgtactcccatcctttgttgtttgtatgtccattatttattat---ttttttttgtctccaaaattttcctgatccttgaatgtcctcctgtctctatcctttttcag-----------------------------------------
upper sequence: GLYMA08G03550.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G412234_T01 (Zea mays), 5'ss of exon 5
CTCCGAGTCATGTGCACAGGTTGTATTTCCAGGGCCCAAATACATTCAGTGAACCTTGGCATCTACCTCATTGTCCTCCAGAGCAAGTAAAAGATATTGTgtatgcctctttttccttaaaatatagttgatcct---------catctagtgtcaatgtatttagtattttagttatgtacacc-----ctgcaagaggatttcagttaatgttaacattaaaattgacattttaactattaagtatatgacttcatattgcag----------------------------
| | ||||||| |||||| |||||||| ||| || || || |||||||||||||||||||| || || |||| ||||| ||| ||| ||| || ||||||| | || | | ||| | | ||| || || | | ||| | | | || ||| || | || || | ||| ||| | | | |||| |||| | | | || || | |||||| || |
CACAAGGTCATGTACACAGGATGTATTTCATGGGTCCCAACACCTTCAGTGAACCTTGGCATCTCCCACACAGTCCGCCAGAACAAATAACAGAGATCGTgtatgtgtgcttcttcacaaatcacaagtgaatctagatatattcaattggatccaacctttgtggtccttttcttgtaccacccttaagctccgagactcttttgagccaactaaccatttaaatctgcctgtagggtactatcagaaatacttcaaatggtgttctaattttgctttctcttcgttttcagMapped 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|193653917|gb|FK598347.1|FK598347EST: GAACCTTGGCATCTACTTCATTGTCCTCCAGAGCAAGTAAAAGATATTGT ATATGAAGATGCCTTCAATAGATTTGTGGATGACATTAATAGTTTAGCTAC
genomic: GAACCTTGGCATCTACCTCATTGTCCTCCAGAGCAAGTAAAAGATATTGTgtatgcctct ... catattgcagATATGAAGATGCCTTCAATAGATTTGTGGATGACATCAATAGTTTAGCTAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTCCGAGTCATGTGCACAGGTTGTATTTCCAGGGCCCAAATACATTCAGTGAACCTTGGCATCTACCTCATTGTCCTCCAGAGCAAGTAAAAGATATTGTgtatgcctctttttccttaaaatatagttgatcctcatctagtgtcaatgtatttagtattttagttatgtacaccctgcaagaggatttcagttaatgttaacattaaaattgacattttaactattaagtatatgacttcatattgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG