Sequence
atgc intronic sequence ATGC exonic sequence...cttcatgtttgttcgttttgtaattttgaataaaaatgctaggcagaaacaattacttcactaaaattaaatttaacaattggagtgtgacttcatgcagGGCTTTTAAGGTGTGGGAAGAGTTGCAGGCTCAGGTGGACAAATTACTTGAGGCCAGACTTAAAGAGAGGTCTTTTATCAGAATACGAAGAAAAAATGGT
Basic information
species | Glycine max |
transcript | GLYMA02G41180.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G41180.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G16600.1 (Arabidopsis thaliana), 3'ss of exon 1
--cttcatgtttgttcgttttgtaattttgaat--aaaaatgctaggcagaaacaattacttcactaaaattaaatttaacaattggagtgtgacttca-tgcagGGCTTTTAAGGTGTGGGAAGAGTTGCAGGCTCAGGTGGACAAATTACTTGAGGCCAGACTTAAAGAGAGGTCTTTTATCAGAATACGAAGAAAAAATGGT
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acgctattatttggtttttaatcaattttagttttatagtttttaagtttaaat--taaattgatc---gttgatttaattactttgtttacaaattaaatgcagGACTATTGCGGTGTGGTAAAAGCTGCAGATTAAGATGGATAAATTATTTAAGACCTGATTTAAAAAGAGGTCTTTTATCAGAATATGAAGAACAAAAGGT
upper sequence: GLYMA02G41180.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0006g00450.t01 (Vitis vinifera), 3'ss of exon 1
cttcatgtttgttcgttttgtaattttgaataaaaatgc-taggcagaaacaattacttcactaaaattaaatt-taacaattggagtgtgacttcatgcagGGCTTTTAAGGTGTGGGAAGAGTTGCAGGCTCAGGTGGACAAATTACTTGAGGCCAGACTTAAAGAGAGGTCTTTTATCAGAATACGAAGAAAAAATGGT
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--aaccgaaatttcaaagtacaaagaaggagataatcaccttttcaaatgcctttatttttctctcataaactaattgcgattatggtgggtatcattgcagGACTGTTAAGGTGTGGGAAGAGTTGCAGGCTAAGATGGACAAACTATCTGAGGCCAGACTTGAAAAGAGGTCTGTTGTCAGATTTTGAAGAGCAGATGGTMapped 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|192296205|gb|FG989041.1|FG989041EST: CATCCTCACTAATGGCCAATGTTGCTGGAGAGCTGTCCCTAAGCTAGCAG GGCTTTTAAGGTGTGGGAAGAGTTGCAGGCTCAGGTGGACAAATTACTTGA
genomic: CATCCTCACTAATGGCCAATGTTGCTGGAGAGCTGTCCCTAAGCTAGCAGgtctcctcaa ... cttcatgcagGGCTTTTAAGGTGTGGGAAGAGTTGCAGGCTCAGGTGGACAAATTACTTGA
EST:
gi|23728665|gb|BU762393.1|BU762393EST: CATCCTCACTAATGGCCAATGTTGCTGGAGAGCTGTCCCTAAGCTAGCAG GGCTTTTAAGGTGTGGGAAGAGTTGCAGGCTCAGGTGGACAAATTACTTGA
genomic: CATCCTCACTAATGGCCAATGTTGCTGGAGAGCTGTCCCTAAGCTAGCAGgtctcctcaa ... cttcatgcagGGCTTTTAAGGTGTGGGAAGAGTTGCAGGCTCAGGTGGACAAATTACTTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaacaattacttcactaaaattaaatttaacaattggagtgtgacttcatgcagGGCTTTTAAGGTGTGGGAAGAGTTGCAGGCTCAGGTGGACAAATTACTTGAGGCCAGACTTAAAGAGAGGTCTTTTATCAGAATACGAAGAAAAAATGGT
aattacttcactaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttcatgtttgttcgttttgtaattttgaataaaaatgctaggcagaaacaattacttcactaaaattaaatttaacaattggagtgtgacttcatgcagGGCTTTTAAGGTGTGGGAAGAGTTGCAGGCTCAGGTGGACAAATTACTTGAGGCCAGACTTAAAGAGAGGTCTTTTATCAGAATACGAAGAAAAAATGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - -tgtttgt
- - - - - - - - - - - - - - aataaaa
- - - - - - - - - - - - - - - - - -atgctag
- - - - - - - - - - - - - - - - - - - - - - agaaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaattaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gagtgtg