Sequence
atgc intronic sequence ATGC exonic sequencegtaaagagctattttttttttatcaaatttatgtttctgcttcttccatttactgtattctgacaatgtattatgccttccctgggtagATTGCACCTGTGGCTGTTTCAGATGCTGCTATGTTGGCTCCTGAGGAGGTATTTGATGGCAAGGGTGATATTAAGGAAGAAACAGAACTTACAAAGGCAG
Basic information
species | Glycine max |
transcript | GLYMA05G02340.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G02340.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os11g04200.1 (Oryza sativa), 3'ss of exon 10
gtaaagagctattttttttttatcaaatttatgtttctgcttcttccatttactgtattctgacaatgtattatgccttccctgggtagATTGCACCTGTGGCTGTTTCAGATGCTGCTATGTTGGCTCCTGAGGAGGTATTTGATGGCAAGGGTGATATTAAGGAAGAAACAGAACTTACAAAGGCAG
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gtaaataaa-atccttcatttctcca--tgatgtttatacg------gttgagcatttcatgtca-tg-atttctctctctttttgcagATTGCACCTGTAGCTGTTTCAGATGCTGCAATGCTTGCTCCTGAAGAAATTTTTGAAGGAAAAGGTGATGTTAAAGAAGAAGCAGAACTTACACAAGCTG
upper sequence: GLYMA05G02340.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G005308_T01 (Zea mays), 3'ss of exon 12
gtaaagagctattttttttttatcaaatttatgtttctgcttcttccatttactgtattctgacaatgtattatgccttccctgggtagATTGCACCTGTGGCTGTTTCAGATGCTGCTATGTTGGCTCCTGAGGAGGTATTTGATGGCAAGGGTGATATTAAGGAAGAAACAGAACTTACAAAGGCAG
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gtacaaaaattgttcacttttccc-----tgtgatgttgctctatcagagtgttttttgttg-tgatgatctctgtctctc------agATTGCACCTGTAGCTGTTTCGGATGCTGCAATGCTTGCCCCTGAAGAGATATTTGAAGGAAAAGGTGATGTTAAGGAAGAGGGGGAACTTACACAGGCTG
upper sequence: GLYMA05G02340.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv17s0000g08620.t01 (Vitis vinifera), 3'ss of exon 10
gtaaagagctattttttttttatcaaatttatgtttctgc--------ttcttccatttactgtattctgacaatgtat--------tatgccttccctgggtagATTGCACCTGTGGCTGTTTCAGATGCTGCTATGTTGGCTCCTGAGGAGGTATTTGATGGCAAGGGTGATATTAAGGAAGAAACAGAACTTACAAAGGCAG
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-----aagctatcaactcttctaaaagcttaagctgtcgggatatgaactcctcaatgtatataaggctaacaacttgcaagtactatatgtataccatggacagATTGCACCTTTGGCAGTTTCAGATGCAGCTATGCTGGCTCCTGAAGAAGTCTTTGAAGGCAAAGGAGACATTAAGGAAGAAGCAGAGTTAACACAGGCAGMapped 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|208271526|gb|GE071808.1|GE071808EST: TAGAGGACATGTCTATTCAAGCTAATGTGCCTGCTTTGGCAATGGAAGAA ATTGCACCTGTGGCTGTTTCAGATGCTGCTATGTTGGCTCCTGAGGAGGTA
genomic: TAGAGGACATGTCTATTCAAGCTAATGTGCCTGCTTTGGCAATGGAAGAAgtaaagagct ... ccctgggtagATTGCACCTGTGGCTGTTTCAGATGCTGCTATGTTGGCTCCTGAGGAGGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctgcttcttccatttactgtattctgacaatgtattatgccttccctgggtagATTGCACCTGTGGCTGTTTCAGATGCTGCTATGTTGGCTCCTGAGGAGGTATTTGATGGCAAGGGTGATATTAAGGAAGAAACAGAACTTACAAAGGCAG
ttctgac putative branch site (score: 2)
tgccttccct putative PPT
aatgtattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagagctattttttttttatcaaatttatgtttctgcttcttccatttactgtattctgacaatgtattatgccttccctgggtagATTGCACCTGTGGCTGTTTCAGATGCTGCTATGTTGGCTCCTGAGGAGGTATTTGATGGCAAGGGTGATATTAAGGAAGAAACAGAACTTACAAAGGCAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA