Sequence
atgc intronic sequence ATGC exonic sequencegtaaataatttgctcttctagaagttgtttatttttcctgtgttgatgtttgctccctgaattttttaaacttgtgaagctgattaattttttcttcttactgcagAAAAAATGCAATGTGGGCTATGCATTTATCAACATGCTGTCACCCTTTCTTATTATTCCATTCTATGAG
Basic information
species | Glycine max |
transcript | GLYMA09G11630.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G11630.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv10s0003g02670.t01 (Vitis vinifera), 3'ss of exon 10
gtaaataatttgctcttctagaagttgtttatttttcctgtgttgatgtttgctccctgaattttttaaacttg-tgaagctgat--taattttttcttcttactgcagAAAAAATGCAATGTGGGCTATGCATTTATCAACATGCTGTCACCCTTTCTTATTATTCCATTCTATGAG
| | || | ||| | | | | | || || ||| | | || | ||||| | ||| | | |||||||| ||||||||||||||||| ||||||||||| |||||||| || | | ||||| || |||||| ||
--------------------gtaattttcaattatgagcatttgagagaagtttttgcgatttctttgagttaaatgcaactgatgctcattcccattcgtggctgcagAATAAATGCAATGTGGGCTACGCATTTATCAATATGCTGTCTCCTTCGCACATTATCCCGTTCTATCAG
upper sequence: GLYMA09G11630.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ29695 (Selaginella moellendorffii), 3'ss of exon 7
gtaaataatttgctcttctagaagttgtttatttttcctgtgttgatgtttgctccctgaattttttaaacttgtgaagctgattaattttttcttcttactgcagAAAAAATGCAATGTGGGCTATGCATTTATCAACATGCTGTCACCCTTTCTTATTATTCCATTCTATGAG
|||| || | || | || || || ||| |||| | | | |||||| |||||||| || ||||||||||| ||||||||| || || || | || || || ||
------------------------------------------gtgattttaggcgagcaaaagtgtttccctggta---ttgaccggcttttgcctgt----gcagAATAAATGCAACGTTGGCTATGCATTCATCAACATGACCGAGCCAGCTCACATCGTCCCCTTTTACAAG
upper sequence: GLYMA09G11630.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ28200 (Selaginella moellendorffii), 3'ss of exon 9
gtaaataatttgctcttctagaagttgtttatttttcctgtgttgatgtttgctccctgaattttttaaacttgtgaagctgattaattttttcttcttactgcagAAAAAATGCAATGTGGGCTATGCATTTATCAACATGCTGTCACCCTTTCTTATTATTCCATTCTATGAG
|||| || | || | || || || |||| |||| | | | |||||| |||||||| || ||||||||||| ||||||||| || || || | || || || ||
------------------------------------------gtgattttaggcgagcaaaagtgtttccctggta---ttgatcggcttttgcctgt----gcagAACAAATGCAACGTTGGCTATGCATTCATCAACATGACCGAGCCAGCTCACATCGTCCCCTTTTACAAGMapped 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|9565680|gb|BE475189.1|BE475189EST: AAAATCATAGGGGTGCTTATGATTNTCTCTATCTGCCAATTGACTTTAAG AAAAAATGCCATGTTGGCTATGCATTTATCAACATGCTG
genomic: AAAATCATAGGGGTGCTTATGATTTTCTCTATCTGCCAATTGACTTTAAGgtaaataatt ... cttactgcagAAAAAATGCAATGTGGGCTATGCATTTATCAACATGCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctccctgaattttttaaacttgtgaagctgattaattttttcttcttactgcagAAAAAATGCAATGTGGGCTATGCATTTATCAACATGCTGTCACCCTTTCTTATTATTCCATTCTATGAG
ttcttac putative branch site (score: 2)
ttttttcttcttactg CT-rich tract
attaattttttcttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaataatttgctcttctagaagttgtttatttttcctgtgttgatgtttgctccctgaattttttaaacttgtgaagctgattaattttttcttcttactgcagAAAAAATGCAATGTGGGCTATGCATTTATCAACATGCTGTCACCCTTTCTTATTATTCCATTCTATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG