Sequence
atgc intronic sequence ATGC exonic sequence...tgaaactgaaagagggggttcgtattgagaattcttgggcatttggtctttaatgtttctgttaccaaaattttttttattgacagtttcactatggcagAATCTGAAGTCAAATCTGACAATGTGGAAGCTTGGAACCCTGCCTCCTGCTTTGATTGCATTTAAAGGACTTGTTCATCCGATTGATCCCTCTTGGCACA
Basic information
species | Glycine max |
transcript | GLYMA08G26480.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G26480.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G01040.2 (Arabidopsis thaliana), 3'ss of exon 5
tgaaactgaaagagggggttcgtattgagaattcttgggcatttggtctttaatgtttctgttaccaaaattttttttattgacagtttcactatg-gcagAATCTGAAGTCAAATCTGACAATGTGGAAGCTTGGAACCCTGCCTCCTGCTTTGATTGCATTTAAAGGACTTGTTCATCCGATTGATCCCTCTTGGCACA
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gtaaagtatcagagaag-cctgtaatg-----ttttgagttttagattcgaaattggcaaattattga--tcatgcttactggttttgctttgatgtgcagAATCTGAAGTCGAATCTAACAATGTGGAAACTTGGAACATTGCCTCCTGCTCTAATAGCATTTAAAGGTCATGTTCAGCCAATAGATTCCTCTTGGCATA
upper sequence: GLYMA08G26480.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G15470.1 (Arabidopsis thaliana), 3'ss of exon 5
tgaaactgaaa-gagggggttcgtattgagaattcttgggcatttggtctttaatgtttctgttaccaaaattttttttattgacagtttcactatggcagAATCTGAAGTCAAATCTGACAATGTGGAAGCTTGGAACCCTGCCTCCTGCTTTGATTGCATTTAAAGGACTTGTTCATCCGATTGATCCCTCTTGGCACA
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-gtaactctatcgaataagcttacacttttttgtttttctttagcagAATCTAAAGTTACCTCTCT---AATCTACTCTGTTTACTTTTGCTTTGGAACAGAATCTAAAGTCAAATCTGACAATGTGGAAACTTGGAACCTTGCCTCCTGCTCTTATCGCGTTCAAGGGTCACGTACACATAATAGACTCGTCATGGCATA
upper sequence: GLYMA08G26480.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 5
tgaaactgaaagagggggttcgtattgagaattcttgggcatttggtctttaatgtttct-gttaccaaaatttttttt-attg-acagtttcactatggcagAATCTGAAGTCAAATCTGACAATGTGGAAGCTTGGAACCCTGCCTCCTGCTTTGATTGCATTTAAAGGACTTGTTCATCCGATTGATCCCTCTTGGCACA
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tgagcttttaattgattatatattttgtttaaatgataaaatt---tctgggatgtgcttagtcaccatttcttacttggattgtggggcctttctgttgtagAATCTGAAGTCAAACCTGACTATGTGGAAGCTTGGAACCCTACCTCCTGCTTTGATAGCATTTAAAGGTCATATTCACCCAATCGACCCATCCTGGCACAMapped 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|14258501|gb|BG881409.1|BG881409EST: CATGGAGAAGAACTAATATAAGAGAGATATATCATTCTTGGCTGAAAGAG AATCTGAAGTCAAATCTGACAATGTGGAAGCTTGGAACCCTGCCTCCTGCT
genomic: CATGGAGAAGAACTAATATAAGAGAGATATATCATTCTTGGCTGAAAGAGgtaagtccac ... actatggcagAATCTGAAGTCAAATCTGACAATGTGGAAGCTTGGAACCCTGCCTCCTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtctttaatgtttctgttaccaaaattttttttattgacagtttcactatggcagAATCTGAAGTCAAATCTGACAATGTGGAAGCTTGGAACCCTGCCTCCTGCTTTGATTGCATTTAAAGGACTTGTTCATCCGATTGATCCCTCTTGGCACA
tattgac putative branch site (score: 2)
tttcact putative PPT
aaaattttttttattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaaactgaaagagggggttcgtattgagaattcttgggcatttggtctttaatgtttctgttaccaaaattttttttattgacagtttcactatggcagAATCTGAAGTCAAATCTGACAATGTGGAAGCTTGGAACCCTGCCTCCTGCTTTGATTGCATTTAAAGGACTTGTTCATCCGATTGATCCCTCTTGGCACA
- - - - - -gaggggg
- - - - - - - - - - - - - - - - - - - gcatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttacc