Sequence
atgc intronic sequence ATGC exonic sequence...aaaactagttcagttactttttgtttatatgaatctattttagagagagaaatatactttgccttaagtattatctaagtgttaactgtcatgtttgtagTTGCTGTGGAATTGGCCACGGTTGCAAGTGAGGTTAAGGCAGGAGATATAAAGGTCTTGTTTGTGAAGCCACTTGTTTACTGGACTCGATTTTTTATCAT
Basic information
species | Glycine max |
transcript | GLYMA08G18330.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G18330.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G12930.1 (Arabidopsis thaliana), 3'ss of exon 2
aaaactagttcagttactttttgtttatatgaatctattttagagagagaaatatactttgccttaagtattatctaagtgttaactgtcatgtttgt---agTTGCTGTGGAATTGGCCACGGTTGCAAGTGAGGTTAAGGCAGGAGATATAAAGGTCTTGTTTGTGAAGCCACTTGTTTACTGGACTCGATTTTTTATCAT
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----gtaagccaaa-gccttatattcatttg----cagtatatatttcttgacctatttggctttagcaatggtattgatgttgttattcacatttgttgcagTTGCTGTTGAATTGGCTAAAGTTGCGAGTGATGTGAAAGCTGGAGATATTAAGGTCCTCTTTGTCAAGCCTCTTGTTTACTGGACTCGGTTTTTCATCAT
upper sequence: GLYMA08G18330.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv19s0027g00700.t01 (Vitis vinifera), 3'ss of exon 3
--aaaactagttcagttactttttgtt-tatatgaatctattttagagagagaaatatactttgccttaagtattatctaagtgttaactgtcatgtttgtagTTGCTGTGGAATTGGCCACGGTTGCAAGTGAGGTTAAGGCAGGAGATATAAAGGTCTTGTTTGTGAAGCCACTTGTTTACTGGACTCGATTTTTTATCAT
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tggatatcaggataagaacaaaacaaaatacaaccataaacctttgtttgcttaattgattttacataat---ttaaatgacagtttcctgccatctgtgtagTTGCGGTGGCATTGGCCAAGGTTGCCAGTGATGTCAAGGCTGCCGATATAAGGGTCCTCTTTGTGAAGCCTTTAGTGTATTGGACTCGTTTTTTTATCATMapped 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|10845462|gb|BF068581.1|BF068581EST: CAAAAAGCCTGCTAGCGCAGAGATTGACGATGATGCTGAAAGCCTGTCAT TTGCTGTGGAATTGGCCACGGTTGCAAGTGAGGTTAAGGCAGGAGATATAA
genomic: CAAAAAGCCTGCTAGCGCAGAGATTGATGATGATGCTGAAAGCCTGTCATgtaagctaaa ... atgtttgtagTTGCTGTGGAATTGGCCACGGTTGCAAGTGAGGTTAAGGCAGGAGATATAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agagaaatatactttgccttaagtattatctaagtgttaactgtcatgtttgtagTTGCTGTGGAATTGGCCACGGTTGCAAGTGAGGTTAAGGCAGGAGATATAAAGGTCTTGTTTGTGAAGCCACTTGTTTACTGGACTCGATTTTTTATCAT
tgttaac putative branch site (score: 2)
ttaagtattatctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaactagttcagttactttttgtttatatgaatctattttagagagagaaatatactttgccttaagtattatctaagtgttaactgtcatgtttgtagTTGCTGTGGAATTGGCCACGGTTGCAAGTGAGGTTAAGGCAGGAGATATAAAGGTCTTGTTTGTGAAGCCACTTGTTTACTGGACTCGATTTTTTATCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
aaaactag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctaagtg