Sequence
atgc intronic sequence ATGC exonic sequence...ttttgtatggtgtgaatgtctgaatcattacattgatgaatgctgaatgtgttttgataatgagtttaggggtgatgtaatactaccttcctgaacgcagGTATTTGATGCATTAAGGACAACGATGTTTATACTTGGAATGATGTGTGTGTTTATTGGCATTTCTTTGCTGGCACCTGATGAATCAAAAG
Basic information
species | Glycine max |
transcript | GLYMA16G26550.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G26550.1 (Glycine max), 3'ss of exon 11
lower sequence: AT3G26670.1 (Arabidopsis thaliana), 3'ss of exon 10
------------------------------------------------ttttgtatggtgtgaatgtctgaatcattacattgatgaat-----gctgaatgtgttttgataatgagtttaggggtgatgtaatactaccttcctgaacgcagGTATTTGATGCATTAAGGACAACGATGTTTATACTTGGAATGATGTGTGTGTTTATTGGCATTTCTTTGCTGGCACCTGATGAATCAAAAG---------
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gttcatctattgactacattgtgatgcttttcctctcttttctttatcttcgggctaatacggat--ctagatgattagtttgatcattttgtcacagaatg-gtgtgggtttagggatagtcgcttagataattttcttcttccttaaacagGTTTTCGATGCGCTAAGAACAACAATGTTCATATTAGGAATGATGTGTGTATTCATAGGCATTTCTTTACTAGCACCTGATGATACAAGAGGCAATGAGA
upper sequence: GLYMA16G26550.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv14s0068g00780.t01 (Vitis vinifera), 3'ss of exon 10
ttttgtatggtgtgaatgtctgaatcattacattgatgaatgctgaatgtgttttgataatgagtttaggggtgatgtaata--ctaccttcctga-----acgcagGTATTTGATGCATTAAGGACAACGATGTTTATACTTGGAATGATGTGTGTGTTTATTGGCATTTCTTTGCTGGCACCTGATGAATCAAAAG
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-----aggcttcttgatgcttatagcaatgttcaattctattctctctctcccttc-tcttgagtttagac-ccatataataagctgcttcactgtttctcaagcagGTATTTGATACATTAAGGACAACAATGTTTATACTAGGAATGATGTCTGTGTTCATAGGCATTTCATTGCTGGCACCTGATGAGCCAAAAGMapped 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|58021111|gb|CX707853.1|CX707853EST: GGACTTTCTTCTCAATCTGTACAGGATTTATCTATTTTCAAGAATATCAG GTATTTGATGCATTAAGGACAACGATGTTTATACTTGGAATGATGTGTGTG
genomic: GGACTTTCTTCTCAATCTGTACAGGATTTATCTATTTTCAAGAATATCAGgtactttctc ... ctgaacgcagGTATTTGATGCATTAAGGACAACGATGTTTATACTTGGAATGATGTGTGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgtgttttgataatgagtttaggggtgatgtaatactaccttcctgaacgcagGTATTTGATGCATTAAGGACAACGATGTTTATACTTGGAATGATGTGTGTGTTTATTGGCATTTCTTTGCTGGCACCTGATGAATCAAAAG
ttttgat putative branch site (score: 4)
ctaccttcct putative PPT
ttttgataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgtatggtgtgaatgtctgaatcattacattgatgaatgctgaatgtgttttgataatgagtttaggggtgatgtaatactaccttcctgaacgcagGTATTTGATGCATTAAGGACAACGATGTTTATACTTGGAATGATGTGTGTGTTTATTGGCATTTCTTTGCTGGCACCTGATGAATCAAAAG
- - - -tggtgtg
- - - - - - - -atgtctg
- - - - - - - - - - - - - - - - - - -gaatgct
- - - - - - - - - - - - - - - - - - - - - - gaatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aggggtg