Sequence
atgc intronic sequence ATGC exonic sequencegtatgcaaacttactactgtactccacaattttttaatccaatgataaaatgctattattgtaaaagttaattcatgaggaaaaagattagttattgtatattagtaataaatgaacactgtttgatacttttagatgtaagcattgtttatgatgttcaaagtttaaatgttactatgttacagGTAAATGAGTACCCACCTGGAGTGGGTTTGTCCCCCCATATAGACACTCACTCTGCATTTGAAGATTTAATTTTCAGCCTTTCATTATCAGGGCCTTGTA
Basic information
species | Glycine max |
transcript | GLYMA09G35080.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G35080.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G456132_T02 (Zea mays), 3'ss of exon 4
gtatgcaaacttactactgtactccacaattttttaatccaatgataaaatgctattattgtaaaagttaattcatgaggaaaaagattagttattgtatattagtaataaatgaacactgtttgatacttttagatgtaagcattgtttatgatgttcaaagtttaaatgttactatgt--tacagGTAAATGAGTACCCACCTGGAGTGGGTTTGTCCCCCCATATAGACACTCACTCTGCATTTGAAGATTTAATTTTCAGCCTTTCATTATCAGGGCCTTGTA-------------------------
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------------------------------------------------------gtaagtgtgtatatgcatatacctactattctgtctgttgtttcctttgctgaaggtggtaccaataattcttattcttgcct-tggtcccttagcagaataatgca--ttaaattgcccatgtgttttacaggtaaatgaatatccttgtggtgtagGTTTGTCTCCACATATAGACACACACTCAGCATTTGAGGAAATGATTTTTAGCCTTTCTTTGGCTGGAACTTGCATCATGGAGTTCAGAAAATATACTAA
upper sequence: GLYMA09G35080.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G456132_T01 (Zea mays), 3'ss of exon 4
gtatgcaaacttactactgtactccacaattttttaatccaatgataaaatgctattattgtaaaagttaattcatgaggaaaaagattagttattgtatattagtaataaatgaacactgtttgatacttttagatgtaagcattgtttatgatgttcaaagtttaaatgttactatgt--tacagGTAAATGAGTACCCACCTGGAGTGGGTTTGTCCCCCCATATAGACACTCACTCTGCATTTGAAGATTTAATTTTCAGCCTTTCATTATCAGGGCCTTGTA
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------------------------------------------------------gtaagtgtgtatatgcatatacctactattctgtctgttgtttcctttgctgaaggtggtaccaataattcttattcttgcct-tggtcccttagcagaataatgca--ttaaattgcccatgtgttttacagGTAAATGAATATCCTTGTGGTGTAGGTTTGTCTCCACATATAGACACACACTCAGCATTTGAGGAAATGATTTTTAGCCTTTCTTTGGCTGGAACTTGCA
upper sequence: GLYMA09G35080.2 (Glycine max), 3'ss of exon 4
lower sequence: AT1G31600.2 (Arabidopsis thaliana), 3'ss of exon 5
gtatgcaaacttactactgtactccacaattttttaatccaatgataaaatgctattattgtaaaagttaattcatgaggaaaaagattagttattgtatattagtaataaatgaacactgtttgatacttttagatgtaagcattgtttatgatgttcaaagtttaaatgttactatg--ttacagGTAAATGAGTACCCACCTGGAGTGGGTTTGTCCCCCCATATAGACACTCACTCTGCATTTGAAGATTTAATTTTCAGCCTTTCATTATCAGGGCCTTGTA
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------------------------------------------------------------------------------------------------gtatatcatcagactctgtatatagatcaagattct--gttataattgttcttaactacattgaaggctgaggaattcttgtgaatattagGTAAATGAGTACCCATCTGGTGTGGGATTATCGCCTCATATTGATACACATTCAGCATTTGAAGATTGCATATTCAGCCTTTCTTTAGCTGGTCCTTGTAMapped 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|151403775|gb|EV273585.1|EV273585EST: CATGTCCAACTTTCGAGAATGTTAAAAATATAGTTTTGGACCAACTTACG GTAAATGAGTACCCACCTGGAGTGGGTTTGTCCCCCCATATAGACACTCAC
genomic: CATGTCCAACTTTCGAGAATGTTAAAAATATAGTTTTGGACCAACTTACGgtatgcaaac ... tatgttacagGTAAATGAGTACCCACCTGGAGTGGGTTTGTCCCCCCATATAGACACTCAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttagatgtaagcattgtttatgatgttcaaagtttaaatgttactatgttacagGTAAATGAGTACCCACCTGGAGTGGGTTTGTCCCCCCATATAGACACTCACTCTGCATTTGAAGATTTAATTTTCAGCCTTTCATTATCAGGGCCTTGTA
aaagtttaaatgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcaaacttactactgtactccacaattttttaatccaatgataaaatgctattattgtaaaagttaattcatgaggaaaaagattagttattgtatattagtaataaatgaacactgtttgatacttttagatgtaagcattgtttatgatgttcaaagtttaaatgttactatgttacagGTAAATGAGTACCCACCTGGAGTGGGTTTGTCCCCCCATATAGACACTCACTCTGCATTTGAAGATTTAATTTTCAGCCTTTCATTATCAGGGCCTTGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA