Sequence
atgc intronic sequence ATGC exonic sequence...aaagataagcataaaaaatgttggttgtatgaattattatacaaatatcatttttttaatattattaaacttgtattttgttttacttgatcatctatagGAAGCTGATAAGATTGAACTGGCTAAGTCAACAGGGCTGGACCAGAAGCAAATTAACAATTGGTTTATTAACCAAAGAAAACGTCATTGGAAACCATCAG
Basic information
species | Glycine max |
transcript | GLYMA02G04190.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G04190.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv01s0127g00210.t01 (Vitis vinifera), 3'ss of exon 4
aaagataagcataaaaaatgttggttg----tatgaattattatacaaatatcatttttttaatattattaaacttgtattttgttttacttgatcatctatagGAAGCTGATAAGATTGAACTGGCTAAGTCAACAGGGCTGGACCAGAAGCAAATTAACAATTGGTTTATTAACCAAAGAAAACGTCATTGGAAACCATCAG
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gtaagtctgcactttgtgttttcatttcctttatagggtggga-atgcatactattttctgagtctt-tgaccataccgctttttcttatataataatcc--agGAAGCTGATAAAATTGCACTTGCTGAAACAACGGGTCTGGACCAGAAGCAAATTAACAATTGGTTTATAAATCAACGAAAGCGGCACTGGAAACCATCAG
upper sequence: GLYMA02G04190.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ07541 (Selaginella moellendorffii), 3'ss of exon 5
aaagataagcataaaaaatgttggttgtatgaattattatacaaatatcatttttttaatattattaaacttgtattttgttttacttgatcatctatagGAAGCTGATAAGATTGAACTGGCTAAGTCAACAGGGCTGGACCAGAAGCAAATTAACAATTGGTTTATTAACCAAAGAAAACGTCATTGGAAACCATCAG
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--------------------------------------------gtatgttgtgatagttttcattgaatttatattcttagttgtttggctggtttcagGAACAGGAGAAAGCTAACCTCGCAACTGATACTGGACTCGACCAGAAGCAAATTAACAACTGGTTTATCAACCAGAGAAAGCGTCATTGGAATCCTTCAG
upper sequence: GLYMA02G04190.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ10744 (Selaginella moellendorffii), 3'ss of exon 5
aaagataagcataaaaaatgttggttgtatgaattattatacaaatatcatttttttaatattattaaacttgtattttgttttacttgatcatctatagGAAGCTGATAAGATTGAACTGGCTAAGTCAACAGGGCTGGACCAGAAGCAAATTAACAATTGGTTTATTAACCAAAGAAAACGTCATTGGAAACCATCAG
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--------------------------------------------gtatgttgtgatagttttcattgaatttatattcttagttgtttggctggtttcagGAACAGGAGAAAGCTAACCTCGCAACTGATACTGGACTCGACCAGAAGCAAATTAACAATTGGTTTATCAACCAGAGAAAGCGTCATTGGAATCCTTCAGMapped 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|14991234|gb|BI316907.1|BI316907EST: AAGCATTGCTTCAATGGTGGAATGTTCACTACAAATGGCCTTACCCTACG GAAGCTGATAAGATTGAACTGGCTAAGTCAACAGGGCTGGACCAGAAGCAA
genomic: AAGCATTGCTTCAATGGTGGAATGTTCACTACAAATGGCCTTACCCTACGgtaaatattt ... tcatctatagGAAGCTGATAAGATTGAACTGGCTAAGTCAACAGGGCTGGACCAGAAGCAA
EST:
gi|26047594|gb|CA784324.1|CA784324EST: AAGCATTGCTTCAATGGTGGAATGTTCACTACAAATGGCCTTACCCTACG GAAGCTGATAAGATTGAACTGGCTAAGTCAACAGGGCTGGACCAGAAGCAA
genomic: AAGCATTGCTTCAATGGTGGAATGTTCACTACAAATGGCCTTACCCTACGgtaaatattt ... tcatctatagGAAGCTGATAAGATTGAACTGGCTAAGTCAACAGGGCTGGACCAGAAGCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatcatttttttaatattattaaacttgtattttgttttacttgatcatctatagGAAGCTGATAAGATTGAACTGGCTAAGTCAACAGGGCTGGACCAGAAGCAAATTAACAATTGGTTTATTAACCAAAGAAAACGTCATTGGAAACCATCAG
tttttttaatattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaagataagcataaaaaatgttggttgtatgaattattatacaaatatcatttttttaatattattaaacttgtattttgttttacttgatcatctatagGAAGCTGATAAGATTGAACTGGCTAAGTCAACAGGGCTGGACCAGAAGCAAATTAACAATTGGTTTATTAACCAAAGAAAACGTCATTGGAAACCATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - aaaaaat
- - - - - - - - - - - - -tgtatga