Sequence
atgc intronic sequence ATGC exonic sequencegtaagctcttctgctttctctcattttggtggtgttattggatgcttaatgctgaaattctgtagcattagagcgtgctgagttgccgtcatgattcatttgtaatttaaatttattcagttttataggataaaaatttagtggtatttttattggtggttttgcagCAATACATGGATTCCGAAATTAGAGCAATCATGGCGCAATATATGCCCTTGGACAGCCAAGCAGAAGTTCCAAATCATGTCAATGATCAAAGAGCATGAA
Basic information
species | Glycine max |
transcript | GLYMA11G00370.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G00370.1 (Glycine max), 3'ss of exon 11
lower sequence: AT2G14740.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaagctcttctgctttctctcattttggtggtgttattggatgcttaatgctgaaattctgtagcattagagcgtgctgagttgccgtcatgattcatttgtaatttaaatttattcagttttataggataaaaatttagtggtatttttattggtggttttgcagCAATACATGGATTCCGAAATTAGAGCAATCATGGCGCAATATATGCCCTTGGACAGCCAAGCAGAAGTTCCAAATCATGTCAATGATCAAAGAGCATGAA
| | |||| | ||||| || || || ||| | | | | | || ||| | | | ||| || ||| | | | ||||||| |||||||||||||| || || || ||||| || ||||| || || ||||| |||||||||||| | || | || || || || |||||| || | || |||
---------------------------------------gtaagcttttttaatctcttctgctcttttgttttctgttgtgttaatagcgaagattaatcttgtatttgccatatccgttacttggggaaaattgttttaacattcctatgcccctggttttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCATTGGACAGCCAACCCGAGATCCCGAACCACGTGAATGATGAACGCGCCTGAG
upper sequence: GLYMA11G00370.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv03s0091g00740.t01 (Vitis vinifera), 3'ss of exon 11
gtaagctcttctgctttctctcattttggtggtgttattggatgcttaatgctgaaattctgtagcattagagcgtgctgagttgccgtcatgattcatttgtaatttaaatttattcagttttataggataaaaatttagtggtatttttattggtggttttgcagCAATACATGGATTCCGAAATTAGAGCAATCATGGCGCAATATATGCCCTTGGACAGCCAAGCAGAAGTTCCAAATCATGTCAATGATCAAAGAGCATGAA
| || | | | |||| | ||| || ||| | || || | | | |||| | || || ||| || | || |||| ||| ||||||||| || || || ||||| || ||||| ||||| |||||| ||||||||||| | ||||| |||||||||||| ||| | |||||||
---------------------------------------------------------------aatgttttaatgagttgagaaattgcaatgtaaggttgacaatatttgttggttttgcacttttggattattgattgatg----tttcatggttgctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA
upper sequence: GLYMA11G00370.1 (Glycine max), 3'ss of exon 11
lower sequence: EFJ31111 (Selaginella moellendorffii), 3'ss of exon 10
gtaagctcttctgctttctctcattttggtggtgttattggatgcttaatgctgaaattctgtagcattagagcgtgctgagttgccgtcatgattcatttgtaatttaaatttattcagttttataggataaaaatttagtggtatttttattggtggttttgcagCAATACATGGATTCCGAAATTAGAGCAATCATGGCGCAATATATGCCCTTGGACAGCCAAGCAGAAGTTCCAAATCATGTCAATGATCAAAGAGCATGAA
||| | | | | | || | | | ||| || || | | |||| | |||| || |||||||| || |||||||| ||||||||||| || ||||| |||||||||| ||||| | || || | || || |||
-----------------------------------------------------------------------------------------------------gtacgtgatctctctggcattcattccggttggtattgagctgtgtggctgctggt----tggcagTCTTATATGGATTCGGAGATTAGAGCGATCATGGCGCAGTACATGCCTCTGGACAGCCAGAACGAAGTCCACCGCCACCTCGAGGAGGAAGCGTAGTGAT
upper sequence: GLYMA11G00370.1 (Glycine max), 3'ss of exon 11
lower sequence: EFJ06539 (Selaginella moellendorffii), 3'ss of exon 10
gtaagctcttctgctttctctcattttggtggtgttattggatgcttaatgctgaaattctgtagcattagagcgtgctgagttgccgtcatgattcatttgtaatttaaatttattcagttttataggataaaaatttagtggtatttttattggtggttttgcagCAATACATGGATTCCGAAATTAGAGCAATCATGGCGCAATATATGCCCTTGGACAGCCAAGCAGAAGTTCCAAATCATGTCAATGATCAAAGAGCATGAA
||| | | | | | || | | | ||| || || | | |||| | |||| || |||||||| || |||||||| ||||||||||| || ||||| |||||||||| ||||| | ||| || | || || |||
-----------------------------------------------------------------------------------------------------gtacgtgatctctctggcattcattccggttggtattgagctgtgtggctgctggt----tggcagTCTTATATGGATTCGGAGATTAGAGCGATCATGGCGCAGTACATGCCTCTGGACAGCCAGAACGAAGTCCACCGCCATCTCGAGGAGGAAGCGTAGTGATMapped 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|208165486|gb|GD960716.1|GD960716EST: TAGTTATGATTGCTGGTGGGGCATTCCTTGTGTACAAGTACAGAATAAGG CAATACATGGATTCCGAAATTAGAGCAATCATGGCGCAATATATGCCCTTG
genomic: TAGTTATGATTGCTGGTGGGGCATTCCTTGTGTACAAGTACAGAATAAGGgtaagctctt ... ggttttgcagCAATACATGGATTCCGAAATTAGAGCAATCATGGCGCAATATATGCCCTTG
EST:
gi|207778924|gb|GD753407.1|GD753407EST: TAGTTATGATTGCTGGTGGGGCNTTCCTTGTGTACAAGTACAGAATAAGG CAATACATGGATTCCGAAATTAGAGCAATCATGGCGCGATATATGCCCTTG
genomic: TAGTTATGATTGCTGGTGGGGCATTCCTTGTGTACAAGTACAGAATAAGGgtaagctctt ... ggttttgcagCAATACATGGATTCCGAAATTAGAGCAATCATGGCGCAATATATGCCCTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattcagttttataggataaaaatttagtggtatttttattggtggttttgcagCAATACATGGATTCCGAAATTAGAGCAATCATGGCGCAATATATGCCCTTGGACAGCCAAGCAGAAGTTCCAAATCATGTCAATGATCAAAGAGCATGAA
ttttataggataaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctcttctgctttctctcattttggtggtgttattggatgcttaatgctgaaattctgtagcattagagcgtgctgagttgccgtcatgattcatttgtaatttaaatttattcagttttataggataaaaatttagtggtatttttattggtggttttgcagCAATACATGGATTCCGAAATTAGAGCAATCATGGCGCAATATATGCCCTTGGACAGCCAAGCAGAAGTTCCAAATCATGTCAATGATCAAAGAGCATGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA