Sequence
atgc intronic sequence ATGC exonic sequence...atgctttgtattttcctttaatgttttatattattgatttttcttgtgtctatatcaacaacgacaattttacaacattgtcttgtcttttgtgatttagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGCGCCAATTATCCGGAGTATTGGATACGCTATGTTTTGTGTATGGAAGCCAGCGGAAGCATGGATC
Basic information
species | Glycine max |
transcript | GLYMA19G35140.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G35140.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0005g04290.t01 (Vitis vinifera), 3'ss of exon 2
----atgctttgtattttcctttaatgttttatattattgatttttcttgtgtctatatcaacaacgacaat---tttacaacattgtcttgtcttttgtgatttagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGCGCCAATTATCCGGAGTATTGGATACGCTATGTTTTGTGTATGGAAGCCAGCGGAAGCATGGATC
| | || |||| | || ||||| ||||| | ||| | ||| | || | || |||| ||| || || | | | ||| | || |||| || || ||||| ||||| | |||||||| || |||||||| ||||| |||||||| |||||||| || ||||| ||||| |||||||||||||
gtacttcttatgcatttgtcctttgtgttt-gtattaatcctttgattcatgtaacagtgaatcatgatgtaccatttaatccatggtgttat-tcatatgaatcagGTTGTTAAATTATATGAAAGATGCCTAATTGCATGTGCAAATTATCCCGAGTACTGGATACGATATGTTTTATGCATGGAGGCCAGTGGAAGCATGGATC
upper sequence: GLYMA19G35140.3 (Glycine max), 3'ss of exon 3
lower sequence: EFJ09397 (Selaginella moellendorffii), 3'ss of exon 4
atgctttgtattttcctttaatgttttatattattgatttttcttgtgtctatatcaacaacgacaattttacaacattgtcttgtcttttgtgatt-tagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGCGCCAATTATCCGGAGTATTGGATACGCTATGTTTTGTGTATGGAAGCCAG--CGGAAGCATGGATC
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---------------------------------------------gtaatgctgtcttttcc--ctacttgacg-ctgaaactaatgtattttaattgcagATAGTGAAGGCATACGAGAGATGTGTGATCGCCTGTGCAAATTATCCGGAGTATTGGATTCGCTATATTCATACAATGGAAGCAAAATCTCGATCTGAGA--
upper sequence: GLYMA19G35140.3 (Glycine max), 3'ss of exon 3
lower sequence: EFJ34954 (Selaginella moellendorffii), 3'ss of exon 4
atgctttgtattttcctttaatgttttatattattgatttttcttgtgtctatatcaacaacgacaattttacaacattgtcttgtcttttgtgatt-tagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGCGCCAATTATCCGGAGTATTGGATACGCTATGTTTTGTGTATGGAAGCCAG--CGGAAGCATGGATC
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------------------------------------------------gtaatgcagtcttttccctacttgacgctgaaactaatgtattttaattgcagATAGTGAAGGCATACGAGAGATGTGTGATCGCCTGTGCAAATTATCCGGAGTATTGGATTCGCTATATTCATACAATGGAAGCAAAATCTCGATCTGAGA--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|24135725|gb|BU926235.1|BU926235EST: ATTGGCATAACTATTTGGACTTTATAGAAAGGGAAGGGGACTTGAGCAAG ATTGCCAAGTTGTATGAGAGATGTGTCATTGCATGCGCCAATTATCCGGAG
genomic: ATTGGCATAACTATTTGGACTTTATAGAAAGGGAAGGGGACTTGAGCAAGgtaacatatg ... tgtgatttagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGCGCCAATTATCCGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtctatatcaacaacgacaattttacaacattgtcttgtcttttgtgatttagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGCGCCAATTATCCGGAGTATTGGATACGCTATGTTTTGTGTATGGAAGCCAGCGGAAGCATGGATC
ttgtcttgtctttt CT-rich tract
aattttacaacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgctttgtattttcctttaatgttttatattattgatttttcttgtgtctatatcaacaacgacaattttacaacattgtcttgtcttttgtgatttagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGCGCCAATTATCCGGAGTATTGGATACGCTATGTTTTGTGTATGGAAGCCAGCGGAAGCATGGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
-tgctttg
- - - - - - - - - - - - - - - - - - - - -tcttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -caacaac