Sequence
atgc intronic sequence ATGC exonic sequence...aaaaattccttgttaattaaagacttgagcaacttcaattctcatttttctttgtttctttgagttctgttttttttcttcttttttgttcttttcctagGCATAAGTTTGCACAATTTTCCAGAAGGAATGGCAGTGTTCCTTGGATCCTTAAAG
Basic information
species | Glycine max |
transcript | GLYMA15G03820.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G03820.2 (Glycine max), 3'ss of exon 5
lower sequence: AT3G20870.1 (Arabidopsis thaliana), 3'ss of exon 5
aaaaattccttgttaattaaagacttgagc---aacttcaattctcatttttctttgtttctttgagttct----gttttttttcttcttttttgttcttttcctagGCATAAGTTTGCACAATTTTCCAGAAGGAATGGCAGTGTTCCTTGGATCCTTAAAG
||| | | | || | | | | ||| ||| | | | ||||| | | | ||| || ||| || | |||| || |||||||||| |||||||||||||||||||| ||||| || || || ||||| |||||
----attttctttgattttgatgttaatgttatagcttaaatacaaaataaa---tgtttttctaaactcttcatgtatttcttatcattttggctttgaactatagGCATAAGCTTGCACAATTTTCCAGAAGGGATGGCTGTATTTCTCGGATCAATAAAG
upper sequence: GLYMA15G03820.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0004g01860.t01 (Vitis vinifera), 3'ss of exon 5
--aaaaattccttgttaattaaagacttgagcaacttcaattctcatttttctttgtttctttgagttctgttttttttcttcttttttgttcttttcctagGCATAAGTTTGCACAATTTTCCAGAAGGAATGGCAGTGTTCCTTGGATCCTTAAAG
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ctttgagtcgctt--ttgtggcatctctttataaatgaatttttctttacttatcaaaaaaaaaaaaaaaattaacagggaaccttatcctctgagttgcagGCATAAGCTTGCACAATTTTCCCGAGGGAATGGCTGTGTTCCTTGGATCAATGAAG
upper sequence: GLYMA15G03820.2 (Glycine max), 3'ss of exon 5
lower sequence: EFJ16604 (Selaginella moellendorffii), 3'ss of exon 5
aaaaattccttgttaattaaagacttgagcaacttcaattctcatttttctttgtttctt-tgagttctgttttttttcttcttttttgttcttttcctagGCATAAGTTTGCACAATTTTCCAGAAGGAATGGCAGTGTTCCTTGGATCCTTAAAG
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-------------------------------------gtactccttgttctctcgcgctcacaagagaagtttacattcgtgttaagt----tttgggcagGAATAAGCTTGCACAACTTTCCTGAGGGAATGGCTGTGTTCCTTGGATCCATGAAG
upper sequence: GLYMA15G03820.2 (Glycine max), 3'ss of exon 5
lower sequence: EFJ32545 (Selaginella moellendorffii), 3'ss of exon 5
aaaaattccttgttaattaaagacttgagcaacttcaattctcatttttctttgtttctt-tgagttctgttttttttcttcttttttgttcttttcctagGCATAAGTTTGCACAATTTTCCAGAAGGAATGGCAGTGTTCCTTGGATCCTTAAAG
| ||| | |||| | || || |||| ||| |||| | ||| ||| ||||| |||||||||||||| || |||||||| ||||||||||| ||| | |||
-------------------------------------gtactccctgttctctcgcgctcacaagagaagtttacattcgtcttaagt----tttgggcagGAATAAGCTTGCACAATTTTCCTGAGGGAATGGCTGTGTTCCTTGGGTCCATGAAGMapped 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|213593225|gb|DB973530.1|DB973530EST: GAAAAAGCATCGTCGGCAAGTTTTATTCAGTGGAATTGTTACAGCTGTAG GCATAAGTTTGCACAATTTTCCAGAAGGAATGGCAGTGTTCCTTGGATCCT
genomic: GAAAAAGCATCGTCGGCAAGTTTTATTCAGTGGAATTGTTACAGCTGTAGgtatggttgt ... cttttcctagGCATAAGTTTGCACAATTTTCCAGAAGGAATGGCAGTGTTCCTTGGATCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttctttgtttctttgagttctgttttttttcttcttttttgttcttttcctagGCATAAGTTTGCACAATTTTCCAGAAGGAATGGCAGTGTTCCTTGGATCCTTAAAG
tttctttgagttctgt CT-rich tract
ttttttttcttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaattccttgttaattaaagacttgagcaacttcaattctcatttttctttgtttctttgagttctgttttttttcttcttttttgttcttttcctagGCATAAGTTTGCACAATTTTCCAGAAGGAATGGCAGTGTTCCTTGGATCCTTAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - -ttccttg
- - - - - - - - - - - - - - -caacttc