Sequence
atgc intronic sequence ATGC exonic sequenceTGGGGCCACTGAATATAGTGTAGGAGTGGATCTCTGGAGTGCTGGCTGCATTCTTGCTGAATTGTTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAGgtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtag
Basic information
species | Glycine max |
transcript | GLYMA15G10470.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G10470.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G873277_T01 (Zea mays), 5'ss of exon 3
TGGGGCCACTGAATATAGTGTAGGAGTGGATCTCTGGAGTGCTGGCTGCATTCTTGCTGAATTGTTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAGgtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtag
|| || || || ||| | || || || || | |||||||| || || || || ||||||||| ||||||||||||||||||||||||| || || ||||| | ||| | || | | | | ||| | || | || | || ||| ||| ||| | | | ||| || |||| ||| ||| | |
GGGTGCGACGGATTATGGAGTTGGCGTAGACTTGTGGAGTGCAGGATGTATACTGGCTGAATTGCTGGCTGGAAAGCCTATTATGCCTGGACGGACTGAGgttagctaca--gaatgcttgaccgttgcatcatattc---tccctgaaataccatctggctat-cagc--acttgcc----atttaaggttctgtttaccaaggctgcgaa-------------------------------------------------------------------------
upper sequence: GLYMA15G10470.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G156251_T01 (Zea mays), 5'ss of exon 3
TGGGGCCACTGAATATAGTGTAGGAGTGGATCTCTGGAGTGCTGGCTGCATTCTTGCTGAATTGTTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAGgtaatctatgatggatacatta-tatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtag
||| |||||||| ||||||||||| || ||| | ||||||||||| ||||||||||| || | || ||||||||| || |||||||| || || ||||| | ||| || | | |||| | || |||| || | || | | || | | || | | || | |||
TGGTGCCACTGAGTATAGTGTAGGTGTTGATTTGTGGAGTGCTGGATGCATTCTTGCAGAGCTCCTGTATGGAAAGCCCATAATGCCTGGGCGCACTGAGgtgagtcttgaacatggggttgctctgtactctaccatattattttttcag--taatccttggggctatgctgttaatatcagaactatggttaaatcttcc------------------------------------------------------------------------------------
upper sequence: GLYMA15G10470.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G333433_T01 (Zea mays), 5'ss of exon 3
TGGGGCCACTGAATATAGTGTAGGAGTGGATCTCTGGAGTGCTGGCTGCATTCTTGCTGAATTGTTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAGgtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtag
|| || || || ||| | || || || || | ||||| || || || || || ||||||||| ||||||||||||| ||||||||||| || || ||||| | |||| | | | ||| ||| | | || | | | ||| || | |||| |||||| | | | || ||||| | || || ||
GGGTGCGACAGATTATGGAGTTGGCGTCGACTTGTGGAGCGCAGGATGTATACTAGCTGAATTGCTGGCTGGAAAGCCCATTATGCCTGGACGGACTGAGgttagctatatattgtctctgaaataccatct-tgctatcagcactc---gccatt-tgaggattctgtttacca----aggctgtggaatttttgttaccgggggatc----------------------------------------------------------------------------
upper sequence: GLYMA15G10470.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv05s0020g01890.t01 (Vitis vinifera), 5'ss of exon 3
TGGGGCCACTGAATATAGTGTAGGAGTGGATCTCTGGAGTGCTGGCTGCATTCTTGCTGAATTGTTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAGgtaatct--atgatggatacattatatagggtctatagttgcat----cttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtag
||||||||| |||||| ||||||| ||||| ||||||||||||||||||||||| ||||| || ||||| || |||||||| ||||||||||| || ||||||| | | || ||| | | || | | | |||| | |||||| |||| || || | |||| || ||||| | |||
TGGGGCCACCGAATATGGTGTAGGTGTGGACCTCTGGAGTGCTGGCTGCATTCTAGCTGAGTTATTGGCCGGGAAGCCTATCATGCCTGGTCGCACCGAGgtaacttcaacaatatatatttaaaatgagttgttccattgctttgaacttttagttgcattatttgggct--gtttgttatggcgaggtggttattcttgc-----------------------------------------------------------------------------------------
upper sequence: GLYMA15G10470.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ28510 (Selaginella moellendorffii), 5'ss of exon 3
TGGGGCCACTGAATATAGTGTAGGAGTGGATCTCTGGAGTGCTGGCTGCATTCTTGCTGAATTGTTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAGgtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtag
||| || || || ||| | | | || || || ||||| | |||||||||||||| ||| || | || || ||||| || ||||||||||| |||||||||| | | | | | || | | | | ||| || || | |
TGGAGCAACGGAGTATGGGGCTGCTGTTGACCTTTGGAGCACCGGCTGCATTCTTGCCGAACTGCTTGCGGGCAAGCCGATAATGCCTGGTCGTACAGAGgtaaaagaaaacgttttaa--atttcgattgctaacttgaatgcattcacag-------------------------------------------------------------------------------------------------------------------------------------
upper sequence: GLYMA15G10470.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ30402 (Selaginella moellendorffii), 5'ss of exon 3
TGGGGCCACTGAATATAGTGTAGGAGTGGATCTCTGGAGTGCTGGCTGCATTCTTGCTGAATTGTTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAGgtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtag
|||||| || || ||| | | | || || || ||||| | |||||||||||||| ||| || | || || ||||| || ||||||||||| |||||||||| | | | | | || | | | | ||| || || | |
TGGGGCAACGGAGTATGGGGCTGCTGTTGACCTTTGGAGCACCGGCTGCATTCTTGCCGAACTGCTTGCGGGCAAGCCGATAATGCCTGGTCGTACAGAGgtaaaagaaaacgttttaa--atttcgattgctaacttgaatgcattcacag-------------------------------------------------------------------------------------------------------------------------------------
upper sequence: GLYMA15G10470.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ24328 (Selaginella moellendorffii), 5'ss of exon 4
TGGGGCCACTGAATATAGTGTAGGAGTGGATCTCTGGAGTGCTGGCTGCATTCTTGCTGAATTGTTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAGgtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtag
||| || |||||||||||||| ||||||| || || |||||||| ||||||| ||||| || |||||||| ||||| || ||| || | | ||| || || || || | || | || || |||
------------------TGTTGGGGTGGATCTCTGGAGCACTGGCTGTATACTAGCTGAATTACTGGCTGGCAAGCCCATCATGCCTGGGCGAACGGAAgtatgctccttggtttttattttacgatgtttagtaacgcctgccttt----cttattgatcgaacag---------------------------------------------------------------------------------------------------------------------
upper sequence: GLYMA15G10470.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ35595 (Selaginella moellendorffii), 5'ss of exon 2
TGGGGCCACTGAATATAGTGTAGGAGTGGATCTCTGGAGTGCTGGCTGCATTCTTGCTGAATTGTTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAGgtaatctatgatggatacattatatagggtctatagttgcatct-tttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtag
|| || || ||||| ||||| || |||||||||||||| ||||||| || || |||||||| ||||||| ||||| || |||||||| ||||| || ||| || | | | | | || | | | |||| | || | | || || |||
CGGTGCTACAGAATACAGTGTTGGGGTGGATCTCTGGAGCACTGGCTGTATACTAGCTGAATTACTGGCTGGCAAGCCCATCATGCCTGGGCGAACGGAAgtatgctc--gttggtttttgttttacgatgtttagtaacgcctgcctttcttcttattgatcgaacag---------------------------------------------------------------------------------------------------------------------Mapped 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|19270486|gb|BM886742.1|BM886742EST: TTCTTGCTGAATTGTTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAG GTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAA
genomic: TTCTTGCTGAATTGTTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAGgtaatctatg ... tgtgttgtagGTGGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGATGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGGGCCACTGAATATAGTGTAGGAGTGGATCTCTGGAGTGCTGGCTGCATTCTTGCTGAATTGTTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAGgtaatctatgatggatacattatatagggtctatagttgcatcttttaagggcataatgtgtattcagtttactagtctaaggtgcaagattttgttgtccatggcctctcaattttctgctacttgattgtgaaatttgtgctttggattttacttctataattagcatccttatgtgttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA