Sequence
atgc intronic sequence ATGC exonic sequenceACATGAAATGAATGAACGTGTCAGAACAGGCATCTGGGTTGGGGATTGCTTTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaactcttttcccttctagatttctagtttaaaaaagaattgtgcattcttttttaattgaactacaaggatcatgagacatcttgatgcataatgattatgaatttag
Basic information
species | Glycine max |
transcript | GLYMA13G43680.1 |
intron # | 15 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 15
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 5'ss of exon 15
ACATGAAATGAATGAACGTGTCAGAACAGGCATCTGGGTTGGGGATTGCTTTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaactcttttcccttctagatttctagtttaaaaaagaattgtgcattcttttttaattgaactacaaggatcatgagacatcttgatgcataatgattatgaatttag
||||| || |||||||| || |||| ||| | |||||||| ||||| ||||||||||||||||| || | |||||||||||||||| || || |||||| | | | | || | | | | || | | | || ||| | || || | | || | | | || | |||| || |
TCATGAGATCAATGAACGCATCCGAACTGGCCTATGGGTTGGCGATTGTTTTATCTACAACAATTCTTCGTCACGACTTAATTACTGTGTAGGAGGAGAGgtaagtattttcattatatcaaaaatgc--attcacatatgatttggttagact------gttaattttcagaggtagtataactattcgatgtattacag------------
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 15
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 5'ss of exon 15
ACATGAAATGAATGAACGTGTCAGAACAGGCATCTGGGTTGGGGATTGCTTTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaactcttt--tcccttctagatttctagtttaaaaaagaattgtgcattcttttttaattgaactacaaggatcatgagac-atcttgatgcataatgattatgaatttag
||||| | ||||| || || | ||||| ||||||||||| || |||||||| || |||||||| || ||| | || || || ||||||||||| ||||||| | | | | ||| | | ||| || | ||| || ||| |||| || || | | | | | | | ||| | || | | | |
TCATGAGGTTAATGAGCGAGTGCGGACAGGGATCTGGGTTGGAGACTGCTTTATTTATAACAATTCATCATGGCGCCTGAACTATTGTGTTGGTGGCGAGgtatatattgtgtgctccatgcaagaatttttattttgttaa----tgtattttctattgtagt---attttgtgcactacaaatttatcccgttgtacatttacag---------
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 15
lower sequence: LOC_Os02g11840.2 (Oryza sativa), 5'ss of exon 6
ACATGAAATGAATGAACGTGTCAGAACAGGCATCTGGGTTGGGGATTGCTTTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaactcttttcccttctagatttctagtttaaaaaagaattgtgcattcttttttaattgaactacaaggatcatgagacatcttgatgcataatgattatgaatttag
||||| || |||||||| || |||| ||| | |||||||| ||||| ||||||||||||||||| || | | |||||||||||||| || || |||||| | | | | || | | | | | | | | || ||| | | || |||| | || || | | || | |||| || |
TCATGAGATCAATGAACGCATCCGAACTGGCCTATGGGTTGGTGATTGTTTTATCTACAACAATTCTTCGTCACGGCTTAATTACTGTGTAGGAGGAGAGgtaagtattttcattatatcaaaaatacattgtcacatatgatttggttagaccctt--aatt----ttcaggggtagtataactattcgatgtattacag------------
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 15
lower sequence: GRMZM2G000645_T01 (Zea mays), 5'ss of exon 15
ACATGAAATGAATGAACGTGTCAGAACAGGCATCTGGGTTGGGGATTGCTTTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaactcttttcccttctagatttctagtttaaaaaagaattgtgcattcttttttaattg-aactacaaggatcatgagacatcttgatgcataatgattatgaatttag
||||| || ||||| || || ||||| || || |||||||| || ||||||||||| ||||| || || ||| | || ||||| |||||||||||||||||| | | | | | | |||||| | | ||| | | | || | ||| ||| | | | | | | || | || |||
TCATGAGATCAATGAGCGAGTGAGAACTGGAATTTGGGTTGGAGACTGCTTTATCTATAACAACTCATCGTGGCGCCTAAATTATTGTGTTGGTGGTGAGgtaaatatagtctgctcgaaaacatttcttctgtttaaattctctatatgggcacttcatgtcatgacttcaattgc--ttacatagttataagctttatacttacag------
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 15
lower sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 15
ACATGAAATGAATGAACGTGTCAGAACAGGCATCTGGGTTGGGGATTGCTTTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaactcttttcccttctagatttctagtttaaaaaagaattgtgcattcttttttaattgaactacaaggatcatgagacatcttgatg-cataatgattatgaatttag---
||||| || |||||||||||| | || || | |||||||| ||||| ||||||||||||||||| || ||| | ||||||||||| || || || ||||| | ||| | ||||||| || | || ||| | || | | | | || | || ||| ||||| ||| | |
TCATGAGATCAATGAACGTGTCCGGACTGGGCTATGGGTTGGCGATTGTTTTATCTACAACAATTCTTCGTGGCGGCTTAATTACTGCGTAGGAGGAGAGgtg--ggttttttgtc--------------acttaaaaagacatcttatatatctttcaagttagatcatttag-tgatagagcgctttcatgtcataaccatttcatgtgttacag
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 15
lower sequence: GRMZM2G095348_T03 (Zea mays), 5'ss of exon 15
ACATGAAATGAATGAACGTGTCAGAACAGGCATCTGGGTTGGGGATTGCTTTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaac--tcttttcccttctagatttctagtttaaaaaagaattgtgcattcttttttaattgaactacaaggatcatgagacatcttgatgcataatgattatgaatttag--
|| || | ||||| || || ||||| || || |||||||| || ||||||||||| ||||| || | ||| | || ||||| |||||||||||||||||| || ||| ||| | | || | | | ||| | | || || | || || | | | | | | | || | || | |||
TCACGAGGTCAATGAGCGAGTGAGAACTGGAATTTGGGTTGGAGACTGCTTTATCTATAACAACTCGTTGTGGCGCCTAAATTATTGTGTTGGTGGTGAGgtaaaaatagtctactccttgaaaacgttttcttctgtttaagttctctatatggccactttgt-gagtcacga----cttcaattgtttacacagttataagctttgtacttacag
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 15
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 15
ACATGAAATGAATGAACGTGTCAGAACAGGCATCTGGGTTGGGGATTGCTTTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaa-----ctcttttcccttctagatttctagtttaaaaaagaattgtgcattcttttttaattgaactacaaggatcatgagacatcttgatgcataatgattatgaatttag
|| || | |||||||||| || || || || ||||||||||| ||||| || |||||||| || ||||||| ||||| || |||||||| || |||||| | | || |||| ||||| ||| || | ||| | | | | |||| | ||
CCACGAGAATGATGAACGTGTTAGGACCGGTATATGGGTTGGGGACTGCTTCATTTACAACAACTCTTCTTGGAAGCTTAACTATTGTGTTGGAGGCGAGgtactcaagagtctatttttatttctaatcatct--ttatgagctacattatataatagctgctaatatacctgtggcag--------------------------------------
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 15
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 19
ACATGAAATGAATGAACGTGTCAGAACAGGCATCTGGGTTGGGGATTGCTTTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaactcttttcccttctagatttctagtttaaaaaagaattgtgcattcttt-tttaattgaactacaaggatcatgagacatcttgatgcataatgattatgaatttag
|||||| ||||||||||| | || ||| | |||||||||||||| |||||||| | ||| || |||||||| ||||||||||||||||||||||||||| || |||||| ||| | | ||| || || | || ||| ||| ||| | | || ||| | | |||| | |
CAATGAAACCAATGAACGTGTTCGGACTGGCTTATGGGTTGGGGATTGTTTTATCTATACCAACTCTTCTTGGAGGCTTAATTACTGTGTTGGTGGTGAGgtaagg------ctcatttctaggtttttgg---aaagaaacgttttatgttttttattttgttgtaat-tgagattcagtactcctcttatattacag---------------
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 15
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 15
ACATGAAATGAATGAACGTGTCAGAACAGGCATCTGGGTTGGGGATTGCTTTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaactcttttcccttctagatttctagtttaaaaaagaattgtgcattcttttttaattg-aactacaaggatcatgagacatcttgatgcataatgattatgaatttag
||||||| |||||||||| || ||||| || |||||||| || || || || |||||||| || || |||| ||||| ||||||||||| || |||||||| | | | | | | || || || || | | || |||| | | | ||| | | ||
CCATGAAAATGATGAACGTGTTAGGACAGGTATATGGGTTGGTGACTGTTTCATTTACAACAACTCTTCCTGGAAGCTTAACTACTGTGTTGGAGGCGAGgtattg---tgcatatatgttggttactctgatttggaagttgttatgaactggattctaatgatggttgctaacatcgtaatactag--------------------------
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 15
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 15
ACATGAAATGAATGAACGTGTCAGAACAGGCATCTGGGTTGGGGATTGCTTTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaactcttttcccttctagatttctagtttaaaaaagaattgtgcattcttttttaat-tgaactacaaggatcatgagacatcttgatgcataatgattatgaatttag-
||||| | |||||| | || ||||| || || |||||||| || || || || |||||||| ||||||||| | |||||||||||||||||||| |||||||| | || ||| || | | | ||| | || || | || | | | || |||| | || || ||| | || ||
CCATGAGACAAATGAAAGAGTTAGAACTGGTATATGGGTTGGAGACTGTTTCATTTACAACAACTCCTCTTGGCGGCTTAATTACTGTGTTGGTGGCGAGgtattgtgtattgtccacccttg--------tcttgaaagtatttccatatgtgcagatgatatccatttcatggatttcttggagcttttttgttaaataaccatatgttccag
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 15
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 15
ACATGAAATGAATGAACGTGTCAGAACAGGCATCTGGGTTGGGGATTGCTTTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaactcttttcccttctagatttctagtttaaaaaagaattgtgcattcttttttaattgaactacaaggatcatgagacatcttgatgcataatgattatgaatttag
|||||||| ||||| || |||||||| || || ||||||||||| ||||| || ||||| || ||||||||| ||||||| || ||||||||||||||||||| | || ||| || || | || | | | |||| || | | | || |||| | | || ||| | ||||||
CCATGAAATAAATGAGCGAGTCAGAACTGGAATATGGGTTGGGGACTGCTTCATTTACAATAACTCCTCTTGGCGACTTAACTATTGTGTTGGTGGTGAGgtataagagagttga--ttccaggttgtatttctata-------tatatgatcttcatt--ctaaggtgcag---tcatataaattgttaatg--tgatgatttcag------
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 15
lower sequence: PP1S243_63V6.1 (Physcomitrella patens), 5'ss of exon 15
ACATGAAATGAATGAACGTGTCAGAACAGGCATCTGGGTTGGGGATTGCTTTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtat-taactcttttcccttctagatttctagtttaaaaaagaattgtgcattcttttttaattgaactacaaggatcatgagacatcttgatgcataatgattatgaatttag-
|| ||||| ||| || | ||||| ||| | |||||||| || ||||| || ||||||||||| | |||||||| || |||||||||||||| |||||| ||| | | | | | ||| || | ||| |||| | | | | || | ||| || | | |||| || || | || || |
GCACGAAATTCCTGAGCGAATTAGAACTGGCTTGTGGGTTGGTGACTGCTTCATTTACAACAATTCAGCATGGAGACTCAACTACTGTGTTGGTGGAGAGgtaagtaatggtcatacatgatggat---cagct--------aatgctgcac-cgtatccatttcagatactagtagatt---acattttagcttatgagttacttgcatccaatMapped 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|298199623|gb|HO043500.1|HO043500EST: TTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAG GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTT
genomic: TTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaactc ... atgaatttagGTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACATGAAATGAATGAACGTGTCAGAACAGGCATCTGGGTTGGGGATTGCTTTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaactcttttcccttctagatttctagtttaaaaaagaattgtgcattcttttttaattgaactacaaggatcatgagacatcttgatgcataatgattatgaatttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG