Sequence
atgc intronic sequence ATGC exonic sequence...aaagagagaatccacactttttgaagtttattaaaatgcttactgatgtccataaaattgtatcccgtttaatgtagtcattttgataataacttgttagGATTCATTGTCAAGAGAGTAAGGAAGAAAGCTCAGAAGCAGAGTCTGTTTATTCACTTAAATGCCACATATCGCAGGAGGTGAACCATTTGCATGAAGGG
Basic information
species | Glycine max |
transcript | GLYMA07G01480.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G01480.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G51710.1 (Arabidopsis thaliana), 3'ss of exon 8
-------aaagagagaatccacactttttgaagtttattaaaatgctt-actgatgtccataaaattgtatcccgtttaatgtagtc--attttgataataacttgttagGATTCATTGTCAAGAGAGTAAGGAAGAAAGCTCAGAAGCAGAGTCTGTTTATTCACTTAAATGCCACATATCGCAGGAGGTGAACCATTTGCATGAAGGG
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gtttgtccatgtgaaaattgacaac---tgaag---atgtaaatacttgagtggtgtttttcaccttg---cttagttaatttaattcggattggttcatgtgctgt-agGTTGCATTGTCAAGAAAGTGGCGAAGAAAGCTCAGAGACAGAATCTGTATATTCTCTAAAATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGA
upper sequence: GLYMA07G01480.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G21280.1 (Arabidopsis thaliana), 3'ss of exon 8
aaagagagaatccacactttttgaa---gtttattaaaatgcttactgatgtccataaaatt-gtatcccgtttaatgtagtcattttgataataacttgttagGATTCATTGTCAAGAGAGTAAGGAAGAAAGCTCAGAAGCAGAGTCTGTTTATTCACTTAAATGCCACATATCGCAGGAGGTGAACCATTTGCATGAAGGG
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---gtcacaacacaaatttcatacaaatgccctcttgtatgctattttttttttagatctttcatttttgattttgtgtctccaatccatttctattgctgaagGTTGCATTGCCAAGAAAGTAGCGAAGAAAGCTCAGAGACAGAATCTGTCTTTTCTCTGAAATGTCACATATCACATGAGGTGAACCACTTGCATGAAGGA
upper sequence: GLYMA07G01480.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv09s0002g02500.t01 (Vitis vinifera), 3'ss of exon 9
----aaagagagaatccacactttttgaagtttattaaaatgcttactgatgtccataaaattgtatcccgtttaatgtagtcattttgataataacttgttagGATTCATTGTCAAGAGAGTAAGGAAGAAAGCTCAGAAGCAGAGTCTGTTTATTCACTTAAATGCCACATATCGCAGGAGGTGAACCATTTGCATGAAGGG
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tgttgggttgtctgttcttctattttgacatatcctaaagg----atgagagtctcttatacattatgcttttctggttattttcttttgttggttttgtttagGATGCATTGCGAAGAAAGTGGTGAAGAGAGCTCAGAGACTGAATCAGTTTATTCACTTAAATGCCACATATCACACGAGGTGAACCATTTGCATGAAGGAMapped 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|11274686|gb|BF325023.1|BF325023EST: GAAAATCCCGATGCTGTGAAGGCCCTCTTTGGCATAGAACTTATTAGCAG GATTCATTGTCAAGAGAGTAAGGAAGAAAGCTCAGAAGCAGAGTCTGTTTA
genomic: GAAAATCCCGATGCTGTGAAGGCCCTCTTTGGCATAGAACTTATTAGCAGgtacagtcta ... aacttgttagGATTCATTGTCAAGAGAGTAAGGAAGAAAGCTCAGAAGCAGAGTCTGTTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtccataaaattgtatcccgtttaatgtagtcattttgataataacttgttagGATTCATTGTCAAGAGAGTAAGGAAGAAAGCTCAGAAGCAGAGTCTGTTTATTCACTTAAATGCCACATATCGCAGGAGGTGAACCATTTGCATGAAGGG
taataac putative branch site (score: 1)
attttgataataactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaagagagaatccacactttttgaagtttattaaaatgcttactgatgtccataaaattgtatcccgtttaatgtagtcattttgataataacttgttagGATTCATTGTCAAGAGAGTAAGGAAGAAAGCTCAGAAGCAGAGTCTGTTTATTCACTTAAATGCCACATATCGCAGGAGGTGAACCATTTGCATGAAGGG
- - - - - -ccacact
- - - - - - - - - - - - - - - - - - tgcttac
- - - - - - - - - - - - - - - - - - - - - -tgatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgtag