Sequence
atgc intronic sequence ATGC exonic sequenceAGAAATACCTCTCTGGTTTCACAAAGGTGGATGATAATAGGTATTCCATGAAGATATTTTTTGAGATAAGGAAGCAGAAGTATCTGGAGGCTTTAGATAAgtaagctcacaacgagttcacatttagattctgttgttgacttgactctctgcattctagttctaggcttctactactagcagacaagtttagttgaactgtttttaattttcgtag
Basic information
species | Glycine max |
transcript | GLYMA08G22910.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G22910.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0002g08370.t01 (Vitis vinifera), 5'ss of exon 2
AGAAATACCTCTCTGGTTTCACAAAGGTGGATGATAATAGGTATTCCATGAAGATATTTTTTGAGATAAGGAAGCAGAAGTATCTGGAGGCTTTAGATAAgtaagctcacaacgagttcacat-ttagattctgttgttgacttgactctctgcattctagttctaggcttctactactagcagacaa--gtttagttgaactgtttttaattttcgtag-----------------
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AGAAGTACCTCTCTGGTTTTACGAAGGTGGATGATAATCGGTATTCAATGAAAATCTTTTTCGAAATTAGGAAGCAGAAGTATCTTGAGGCATTGGACAAgtaagcttgcaatttttggaaatgttacattacatttt----ccaattttttttattctt-ttctgaaaatttattgc-accatacaattgtatggtagaactgtatgtgaattgggaacatttgcatctttaatag
upper sequence: GLYMA08G22910.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ36405 (Selaginella moellendorffii), 5'ss of exon 6
---------------------AGAAATACCTCTCTGGTTTCACAAAGGTGGATGATAATAGGTATTCCATGAAGATATTTTTTGAGATAAGGAAGCAGAAGTATCTGGAGGCTTTAGATAAgtaagctcacaacgagttcacatttagattctgttgttgacttgactctctgcattctagttctaggcttctactactagcagacaagtttagttgaactgtttttaattttcgtag
||| ||| | ||||| ||||| ||||||||||| ||| | || ||||||||||| || || |||||||| ||||| ||||| || ||||| || || | || || || ||||| | | ||| | |||||| || | | || || || || | | | || | || ||||| |
ATGGGGAGTGGGACGAGGTGGAGAGGTACTTGTCTGGCTTCACCAAGGTGGATGACAATCGCTACTCCATGAAGATTTTCTTGGAGATAAGAAAGCAAAAgtacctcgaggccttggacaggtgagt----gactagttctctctctctctctct-----------ctctctctctttttttgcttttctcttatctcttgtgg-cgagccgatctgtgttgtttgcag---------
upper sequence: GLYMA08G22910.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ32018 (Selaginella moellendorffii), 5'ss of exon 2
AGAAATACCTCTCTGGTTTCACAAAGGTGGATGATAATAGGTATTCCATGAAGATATTTTTTGAGATAAGGAAGCAGAAGTATCTGGAGGCTTTAGATAAgtaagctcacaacgagttcacatttagattctgttgttgacttgactctctgcattctagttctaggcttctactactagc-agacaagtttagttgaactgtttttaattttcgtag
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AGAGGTACTTGTCTGGCTTCACCAAGGTGGATGACAATCGCTACTCCATGAAGATTTTCTTCGAGATAAGAAAGCAAAAGTACCTCGAGGCCTTGGACAGgtgagt----gacaagttttctctttctctctttctctctttttatgttttcttgcttctctcttatctcgtgtggtgagccagttctgataaggggggctctgtgttgtttgcag--
upper sequence: GLYMA08G22910.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ37833 (Selaginella moellendorffii), 5'ss of exon 2
AGAAATACCTCTCTGGTTTCACAAAGGTGGATGATAATAGGTATTCCATGAAGATATTTTTTGAGATAAGGAAGCAGAAGTATCTGGAGGCTTTAGATAAgtaagctcacaacgagttcacatttagattctgttgttgacttgactctctgcattctagttctaggcttctactactagc-agacaagtttagttgaactgtttttaattttcgtag
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AGAGGTACTTGTCTGGCTTCACCAAGGTGGATGACAATCGCTACTCCATGAAGATTTTCTTCGAGATAAGAAAGCAAAAGTACCTCGAGGCCTTGGACAAgtgagt----gacaagttttctctctctttct-ctctttttatgtttttttgc-ttctctctttat-ctcgtgtggtgagccagttctgataaggggggctctgtgttgtttgcag--Mapped 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|207679424|gb|GD662996.1|GD662996EST: AAGATATTTTT-GAGATAAGGAAGCAGAAGTATCTGGAGGCTTTAGATAA GCATGAACCGGTCCAAGGC
genomic: AAGATATTTTTTGAGATAAGGAAGCAGAAGTATCTGGAGGCTTTAGATAAgtaagctcac ... attttcgtagGCATGA-CCGGTCCAAGGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAAATACCTCTCTGGTTTCACAAAGGTGGATGATAATAGGTATTCCATGAAGATATTTTTTGAGATAAGGAAGCAGAAGTATCTGGAGGCTTTAGATAAgtaagctcacaacgagttcacatttagattctgttgttgacttgactctctgcattctagttctaggcttctactactagcagacaagtttagttgaactgtttttaattttcgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG