Sequence
atgc intronic sequence ATGC exonic sequenceGTACCCCGATGGGCGAGTTTGCATATCAATTCTTCATCCACCCGGTGATGACCCAAATGGTTATGAGCTTGCAAGTGAGCGCTGGACGCCTGTTCATACAgtatgtataaacataaaaccataaatttaattaatttatttattttaacaatgagagctctgccttttgttagggtgtgtgtttggataaacttttccat...
Basic information
species | Glycine max |
transcript | GLYMA15G04470.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G04470.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g62244.3 (Oryza sativa), 5'ss of exon 2
GTACCCCGATGGGCGAGTTTGCATATCAATTCTTCATCCACCCGGTGATGACCCAAATGGTTATGAGCTTGCAAGTGAGCGCTGGACGCCTGTTCATACAgtatgtataaacataaaaccataaatttaattaatttatttattttaacaatgagagctctgcc--ttttgttagggtgtgtgtttggataaacttttccat--
|| || ||||| || || ||||| || ||||||||||| || |||||||| || ||||||||||||||||| |||||||| ||||| || || ||||| ||| | || || | || || ||||| || ||| || | | || | || || | || ||| | || | | |
TTATCCGGATGGACGTGTATGCATTTCTATTCTTCATCCGCCTGGTGATGATCCCAATGGTTATGAGCTTGCGAGTGAGCGTTGGACACCAGTGCATACGgtacgaat---tatggtgtctatgatgcaagcaatttcttccctttt-cattctgttctgcactagttccattttgttgacaacttgacatatattctgcgtgg
upper sequence: GLYMA15G04470.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os05g38550.2 (Oryza sativa), 5'ss of exon 4
GTACCCCGATGGGCGAGTTTGCATATCAATTCTTCATCCACCCGGTGATGACCCAAATGGTTATGAGCTTGCAAGTGAGCGCTGGACGCCTGTTCATACAgtatgtataaacataaaaccataaatttaattaatttatttattttaacaatgagagctctgccttttgttagggtgtgtgtttggataaacttttccat---------
|| || |||||||| || ||||| || || ||||||||||| || || || || || |||||||||||||| || || || ||||| ||||| ||||||||| || || || | || || | ||| | ||| | | | | |||||| || ||| ||| ||| ||
TTATCCTGATGGGCGCGTATGCATTTCTATCCTTCATCCACCTGGCGAAGATCCCAACGGTTATGAGCTTGCGAGCGAACGGTGGACACCTGTGCATACAgtaggttcttttttacaa---tgcatacaagtgtttttctctctttgttcgttggcacag-gtgttttgtccaa-----cattcttatagactcttcaattcggtataa
upper sequence: GLYMA15G04470.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G085600_T03 (Zea mays), 5'ss of exon 4
GTACCCCGATGGGCGAGTTTGCATATCAATTCTTCATCCACCCGGTGATGACCCAAATGGTTATGAGCTTGCAAGTGAGCGCTGGACGCCTGTTCATACAgtatgtataaacataaaac-----cataaattta-----attaatttatttattttaacaatgagagctctgccttttgttagggtgtgtgtttggataaacttttccat
|| || |||||||| ||||| || || |||||||||||||| ||||| || ||||| ||||||||||| ||||||||||| ||||| ||||| || |||||||| | ||| | |||| ||| ||| | | || || || || || | || | ||| | | | |||||
CTATCCTGATGGGCGGGTTTGTATCTCTATTCTTCATCCACCTGGTGAAGATCCAAACGGTTATGAGCTCGCAAGTGAGCGATGGACACCTGTGCACACAgtatggcttcgtatactatgtttacatacctttttccccatttttatcttctgttctccactgtgaagccattattatattaccaaatttactgggatac----------
upper sequence: GLYMA15G04470.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G007300_T02 (Zea mays), 5'ss of exon 4
GTACCCCGATGGGCGAGTTTGCATATCAATTCTTCATCCACCCGGTGATGACCCAAATGGTTATGAGCTTGCAAGTGAGCGCTGGACGCCTGTTCATACAgtatgtataaacataaaaccataaatttaattaatttatttattttaacaatgagagctctgccttttgttagggtgtgtgtttggataaacttttccat--
|| | ||||||| || || || || |||||||||||||| ||||| || |||| |||||||||||| ||||||||||| ||||| ||||| ||||||||||| | | || ||| | || || ||| ||| | | ||| | || ||| | ||| ||| |
TTATTCAGATGGGCTGGTGTGTATCTCTATTCTTCATCCACCTGGTGAAGATCCAAGTGGTTATGAGCTCGCAAGTGAGCGTTGGACACCTGTGCATACAgtatggctt--tgatagactatatttatatacctttcttttccattattatcttatgttctctactgtgaagctcctgttgtattaccaaaatttactggga
upper sequence: GLYMA15G04470.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G007276_T01 (Zea mays), 5'ss of exon 3
GTACCCCGATGGGCGAGTTTGCATATCAATTCTTCATCCACCCGGTGATGACCCAAATGGTTATGAGCTTGCAAGTGAGCGCTGGACGCCTGTTCATACAgtatgtataaacata-aaaccataaatttaattaatttatttattttaacaatgagagctctgccttttgttagggtgtg-tgtttggataaacttttccat-
|| || |||||||| |||||||| || |||||||||||||| ||||| || || | |||||||||||||||||| || || ||||| || || || || || | | | | || | | | || || | | || | ||| | | | | |||| ||||| | | | | ||||| | |
TTATCCGGATGGGCGTGTTTGCATTTCTATTCTTCATCCACCTGGTGAAGATCCCAGTGGTTATGAGCTTGCAAGCGAACGGTGGACACCAGTGCACACGgtggggcttcttgttcagggcacataaatgtttgcttgctcttttc---ctatgtgggggtggtagtctgttggggtgagctaatactgtttactttaacttg
upper sequence: GLYMA15G04470.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G012052_T01 (Zea mays), 5'ss of exon 4
GTACCCCGATGGGCGAGTTTGCATATCAATTCTTCATCCACCCGGTGATGACCCAAATGGTTATGAGCTTGCAAGTGAGCGCTGGACGCCTGTTCATACAgtatgtataaacataaaaccataaatttaattaatttatttattttaacaatgagagctctgccttttgttagggtgtgtgtttg-gataaacttttccat--------
|| || ||||| || |||||||| || |||||||||||||| ||||| || || |||||||||||||||||||| || || ||||| || || || || || | | ||| | || | | ||| | | || | | ||||| | ||| | ||| ||||||| | || | | ||||| |
TTATCCTGATGGACGTGTTTGCATTTCTATTCTTCATCCACCTGGTGAAGATCCCAATGGTTATGAGCTTGCAAGCGAACGATGGACACCAGTGCACACGgtggggcttgtt-caaagctattact---atttactatttaactcatacaattat--tcttgcatactgt---ggtgtgtctgtgcgttggttttttctgtgtgaggcc
upper sequence: GLYMA15G04470.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv06s0004g04430.t01 (Vitis vinifera), 5'ss of exon 4
GTACCCCGATGGGCGAGTTTGCATATCAATTCTTCATCCACCCGGTGATGACCCAAATGGTTATGAGCTTGCAAGTGAGCGCTGGACGCCTGTTCATACAgtatgtataaacataaaaccataaatttaattaatttatttattttaacaatgagagctctgccttttgttagggt-gtgtgtttggataaacttttc-cat-
|| || ||||| ||||| |||||||||||||| ||||| || ||||| ||||||||||| ||||||||||||||||||||||||| ||| | ||||| ||| || | ||| | ||||| | || | || ||| ||| | || | |||| || | | | || || | | | ||
TTATCCAGATGGACGAGTATGCATATCAATTCTCCATCCTCCTGGTGAGGACCCAAATGGATATGAGCTTGCAAGTGAGCGCTGGATGCCAATCCATACGgta---attcatatagcatatcaaattcacttcacttctttgctttcatgatagagacgttgcccattaatgtaattgaatgcaaacatggaagtgccacact
upper sequence: GLYMA15G04470.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0019g00910.t01 (Vitis vinifera), 5'ss of exon 4
GTACCCCGATGGGCGAGTTTGCATATCAATTCTTCATCCACCCGGTGATGACCCAAATGGTTATGAGCTTGCAAGTGAGCGCTGGACGCCTGTTCATACAgtat-gtataaacataaaaccataaatttaattaatttatttattttaacaatgagagctctgccttttgttagggtgtgtgtt-tggataaacttttccat---
||||| |||||| ||||||||| ||||| ||||| || || ||||||||||||||||| || ||||| |||| || |||||| | || || ||||| |||| | |||||| | || ||| | ||| | || | | || | ||| ||||| | || | | || | | ||||
TTACCCTGATGGGAAAGTTTGCATTTCAATCCTTCACCCCCCTGGTGATGACCCAAATGGCTACGAGCTGGCAACAGAACGCTGGTCCCCAGTCCATACGgtattatctaaacacgtga--atcaatccttt---tttgcctccttcagcttagatatctccttacattgttcctttttgaggcatacatgatacatgccatatt
upper sequence: GLYMA15G04470.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S75_236V6.1 (Physcomitrella patens), 5'ss of exon 6
GTACCCCGATGGGCGAGTTTGCATATCAATTCTTCATCCACCCGGTGATGACCCAAATGGTTATGAGCTTGCAAGTGAGCGCTGGACGCCTGTTCATACAgtatgtataaacataaaaccataaatttaattaatttatt--tattttaacaatgagagctctgccttttgttagggtgtgtgtttgg-ataaacttttccat-------------------------------------
|| || ||||| || |||||||| |||||||| ||| | || |||||||| |||||||||||||| | || |||||||| ||| | || || ||||| || || | | || || | | || | || ||| | ||| | | | | | || |||| || | || | |
TTATCCTGATGGACGGGTTTGCATTTCAATTCTACATGCTCCTGGTGATGATCCAAATGGTTATGAATTGGCGAGTGAGCGTTGGTCTCCCGTGCATACTgtgagttatcaaagtgttttatttatcgagtaaaggtgttgctatgcaattcatgtgtgtttcatgcccactgtagatgcaaacttggtatctaattctaattgttagtgtccgactgatagttgtttgtgaaagtgcagMapped 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|254336753|gb|GR842932.1|GR842932EST: ACCCAAATGGTTATGAGCTTGCAAGTGAGCGCTGGACGCCTGTTCATACA GTAGAGAGTATAGTATTAAGTATCATATCGATGCTTTCTAGTCCTAATGAT
genomic: ACCCAAATGGTTATGAGCTTGCAAGTGAGCGCTGGACGCCTGTTCATACAgtatgtataa ... tgtcttgcagGTAGAGAGTATAGTATTAAGTATCATATCGATGCTTTCTAGTCCTAATGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTACCCCGATGGGCGAGTTTGCATATCAATTCTTCATCCACCCGGTGATGACCCAAATGGTTATGAGCTTGCAAGTGAGCGCTGGACGCCTGTTCATACAgtatgtataaacataaaaccataaatttaattaatttatttattttaacaatgagagctctgccttttgttagggtgtgtgtttggataaacttttccat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA