Sequence
atgc intronic sequence ATGC exonic sequence...acgaagtaagaataaggttttacatagtgaaccaattgcacccttctactcccatgtatttgataatattttttgttctatcctaaaataaaaaatgcagTGTATCTTTGAAGACATATGCCTATGATGATACATCATTGGGATCATGGATGATGGGCGTCCAAGCAACTTACATAGATGACAGTCGGCTTTGCTGCAGT
Basic information
species | Glycine max |
transcript | GLYMA14G14000.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G14000.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G25300.1 (Arabidopsis thaliana), 3'ss of exon 10
-----------------acgaagtaagaataaggttttacatagtgaaccaattgcacccttctactcccatgtatttgataat-attttttgttctatc--ctaaaataaaaaat-gcagTGTATCTTTGAAGACATATGCCTATGATGATACATCATTGGGATCATGGATGATGGGCGTCCAAGCAACTTACATAGATGACAGTCGGCTTTGCTGCAGT
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gttaggctcacgttcttactaatttggcagaag--ttaatatagaaaagtatgt-catcggcatttccatgtctggttaacactcatcacatattctcttgtctggtatatataattgcagTGGATCATTGAAGACATATGCATTTGATGATACCTCTATAGGATCTTGGATGATTGGTGTTCAGGCAACTTATATAGACGACAATCGCCTTTGCTGCAGC
upper sequence: GLYMA14G14000.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G32120.1 (Arabidopsis thaliana), 3'ss of exon 10
----------acgaagta--agaataaggttttacatagtgaaccaattgcacccttctactcccatgtatttgataatattttttgttctatcctaaaataaaaaatgcagTGTATCTTTGAAGACATATGCCTATGATGATACATCATTGGGATCATGGATGATGGGCGTCCAAGCAACTTACATAGATGACAGTCGGCTTTGCTGCAGT
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gttaggtttcacaatttggcagaagatgagtatatatgtcaaacaaagcttggtttgtaatcattgtatattttctaccatggtgtgta------tatatatataaatgcagTGGATTGTTGAAGACATATGCGTTTGATGATACCACCATTGGATCATGGATGATTGGCGTCCAGGCAACATATATAGACGACAATCGCCTTTGCTGCAGC
upper sequence: GLYMA14G14000.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv04s0008g06480.t01 (Vitis vinifera), 3'ss of exon 10
acgaagtaagaataaggttttacatagtgaaccaattgcacccttctactcccatgtatttgataatattttttgttctatcctaaaataaaaaat----gcagTGTATCTTTGAAGACATATGCCTATGATGATACATCATTGGGATCATGGATGATGGGCGTCCAAGCAACTTACATAGATGACAGTCGGCTTTGCTGCAGT
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atgcattttgcttcatttttcacttttctta--gatttagaagaagcatttctattcattt--tcatgacttccattcaaatctcaatttgcttgtttttgcagTGCATCGCTTATGACTTACGCTCATGATGATATATCTGTGGGGTCATGGATGATGGGTATCCAGGCAACCTATATAGATGACAATCGTTTGTGCTGCAGTMapped 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|9898653|gb|BE607621.1|BE607621EST: TCACTTGTTATAATTTCAAAGAATTTGGCACAATACATTAATATAAACAG TGTATCTTTGAAGACATATGCCTATGATGATACTTCATTGGGATCATGGAT
genomic: TCACTTGTTATAATTTCAAAGAATTTGGCACAATACATTAATATAAACAGgttagttctc ... aaaaatgcagTGTATCTTTGAAGACATATGCCTATGATGATACATCATTGGGATCATGGAT
EST:
gi|193690980|gb|FK632737.1|FK632737EST: TCACTTGTTATAATTTCAAAGAATTTGGCACAATACATTAATATAAACAG TGTATCTTTGAAGACATATGCCTATGATGATACATCATTGGGATCATGGAT
genomic: TCACTTGTTATAATTTCAAAGAATTTGGCACAATACATTAATATAAACAGgttagttctc ... aaaaatgcagTGTATCTTTGAAGACATATGCCTATGATGATACATCATTGGGATCATGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctactcccatgtatttgataatattttttgttctatcctaaaataaaaaatgcagTGTATCTTTGAAGACATATGCCTATGATGATACATCATTGGGATCATGGATGATGGGCGTCCAAGCAACTTACATAGATGACAGTCGGCTTTGCTGCAGT
tcctaaa putative branch site (score: 2)
tatttgataatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acgaagtaagaataaggttttacatagtgaaccaattgcacccttctactcccatgtatttgataatattttttgttctatcctaaaataaaaaatgcagTGTATCTTTGAAGACATATGCCTATGATGATACATCATTGGGATCATGGATGATGGGCGTCCAAGCAACTTACATAGATGACAGTCGGCTTTGCTGCAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - -aagaataa
- - - - - - - - - - - - -agtgaac
- - - - - - - - - - - - - - - - - - - caccctt
- - - - - - - - - - - - - - - - - - - - - - - - ctcccat