Sequence
atgc intronic sequence ATGC exonic sequencegtacacattatttttcatcactttttgcttatgaatgatctgcattcacataggtttatatatgattttttacaatttccattttgtcttatggtttgagtctgaaataatagcttgacatacatgagtttttttcatgctatttttaatttccagGAAGCTCTGGATGTTGTCCACATTAGCAAAGGAGACCAGGAGAATGTATTTGCAATGCTTGCTGCAGTATTATGGTTAGGAAACATATCATTTACTGTGG
Basic information
species | Glycine max |
transcript | GLYMA10G43230.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 3'ss of exon 11
gtacacattatttttcatcactttttgcttatgaatgatctgcattcacataggtttatatatgattttttacaatttccattttgtcttatggtttgagtctgaaataatagcttgacatacatgagtttttttcatgctatttttaatttccagGAAGCTCTGGATGTTGTCCACATTAGCAAAGGAGACCAGGAGAATGTATTTGCAATGCTTGCTGCAGTATTATGGTTAGGAAACATATCATTTACTGTGG
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-----------------------------------------------------------gtaactccctcattaagtcaaaccttttctctttttctttctctg---caacttcgagacatttatttcgaccttttacgttgccgtt-----tcagGAAGCTTTAGATATTGTGCATGTTAGTAAAGAAGATCAAGAAAATGTATTTGCAATGCTTGCTGCAGTATTATGGCTAGGGAATGTTTCTTTTACCATTA
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 12
gtacacattatttttcatcactttttgcttatgaatgatctgcattcacataggtttatatatgattttttacaatttccattttgtcttatggtttgagtctgaaataatagcttgacatacatgagtttttttcatgctatttttaatttccagGAAGCTCTGGATGTTGTCCACATTAGCAAAGGAGACCAGGAGAATGTATTTGCAATGCTTGCTGCAGTATTATGGTTAGGAAACATATCATTTACTGTGG
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-------------------------------------------------gtaattctctctttcagttag-atactttcttcctcctcttctctactcatttcagacctttatttttctgtttattgatttaaaagtttctgttgttg-----cagGAAGCTCTGGACATTGTGCATGTTAGTAAAGAAGATCAAGAAAGTGTATTTGCAATGCTTGCTGCAGTTTTATGGCTGGGAAACGTTTCCTTCACCGTTA
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 10
gtacacattatttttcatcactttttgcttatgaatgatctgcattcacataggtttatatatgattttttacaatttccattttgtcttatggtttgagtctgaaataatagcttgacatacatgagtttttttcatgctatttttaatttccagGAAGCTCTGGATGTTGTCCACATTAGCAAAGGAGACCAGGAGAATGTATTTGCAATGCTTGCTGCAGTATTATGGTTAGGAAACATATCATTTACTGTGG
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--------------------------------gtattttttcccttcttg-atgactaaacccaatattaatcatttttgtacctattttcttctctatgatatggataaagggtggtgatgtgtgcatgtacttgattttaatttt--ttttcagGAAGCTTTGGATATTGTTCATGTCAGCAAAGAGGACCAAGAGAGTGTATTTGCCATGCTTGCTGCAGTTTTGTGGATGGGAAATGTCTCGTTTACTGTGAMapped 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|193631365|gb|FK584624.1|FK584624EST: GTTATTCAATTACGGGAGTTGATGATGCAGAAGAATTTCGCATAGTTAAG GAAGCTCTGGATGTTGTCCACATTAGCAAAGGAGACCAGGAGAATGTATTT
genomic: GTTATTCAATTACGGGAGTTGATGATGCAGAAGAATTTCGCATAGTTAAGgtacacatta ... taatttccagGAAGCTCTGGATGTTGTCCACATTAGCAAAGGAGACCAGGAGAATGTATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgaaataatagcttgacatacatgagtttttttcatgctatttttaatttccagGAAGCTCTGGATGTTGTCCACATTAGCAAAGGAGACCAGGAGAATGTATTTGCAATGCTTGCTGCAGTATTATGGTTAGGAAACATATCATTTACTGTGG
ttttaat putative branch site (score: 3)
ctattttt CT-rich tract
tttttttcatgctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacacattatttttcatcactttttgcttatgaatgatctgcattcacataggtttatatatgattttttacaatttccattttgtcttatggtttgagtctgaaataatagcttgacatacatgagtttttttcatgctatttttaatttccagGAAGCTCTGGATGTTGTCCACATTAGCAAAGGAGACCAGGAGAATGTATTTGCAATGCTTGCTGCAGTATTATGGTTAGGAAACATATCATTTACTGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG