Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttaaaatgcactcttcagcagtgatgagttccttttgtgagcatgtgttttaaatatgtgattgtactttgtgaaaggatgcctcattgcctcttatttcaactgtataaagcccatgtgaattattcaatatattactctgaatatcctttatttgtcaacatgcagGATTATTATTCTGTCCTTGGGGTTTCAAGAAATGCTAGTAAATCTGAAATTAAGAGTG
Basic information
species | Glycine max |
transcript | GLYMA08G14290.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G14290.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g26914.2 (Oryza sativa), 3'ss of exon 3
gtaagtttaaaatgcactcttcagcagtgatgagttccttttgtgagcatgtgttttaaatatgtgattgtactttgtgaaaggatgcctcattgcctcttatttcaactgtataaagcccatgtgaattattcaatatattactctgaatatcctttatttgtcaacatgcagGATTATTATTCTGTCCTTGGGGTTTCAAGAAATGCTAGTAAATCTGAAATTAAGAGTG
| | | ||||| || || || || | || ||| || || | | | || || || || | | || | ||||||| ||||| ||||| ||||||||||||||||||||||||||||| |||||||
-------------------------------------------------------------------------------gtgagttacttcatttgcttttctt----ctttgctggtattattagaaa-atccagtttcctgacatggat----ttgatattttaatttacagGATTTCTATTCCACACTTGGTGTTTCAAGAAATGCTAGTAAATCTGAAATCAAGAGTG
upper sequence: GLYMA08G14290.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G091811_T01 (Zea mays), 3'ss of exon 3
gtaagtttaaaatgcactcttcagcagtgatgagttccttttgtgagcatgtgttttaaatatgtgattgtactttgtgaaaggatgcctcattgcctcttatttcaactgtataaagcccatgtgaattattcaatatattactctgaatatcctttatttgtcaacatgcagGATTATTATTCTGTCCTTGGGGTTTCAAGAAATGCTAGTAAATCTGAAATTAAGAGTG
|||| | | | | || | ||| | || | | | | ||| | | ||||| || |||| | |||| ||||||| ||| || ||||| || |||||||||||||||||||||||||| ||||| |
----------------------------------------------------------------------------gtgagctattcttttgt--cttcctgttttgcttacattattgcttcaaaatgtcttccgt-tcttacttgga------tttaaatatcaaatgacagGATTTCTATAACGTACTTGGTGTCTCAAGAAATGCTAGTAAATCTGAAATCAAGAGCG
upper sequence: GLYMA08G14290.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM5G856084_T01 (Zea mays), 3'ss of exon 3
gtaagtttaaaatgcactcttcagcagtgatgagttccttttgtgagcatgtgttttaaatatgtgattgtactttgtgaaaggatgcctcattgcctcttatttcaactgtataaagcccatgtgaattattcaatatattactctgaatatcctttatttgtcaacatgcagGATTATTATTCTGTCCTTGGGGTTTCAAGAAATGCTAGTAAATCTGAAATTAAGAGTG
|| ||| | | |||| || | | || || | | || | | ||||| | |||| | | || ||||||| ||| ||| ||||| || |||||||||||||||||||||||||| ||||| |
------------------------------------------------------------------------------------gtgagctattcttttgtctttctgctttgcttaatttat-tgcttcaaaatatcttccattctgatttgattttaaatcttaaatgacagGATTTCTATAGTGTACTTGGTGTCTCAAGAAATGCTAGTAAATCTGAAATCAAGAGCG
upper sequence: GLYMA08G14290.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 3
------gtaagtttaaaatgcactcttcagcagtgatga-gttccttttgtgagcatgtgttttaaatatgtga--ttgtactttgtgaaaggatgcctcattgcctcttatttcaactgtataaagcccatgtgaattattcaatatattactctgaatat----cctttatttgtcaacatgcagGATTATTATTCTGTCCTTGGGGTTTCAAGAAATGCTAGTAAATCTGAAATTAAGAGTG
|| | | || || ||||| | |||| | || | | |||| ||| | |||| | | | | || ||| | || | | | | | || ||| | | | || | | || | | | | || | ||||||||||| |||||||| ||||| || || | ||||||||| |||||||||||||| || |
gtgagtacaatgctttagtgtttctttgcttcatgatggcaatggggctgtgca-aggtctctgaaatctgttactttgtcgctctcgttattgttccaaattaatttttgctctg-cactctgcttgcaatactaatcaatggctgcataatccagattctggtactaacagtttttctcatgcagGATTTCTATTCTGTTCTTGGAGTGTCTAAAAATGCTAGCAAATCTGAAATTAAAAGCGMapped 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|207751079|gb|GD725298.1|GD725298EST: AAACTTTTAATCATCGCAAGGGATCAAGGTTAATTGTTAGAGCAAATGCT GATTATTATTCTGTCCTTGGGGTTTCAAGAAATGCTAGTAAATCTGAAATT
genomic: AAACTTTTAATCATCGCAAGGGATCAAGGTTAATTGTTAGAGCAAATGCTgtaagtttaa ... caacatgcagGATTATTATTCTGTCCTTGGGGTTTCAAGAAATGCTAGTAAATCTGAAATT
EST:
gi|120532498|gb|EH260631.1|EH260631EST: AAACTTTTAATCATCGCAAGGGATCAAGGTTAATTGTTAGAGCAAATGCT GATTATTATTCTGTCCTTGGGGTTTCAAGAAATGCTAGTAAATCTGAAATT
genomic: AAACTTTTAATCATCGCAAGGGATCAAGGTTAATTGTTAGAGCAAATGCTgtaagtttaa ... caacatgcagGATTATTATTCTGTCCTTGGGGTTTCAAGAAATGCTAGTAAATCTGAAATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccatgtgaattattcaatatattactctgaatatcctttatttgtcaacatgcagGATTATTATTCTGTCCTTGGGGTTTCAAGAAATGCTAGTAAATCTGAAATTAAGAGTG
aattattcaatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttaaaatgcactcttcagcagtgatgagttccttttgtgagcatgtgttttaaatatgtgattgtactttgtgaaaggatgcctcattgcctcttatttcaactgtataaagcccatgtgaattattcaatatattactctgaatatcctttatttgtcaacatgcagGATTATTATTCTGTCCTTGGGGTTTCAAGAAATGCTAGTAAATCTGAAATTAAGAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA