Sequence
atgc intronic sequence ATGC exonic sequencegtcactgtttttttttacaatactcattcagtttctataataaaaaggttaagcgtacgatgctttactggacactgacattataaattttatgtagGTTGTAGAGGATGGGTATGAATTCTTTGCTGATAGGAAACTTGTTACGATATTTTCAGCTCCAAACTATTGTGGTGAATTTGACAATGCTGGTGCGATGA
Basic information
species | Glycine max |
transcript | GLYMA14G07080.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G07080.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g16110.1 (Oryza sativa), 3'ss of exon 2
gtcactgtttttttttacaatactcattcagtttctataataaaaaggttaagcgtacgatgctttactggacactgacattataaattttatgtagGTTGTAGAGGATGGGTATGAATTCTTTGCTGATAGGAAACTTGTTACGATATTTTCAGCTCCAAACTATTGTGGTGAATTTGACAATGCTGGTGCGATGA
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---gtacaattttaatgcaacatcttttcc-tttcagtattttttttggtcaac-tgaggtgatc------atatttatatttcatgtgatgt-cagGTTGTTGAGGATGGATATGAGTTCTTTGCCGACAGACAACTTGTCACCATATTCTCAGCTCCAAACTATTGTGGTGAATTTGATAATGCAGGTGCAATGA
upper sequence: GLYMA14G07080.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G160237_T02 (Zea mays), 3'ss of exon 3
gtcactgtttttttttacaatactcattcagtttctataataaaaaggttaagcgtacgatgctttactggacactgacattata---aattttatgt-agGTTGTAGAGGATGGGTATGAATTCTTTGCTGATAGGAAACTTGTTACGATATTTTCAGCTCCAAACTATTGTGGTGAATTTGACAATGCTGGTGCGATGA
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-gtaccgccttagcatttagtgcagcttctgttttgatctttttatttcacagttaactggaaattgaagg-tgtttatattgcatgcgatgtgatgtcagGTTGTCGAGGATGGGTATGAATTTTTTGCTGACAGACAGCTTGTCACCATATTCTCGGCCCCCAATTATTGTGGTGAATTTGATAATGCTGGTGCAATGA
upper sequence: GLYMA14G07080.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G39840.1 (Arabidopsis thaliana), 3'ss of exon 2
gtcactgtttttttttacaatactcattca-gtttctataataaaaaggttaagcgtacgatgctttactggacactgacattataaattttatg-tagGTTGTAGAGGATGGGTATGAATTCTTTGCTGATAGGAAACTTGTTACGATATTTTCAGCTCCAAACTATTGTGGTGAATTTGACAATGCTGGTGCGATGA
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------------gtagatatttttcaatcatgtctctttgatactactgct---tttgtgatgtt------aacaagggagttggattttttatggcagGTCGTGGAGGATGGGTATGAGTTCTTTGCTGATAGACAACTTGTGACGGTGTTTTCAGCTCCTAACTACTGTGGTGAATTTGATAATGCTGGTGCGATGA
upper sequence: GLYMA14G07080.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0019g02410.t01 (Vitis vinifera), 3'ss of exon 2
gtcactgtttttttttacaatactcattcagtttctataataaaaaggttaagcgtacgatgctttactggacactgacattataaattttatgtagGTTGTAGAGGATGGGTATGAATTCTTTGCTGATAGGAAACTTGTTACGATATTTTCAGCTCCAAACTATTGTGGTGAATTTGACAATGCTGGTGCGATGA
||| | || ||||| | | | | ||| | ||| | ||||| ||| | ||| | |||||||| |||||||| |||||||||||||| |||||| |||||||||| |||| |||||||| ||||| |||||||||||||| ||||||||||| ||||
-------------gttattggcatttttagttttctcttgt-------tctattttac----tcatgctgaaaactgaaattcttcttttggtctagGTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTATTCTCAGCTCCCAACTACTGTGGTGAATTTGATAATGCTGGTGCAATGA
upper sequence: GLYMA14G07080.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S97_286V6.1 (Physcomitrella patens), 3'ss of exon 3
----gtcactgtttttttttacaatactcattcagtttctataataaaaaggttaagcgtacgatgctttactggacactgacattataaattttatgtagGTTGTAGAGGATGGGTATGAATTCTTTGCTGATAGGAAACTTGTTACGATATTTTCAGCTCCAAACTATTGTGGTGAATTTGACAATGCTGGTGCGATGA
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gacgaatttgaacctccgatgcgattgacatgtctcttccaccaccatacttttatattctttgtatacta-tgctgatctgtgtgggatgttacatacagGTAGTAGAGGATGGTTATGAATTTTTCGCTAAGCGCCAACTGGTTACCATTTTTTCTGCTCCAAATTATTGTGGTGAATTTGATAATGCGGGTGCAATGAMapped 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|10845436|gb|BF068555.1|BF068555EST: GAATTCTTGACAAAGCATGACTTGGACCTTGTTTGTCGTGCTCACCAG GTTGTAGAGGATGGGTATGAATTCTTTGCTGATAGGAAACTTGTTACGATA
genomic: GAATTCTTGACAAAGCATGACTTGGACCTTGTTTGTCGTGCTCACCAGgtcactgttt ... ttttatgtagGTTGTAGAGGATGGGTATGAATTCTTTGCTGATAGGAAACTTGTTACGATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaggttaagcgtacgatgctttactggacactgacattataaattttatgtagGTTGTAGAGGATGGGTATGAATTCTTTGCTGATAGGAAACTTGTTACGATATTTTCAGCTCCAAACTATTGTGGTGAATTTGACAATGCTGGTGCGATGA
cactgac putative branch site (score: 2)
tgacattataaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcactgtttttttttacaatactcattcagtttctataataaaaaggttaagcgtacgatgctttactggacactgacattataaattttatgtagGTTGTAGAGGATGGGTATGAATTCTTTGCTGATAGGAAACTTGTTACGATATTTTCAGCTCCAAACTATTGTGGTGAATTTGACAATGCTGGTGCGATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG