Sequence
atgc intronic sequence ATGC exonic sequencegtatgcatctaccttgttagtaatactctgaatctgtagtagctttggtcaaagcaatttaccctttacttttgcttcttgtagTGGATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAA
Basic information
species | Glycine max |
transcript | GLYMA03G33910.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G33910.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g41590.1 (Oryza sativa), 3'ss of exon 4
gtatgcatctaccttgttagta--atactctgaatctgtagtagctttggtcaaagca-----atttaccctttacttttgcttcttgtagTGGATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAA
||| || | || | || | | | | | | | | | | |||| | | | |||||| || |||||||||| ||| ||||||||||||||||||||||||| |||| ||||||||||||||||| || |||||||||||||| | ||||||||| |
gtaagctctgaatccactaaaaccatgagcaagagcaacaaaaacctgtatatatacttgtttgcttactgtatgccattgctt--tgcagTGGATGCTTCAAACTCCTGGTGCAACAAGTTACATGGGTTGCATTGGAAAGGATAAGTTTGGTGAGGAGATGAAGAAGAATGCCCAAGCTGCTGGTGTTA
upper sequence: GLYMA03G33910.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g43750.1 (Oryza sativa), 3'ss of exon 4
------------------gtatgcatctaccttgttagtaatactctgaatctgtagtagctttggtcaaagcaatttaccct----ttacttttgcttcttgtagTGGATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAA
| ||| | |||| | || | | || || | | ||| | || | | | ||| | | || ||| ||||||||||||| |||||||||||||||||||||||||| |||| || ||||| ||||| || || ||||||||||| || || |||||||| |
gtaagttcaaaaaatactgagtgctagcattatgttctttatgtgcccagaagttacta--ctagatcacaacactcttgattattattattaatatttattgcagTGGATGCTCCAGATTCCTGGTGCAACAAGTTACATGGGTTGCATTGGGAAGGACAAGTTCGGTGAGGAGATGAAGAAAGACGCACAAACCGCTGGTGTTA
upper sequence: GLYMA03G33910.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g43750.2 (Oryza sativa), 3'ss of exon 4
------------------gtatgcatctaccttgttagtaatactctgaatctgtagtagctttggtcaaagcaatttaccct----ttacttttgcttcttgtagTGGATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAA--
| ||| | |||| | || | | || || | | ||| | || | | | ||| | | || ||| ||||||||||||| |||||||||||||||||||||||||| |||| || ||||| ||||| || || ||||||||||| || || |||||||| |
gtaagttcaaaaaatactgagtgctagcattatgttctttatgtgcccagaagttacta--ctagatcacaacactcttgattattattattaatatttattgcagtggatgctccagATTCCTGGTGCAACAAGTTACATGGGTTGCATTGGGAAGGACAAGTTCGGTGAGGAGATGAAGAAAGACGCACAAACCGCTGGTGTTAAT
upper sequence: GLYMA03G33910.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G089767_T01 (Zea mays), 3'ss of exon 2
--------------------------------------------gtatgcatctaccttgttagtaatactctgaatctgtagtagctttggtcaaagcaatttaccctttacttttgcttcttgtagTGGATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAA
|||| ||| || || | | | || || | || || | |||| | |||||||| |||||||||| ||| ||||||||||| |||||||||| ||| |||| || |||||||||||||| || |||||||| || || || ||||||| | |
gtaagctctgaagaaaaaccacaataatattcaaagctattagcctatgaccagtcctgattggttaca---taaactcataagaaattaaaacataacaatcctgacattactttt--------cagTGGATGCTTCAAATTCCTGGTGCATCAAGTTACATTGGTTGCATCGGGAAGGATAAGTTTGGTGAGGAGATGAAAAAAAATGCACAAGCTGCTGGTATTA
upper sequence: GLYMA03G33910.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G540538_T02 (Zea mays), 3'ss of exon 4
-gtatgcatctaccttgttagtaatactctgaatctgtag------------tagctttg--gtcaaagcaatttaccctttac-ttttgcttcttgtagTGGATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAA
| | | | || ||| |||| || || || | || || || | | |||||| | || | | | || |||||||||| ||| |||||||||||||||||||||||| |||| |||||||| |||||||| || || |||||||| ||| | ||| || || |
tatccacggcgagctctttatcaatattccactccttcaggtccctcttcactgcctctgtagttacatcaatttgttgatgacatgtcattgttttcagTGGATGCTTCAAACTCCTGGTGCAACAAGTTACATGGGATGCATTGGAAAGGACAAGTTTGGTGAGGAAATGAAGAAAAACGCTCAAGCTGCAGGAGTTA
upper sequence: GLYMA03G33910.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G135132_T01 (Zea mays), 3'ss of exon 4
----------------gtatgcatctaccttgttagtaatactctgaatctgtagtagctttggtcaaagcaatttaccctttacttttgctt-cttgtagTGGATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAA
| || | | || ||| || |||| | | || | || | | || ||| | | | ||| || |||||||||| ||| |||||||||||||||||||||||| |||| || ||||| |||||||| || ||||||||||| || | ||| || || |
aaactgcatcatcgaaacaggccttttataatctactaa-accgtgaacaaccaaaaactgtagttacatcagtttgatgacggcatgtccttgttttcagTGGATGCTTCAAACTCCTGGTGCAACAAGTTACATGGGATGCATTGGGAAGGACAAGTTTGGTGAGGAGATGAAGAAAAATGCTCAAGCTGCAGGAGTTA
upper sequence: GLYMA03G33910.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0019g04470.t01 (Vitis vinifera), 3'ss of exon 4
----------------gtat-gcatctaccttgttagta-atactctgaatctgtagtagctttggtcaaagcaatttaccctttacttttgcttcttgtagTGGATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAA
||| | || ||| | || ||| | | | | | || || | || || || | | || | ||| |||||||||| ||| | ||||| |||||||| || ||||| |||| |||||||| ||||||||||| || |||||||| ||||||| ||||||||||| |
gtacataaaatatttactattgagcttagctttccgctgtattttctaattaagaaattgcattcattttctcaccttgccttgtg----tgtgttttgcagTGGATGCTTCAAATCCCTGGAGCAACAAGCTATATGGGATGCATTGGAAAGGACAAGTTTGGGGAGGAAATGAAGAAAAACTCAAAACTTGCTGGTGTTA
upper sequence: GLYMA03G33910.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0019g04480.t01 (Vitis vinifera), 3'ss of exon 4
gtatgcatctaccttgttagtaa---tactctgaatctgtagtagct--ttggtcaaagcaatttaccctttacttttgcttc---------ttgtagTGGATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAA
||| | || || | | || | ||||||| | || || || ||| | | | |||| | ||| |||||||||| ||| | ||||| |||||||| || ||||| |||| |||||||| ||||||||||| || |||||||| ||||||| ||||||||||| |
gtacataaaatatttactattgagcttagctttcatctgtattttctaattaagaaatttcattcattttctcaccttgccttgtgtgtgttttgcagTGGATGCTTCAAATCCCTGGAGCAACAAGCTATATGGGATGCATTGGAAAGGACAAGTTTGGGGAGGAAATGAAGAAAAACTCAAAACTTGCTGGTGTTAMapped 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|26058788|gb|CA801702.1|CA801702EST: GTGCCACTCAGAATTCAATCAAGGTTGCTCAA TGGATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGAATAGGAAAG
genomic: GTGCCACTCAGAATTCAATCAAGGTTGCTCAAgtatgcatct ... cttcttgtagTGGATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatctgtagtagctttggtcaaagcaatttaccctttacttttgcttcttgtagTGGATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAA
tttaccctttactttt CT-rich tract
tttactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcatctaccttgttagtaatactctgaatctgtagtagctttggtcaaagcaatttaccctttacttttgcttcttgtagTGGATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC