Sequence
atgc intronic sequence ATGC exonic sequencegtaagaagcaggtaatgtaattttgctactaatttttgagtcatttgcttccatttacttaatgaaaagattgttggatagTGGTTGAACAAGTGACCGGAAGAGATCACGTGCTCAATCATTTAAGCATACCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACAGA
Basic information
species | Glycine max |
transcript | GLYMA15G15310.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G15310.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 10
-----gtaagaagcaggt--aatgtaattttgctac-taatttttgagtcatttgct-tccatttacttaatgaaaagattgttgga-----tagTGGTTGAACAAGTGACCGGAAGAGATCACGTGCTCAATCATTTAAGCATACCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACAGA
| || | | | || | || || | | | | || || | | || | | || | | | | || |||| || |||||| | | || || || ||| | || |||||||||||||| || |||||||| ||||||||||| || || || |||||||| | |||||
gtacattgcaaatctgtttagatttcatcttcttctatcgctcctatgttgcttatcgtatagttgcctgataagtaattcctatgaaaatgtagTTGTCGAACAAATCTCTGGGAGGGACCACATCCTAAATCATTTAAGCATCCCCGCTGCTTGCTTCACTCATCCAGAGATTAGTATGGTTGGGCTTACAGA
upper sequence: GLYMA15G15310.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G145595_T01 (Zea mays), 3'ss of exon 10
gtaagaagca-ggtaatgtaattttgctactaatttttga-gtcatttgcttccat--ttacttaatgaaaagattgttgga---tagTGGTTGAACAAGTGACCGGAAGAGATCACGTGCTCAATCATTTAAGCATACCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACAGA
|||| | | | | || | || || | || | | || | ||| | ||| | | || || |||| || || ||| | | || || || || | | ||||| ||||||| |||||||||||||||||||| ||||| ||||| |||||||| ||||||||
gtaaatgttgtgctcacctgtttcttttatccatgctcgatgctgatcactatagttcttatacgagcaaatgttggtctgaatatagTTGTGGAGCAAATCAGTGGGAGGGACAACATTTTAAATCACCTAAGCATCCCAGCTGCTTGTTTCACTCACCCTGAGATCAGTATGGTTGGCTTGACAGA
upper sequence: GLYMA15G15310.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
gtaagaagcaggtaatgtaattttgctactaatttttgagtcat--ttgct--tccatttacttaatgaaaagat--tgttgga---tagTGGTTGAACAAGTGACCGGAAGAGATCACGTGCTCAATCATTTAAGCATACCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACAGA
| | | | | |||| | || ||| ||| || | | | || | ||| | | | || | |||| ||||||||| | | |||| |||||| | || |||||||||||||| ||||| || |||||||| ||||| || || || |||||||||||||||||
----gtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
upper sequence: GLYMA15G15310.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 3'ss of exon 10
-------------------------gtaagaagcaggtaa--tgtaattttgctactaatttttgagtc------atttgcttccattta-cttaatgaaaagatt---gttggatagTGGTTGAACAAGTGACCGGAAGAGATCACGTGCTCAATCATTTAAGCATACCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACAGA
| | ||| | | | |||| || | ||| | ||| | | ||| | || ||| | | | ||||| ||||||| || ||||| || || |||||||| ||||| |||||| | ||||| |||||||||||||| |||||||||||||| || ||||| |||||||||||
gtaaatggttttatcaatatttcactccaaatgcatctttcttttgtttttccttttctacactgaatacgttagattgacctttattaaactctatgcatctacttgtgttggctagTGGTGGAGCAAGTCACAGGTAGAGATCATGTGCTTAATCATCTTAGCATCCCAGCTGCTTGTTTTACTCATCCTGAAATAAGTATGGTGGGATTGACAGA
upper sequence: GLYMA15G15310.1 (Glycine max), 3'ss of exon 10
lower sequence: AT3G16950.2 (Arabidopsis thaliana), 3'ss of exon 10
---------------gtaagaagcaggtaatgtaattttgctactaatttttgagtcatttgcttccatttacttaatgaaaagattgt------tggatagTGGTTGAACAAGTGACCGGAAGAGATCACGTGCTCAATCATTTAAGCATACCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACAGA
||| || || ||| | || | || || | | || | || | || || | | ||| ||||||| || ||||| | ||| |||||||| ||||| |||||| | ||||| ||||||||||| || ||||||||||||||||||||||| ||||| |||||
gtaaatggcttatcagtaggaggctactaacaatgcaataatattttcccttttttcttcttgagccttgtattaaactctgagctcttactctgtggctagTGGTCGAGCAAGTCAGCGGCAGAGATCATGTGCTTAATCATCTTAGCATCCCAGCTGCTTGCTTTACTCATCCTGAAATCAGCATGGTGGGATTAACAGA
upper sequence: GLYMA15G15310.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S352_68V6.1 (Physcomitrella patens), 3'ss of exon 10
-----------------------------------------------------------------------------------gtaagaagcaggtaatgtaattttgctactaatttttgagtcattt-gcttccatttacttaatga---aaaga--ttgttggatagTGGTTGAACAAGTGACCGGAAGAGATCACGTGCTCAATCATTTAAGCATACCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACAGA
| | | | | | | ||| |||| | |||| || | | |||| || || || || || | ||| |||| || | | || ||||| | || || |||||| ||| | ||||| ||||||||||| || ||||||||||||||||||||| | || ||
gtatgtcaattggctctaagacaaataaatgaagtatttatttatatatttattgatttttatcctcaatgctccaatgcttcaaagctattcgatggttccacgcaattgataaattttatgatattttagtttgaagtccttaccgagttaatgactttcttttacagTCATTGAGCAGATTGCTGGGCGAGATAATGTTCTGAATCATAACAGCGTTCCAGCAGCTTGTTTCACACACCCTGAAATCAGCATGGTTGGACTTACTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactaatttttgagtcatttgcttccatttacttaatgaaaagattgttggatagTGGTTGAACAAGTGACCGGAAGAGATCACGTGCTCAATCATTTAAGCATACCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACAGA
atttacttaatgaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaagcaggtaatgtaattttgctactaatttttgagtcatttgcttccatttacttaatgaaaagattgttggatagTGGTTGAACAAGTGACCGGAAGAGATCACGTGCTCAATCATTTAAGCATACCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT