Sequence
atgc intronic sequence ATGC exonic sequencegtaagatgtctaaatctttttcatgtactattagtactcgttttactattgtttacttaccatggactcacctctttgatatagGTTACCTTTTTCCAGCAAGGAACAATCCCTTGTGTTTCCAAGGATGGTAGATTTATTATGGAGACTCCATACAGG
Basic information
species | Glycine max |
transcript | GLYMA05G26240.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G26240.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G044629_T03 (Zea mays), 3'ss of exon 5
------------------------------------------------------------gtaagatgtctaaatctttttcatgtactattagtactcgttttactattgtttacttaccatggactcacctctttgatatagGTTACCTTTTTCCAGCAAGGAACAATCCCTTGTGTTTCCAAGGATGGTAGATTTATTATGGAGACTCCATACAGG
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gtaagtgctgcagaccaaaaaaaaaatggtttgctgtgctaaatgttccaacgcatttgagcaaaaacgcacaatgcttcccattcgttagtaagag--gtttgtctcccggtta---ggcttaaacttttttttcttg-gcagGTGACATTTTTCCAACAAGGCACACTTCCATGCGTTTCTGCCGATGGTAGATTTATTATGGAGACACCATATAGG
upper sequence: GLYMA05G26240.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G019986_T04 (Zea mays), 3'ss of exon 6
----------------------------------------gtaagatgtctaaatctttttcatgtactattagtactcgttttactattgtttacttaccatggactcacctctttgatatagGTTACCTTTTTCCAGCAAGGAACAATCCCTTGTGTTTCCAAGGATGGTAGATTTATTATGGAGACTCCATACAGG
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gtaagtgcctctcaaagttgtttgttgtgctgaatattccatcgcaattttcaacaaaactcccgaatcatatgtaagaggtctgtt-tcccagatttgttgtgctgaaccctttctttggcagGTGACATTTTTCCAACAAGGCACACTTCCATGCGTCTCTGCCGATGGTAGATTTATTATGGAGACACCATATAGG
upper sequence: GLYMA05G26240.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv01s0011g01420.t01 (Vitis vinifera), 3'ss of exon 6
------------------------------------------------------gtaagatgtctaaatctttttcatgtactattagtactcgttttactattgtttacttaccatggactcacctctttgatatagGTTACCTTTTTCCAGCAAGGAACAATCCCTTGTGTTTCCAAGGATGGTAGATTTATTATGGAGACTCCATACAGG
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gtaagatgttttaacactcttatttttgttataattgttagttcttgatttctggtgtttttcctcactctgcaatgtgttcttttgtcccttattttatattttattttattttatttattt-tattattgatgcagATCACCTTCTTCCAGCAAGGAACCATACCTTGTATTTCAAAGGATGGCAGATTCATCATGGAGACTCCCTACAAA
upper sequence: GLYMA05G26240.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv00s1959g00010.t01 (Vitis vinifera), 3'ss of exon 3
------------------------------------------------------gtaagatgtctaaatctttttcatgtactattagtactcgttttactattgtttacttaccatggactcacctctttgatatagGTTACCTTTTTCCAGCAAGGAACAATCCCTTGTGTTTCCAAGGATGGTAGATTTATTATGGAGACTCCATACAGG-------------------------
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gtaagatgttttaacactcttatttttgttataattgttagttcttgatttctggtgtttttcctcactctgcaatgtgttcttttgtcccttattttatattttattttattttatttattt-tattattgatgcagATCACCTTCTTCCAGCAAGGAACCATACCTTGTATTTCAAAGGATGGCAGATTCATCATGGAGACTCCCTACAAAGTAGTGTTTCTTCTTGTTTTTTCTCMapped 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|7924327|gb|AW830353.1|AW830353EST: CACGCAAATTCTTTGAAAGTCATAAATTTTTTGGTCTCGAGGCAGAACAG GTTACCTTTTTCCAGCAAGGAACAATCCCTTGTGTTTCCAAGGATGGTAGA
genomic: CACGCAAATTCTTTGAAAGTCATAAATTTTTTGGTCTCGAGGCAGAACAGgtaagatgtc ... tttgatatagGTTACCTTTTTCCAGCAAGGAACAATCCCTTGTGTTTCCAAGGATGGTAGA
EST:
gi|254346278|gb|GR859891.1|GR859891EST: CACGCAAATTCTTTGAAAGTCATAAATTTTTTGGTCTCGAGGCAGAACAG GTTACCTTTTTCCAGCAAGGAACAATCCCTTGTGTTTCCA-GGATGGTAGA
genomic: CACGCAAATTCTTTGAAAGTCATAAATTTTTTGGTCTCGAGGCAGAACAGgtaagatgtc ... tttgatatagGTTACCTTTTTCCAGCAAGGAACAATCCCTTGTGTTTCCAAGGATGGTAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attagtactcgttttactattgtttacttaccatggactcacctctttgatatagGTTACCTTTTTCCAGCAAGGAACAATCCCTTGTGTTTCCAAGGATGGTAGATTTATTATGGAGACTCCATACAGG
ctcacctcttt CT-rich tract
ttttactattgttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagatgtctaaatctttttcatgtactattagtactcgttttactattgtttacttaccatggactcacctctttgatatagGTTACCTTTTTCCAGCAAGGAACAATCCCTTGTGTTTCCAAGGATGGTAGATTTATTATGGAGACTCCATACAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA