Sequence
atgc intronic sequence ATGC exonic sequencegtaagaccatctttactgagttgaattattgtggcaaaggttacagttgatgcttaatttgaactgtttttcctaatggttttgacttgctacagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
Basic information
species | Glycine max |
transcript | GLYMA15G10370.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 6
gtaagaccatctttactgagttgaattattgtggcaaaggttacagttgatgcttaat-ttgaactgtttttcctaatggttttgacttgctacagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
| |||||| || | | | ||| | | || ||| |||| | | || || | | |||| ||||| || || | | ||| | || || |||||||| |||||||| |||||||||||||||||||| || || || | || || || |
-----gttag-tttacttagcctccgctctccaaccattcttatgaacaacttctgatgttgtactgaacattttgc--attctgtttggt--cagAACCATATAAGGGAGAACCTATTGCAGCCAGGAAAATTTGATGTGTGTGTCACTAGTTTTGAAATGGCAATCAAAGAAAAAACTACACTGAAGCGTTTCA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 6
gtaagaccatctttactgagttgaattattgtggcaaaggttacagttgatgcttaatttgaactgt-ttttcctaatggttttgacttgcta---cagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
||| || | | || || ||| | || || | || |||| |||| | | || |||| |||||| | || | ||||| || | ||||||||||| || ||||| || ||||||||||||||||| || || || |||| ||| || || |
---------------------gtaatccccatgttatctctgtca-ttcatgtgaacttcttgtggtatattgctaacatatttgtcatacttggtcagAACCATATCCGGGAAAATTTGTTAGTCCCAGGGAAGTTTGACGTCTGTGTTACTAGTTTTGAAATGGCAATTAAAGAAAAAACTGCATTGAAGCGTTTCA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 3
gtaagaccatctttactgagttgaattattgtggcaaaggttacagttgatgcttaatttgaactgtttttcctaatggttttgacttgctacagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
| ||| ||| | || | | | | || | | || || || ||| |||| || | || | || |||| ||||| || || | ||| || | ||||| |||||||| ||||| || |||||||||||||||||||| || || ||||| ||| | || || |
----gttagtctcaact---ctaaagtctaatctctaatgactta--tggagcctatattgccatgtta---ctgacc-ttctcttctgtgtcagAACCATATAAGGGACAATTTGCTGCAACCTGGGAAATTTGATGTGTGTGTGACTAGTTTTGAAATGGCAATCAAAGAAAAATCTGCGTTGAGGCGCTTCA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaagaccatctttactgagttgaattattgtggcaaaggttacagttgatgcttaatttgaactgtttttcctaatggttttgacttgctacagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
| | |||| || | | || | || || | | ||| | || |||| | | || | ||||||||||| |||| || || | ||||| ||||| |||||| ||||||||||||| ||||| ||||| ||||| |||||| | || | ||||| ||||
--------gtaagtcatgagctgt-ctgccatttcagaatttcatgtaaacgtttatccca----ggattctgaaatgtctgctaactgatgcagAGACATATTCGAGAAGACCTGCTAGTTGCTGGGAAATTTGATATTTGTGTCACAAGCTTTGAGATGGCCATCAAAGAGAAGACAGCACTTCGTCGGTTTA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ06565 (Selaginella moellendorffii), 3'ss of exon 6
gtaagaccatctttactgagttgaattattgtggcaaaggttacagttgatgcttaatttgaactgtttttcctaatggttttgacttgctacagAGACATATCAGAG--ATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
| || | | | | ||| ||| |||| ||| | | | | | ||||| || || | || || || | | | ||||| || ||||| ||||||||||| ||||| |||||||||||||| || || | | | || || ||| |
---------------------------------gtaataataaaactcgat--ttattttgttttgtgcgctcaacagctgtctacttgtattgcagGCACAACAAAGGGATTATCAGCTTGTTGCTGGCAAGTTCGATGTTTGTGTAACAAGCTTTGAAATGGCAATAAAAGAAAGGGCGGCCTTAAAGAAATTCA
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ31365 (Selaginella moellendorffii), 3'ss of exon 6
gtaagaccatctttactgagttgaattattgtggcaaaggttacagttgatgcttaatttgaactgtttttcctaatggttttgacttgctacagAGACATATCAGAG--ATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
| || | | | | ||| ||| |||| ||| | | | | | ||||| || || | || || || | | | ||||| || ||||| ||||||||||| ||||| |||||||||||||| || || | | | || ||| ||| |
---------------------------------gtaataataaaactcgat--ttattttgttttgtgcgctcaacagttgtctacttgtattgcagGCACAACAAAGGGATTATCAGCTTGTTGCTGGCAAGTTCGATGTTTGTGTAACAAGCTTTGAAATGGCAATAAAAGAAAGGGCGGCCTTGAAGAAATTCAMapped 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|193658187|gb|FK602928.1|FK602928EST: AAGTTTCTTGGCAACCCCGATGAAAGG AGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTC
genomic: AAGTTTCTTGGCAACCCCGATGAAAGGgtaagaccat ... cttgctacagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTC
EST:
gi|193657786|gb|FK607245.1|FK607245EST: AAGTTTCTTGGCAACCCCGATGAAAGG AGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTC
genomic: AAGTTTCTTGGCAACCCCGATGAAAGGgtaagaccat ... cttgctacagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacagttgatgcttaatttgaactgtttttcctaatggttttgacttgctacagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
ttaatttgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaccatctttactgagttgaattattgtggcaaaggttacagttgatgcttaatttgaactgtttttcctaatggttttgacttgctacagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT