Sequence
atgc intronic sequence ATGC exonic sequence...tgacatattatcttctaacatttacatttaaggaatgactgaatgaggattaaggtggaaacaatatgatgtatgaactagttatttgttctttattcagGTGTTTTCTGCTTTTGGCTTTGTTCACAAAATTGCTACATTCGAAAAGACTGCAGGTTTTCAG
Basic information
species | Glycine max |
transcript | GLYMA09G37080.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G37080.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g25980.1 (Oryza sativa), 3'ss of exon 2
----tgacatattatc-ttctaacatttacatttaaggaatgactgaatgaggattaaggtggaaacaatatgatgtatgaactagttatttgttctttattcagGTGTTTTCTGCTTTTGGCTTTGTTCACAAAATTGCTACATTCGAAAAGACTGCAGGTTTTCAG
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gattttatgtactacaactacaagatttttatatgtgc--tgccagttcctggattaattttctcttttactcctatat--atgacccttctattatat-ttcagGTTTTCTCAGCTTTTGGATTTGTTCACAAAATAGCCACTTTTGAGAAGGCTGCAGGTTTTCAG
upper sequence: GLYMA09G37080.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0108g01030.t01 (Vitis vinifera), 3'ss of exon 2
--------tgacatattatcttctaacatttacatttaaggaatgactgaatgaggattaaggtggaaacaatatgatgtatgaactagttatttgttctttattcagGTGTTTTCTGCTTTTGGCTTTGTTCACAAAATTGCTACATTCGAAAAGACTGCAGGTTTTCAG
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gcctggcatgatttctgatgtttttattttcccttttcattttttttcatgtggaggtttttattgatgttgcctcatgtct-aactaaat-tttatta------cagGTGTTCTCTGCTTTTGGATTTGTGCACAAAATTGCTACATTTGAAAAGGCTGCAGGTTTCCAG
upper sequence: GLYMA09G37080.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S81_184V6.1 (Physcomitrella patens), 3'ss of exon 2
tgacatattatcttc-taacatttacattta-aggaatgactgaatga--ggattaaggtggaaacaatatg-atgtatgaactagttatttgttctttattcagGTGTTTTCTGCTTTTGGCTTTGTTCACAAAATTGCTACATTCGAAAAGACTGCAGGTTTTCAG
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-tcccttctaccggcatggcagttctagtcacaaggattgctccattactgacttgaagcactggtaacatatacttatgtact--ttacgaaattattg--cagGTGTTTTCTGCCTTTGGCTTTGTTCATAAGATTGCGACTTTTGAGAAAAGCGCTGGCTTCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggattaaggtggaaacaatatgatgtatgaactagttatttgttctttattcagGTGTTTTCTGCTTTTGGCTTTGTTCACAAAATTGCTACATTCGAAAAGACTGCAGGTTTTCAG
tttgttctttattc CT-rich tract
ttatttgttctttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgacatattatcttctaacatttacatttaaggaatgactgaatgaggattaaggtggaaacaatatgatgtatgaactagttatttgttctttattcagGTGTTTTCTGCTTTTGGCTTTGTTCACAAAATTGCTACATTCGAAAAGACTGCAGGTTTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - -ggaatga
- - - - - - - - - - - - - - - - - - - - gaatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - -ggtggaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgaac