Sequence
atgc intronic sequence ATGC exonic sequence...ctgattatattttactttctccctaacaaatagtaattatatccaatttataattagatttgtaattttggcccgttataattggtaccatgatctgcagTCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACTCTATCTGCTCATGAAGGTCTTATTGCGGCATTGGCGGTTTCTACTGTAAATGGTTTGG
Basic information
species | Glycine max |
transcript | GLYMA14G16040.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G16040.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv04s0008g04910.t01 (Vitis vinifera), 3'ss of exon 8
ctgattatattttactttctccctaacaaatagtaattatatc-caatttataattagatttgtaattttggcccgttataat--tggtaccatgatctgc---agTCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACTCTATCTGCTCATGAAGGTCTTATTGCGGCATTGGCGGTTTCTACTGTAAATGGTTTGG
|||| || | | || | ||| | | | || |||| || | | | ||| | || || | ||| | || ||| |||| | ||||| |||||||||| ||||||||||| |||||||| || |||||||| || || || || || ||||| || || ||||| ||| ||||
----ttatcagttggatcagtcaagtaaaccattaaatgtttagtaacccataa--agctgtcttggcttgatttctaatcatattagtattgttatttgctacagTCTCTAGAGCTTTGGAACATGAGCGAGAACAAGACAATGACTCTTTCAGCTCATGATGGACTAATAGCTGCCTTGGCTGTATCAACTGTGTCTGGCTTGG
upper sequence: GLYMA14G16040.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 18
----ctgattatattttactttctccctaacaaatagtaattatatccaatttataattagatttgtaattttggcccgttataattggtaccatgatctgcagTCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACTCTATCTGCTCATGAAGGTCTTATTGCGGCATTGGCGGTTTCTACTGTAAATGGTTTGG
| | | | | || || || | | | | | || ||| || |||||| | || || | | || || ||||| | ||||| |||||||||| ||||||||||| |||||||| || |||||||| || || || || || ||||| || || ||||| ||| ||||
tatatttccaacagtagagattttcttgaagaggccatgcaagtccttgaacttcaa--agaatt-taatttctaatcattttagt-attgttatttgctacagTCTCTAGAGCTTTGGAACATGAGCGAGAACAAGACAATGACTCTTTCAGCTCATGATGGACTAATAGCTGCCTTGGCTGTATCAACTGTGTCTGGCTTGG
upper sequence: GLYMA14G16040.1 (Glycine max), 3'ss of exon 17
lower sequence: EFJ18641 (Selaginella moellendorffii), 3'ss of exon 17
ctgattatattttactttctccctaacaaatagtaattatatccaatttataattagatttgtaattttggcccgttataattggtaccatgatctgcagTCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACTCTATCTGCTCATGAAGGTCTTATTGCGGCATTGGCGGTTTCTACTGTAAATGGTTTGG
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-------------------------gtacgtctgtttaaagtttatttttttcctcgttttgtgtgttt--cttgatgttcatggttcttctacttgcagTCGCTTGAGCTCTGGAACATGCAAGAGAACAAGACCATGACTATACCCGCTCATGACGGCCTGATCGCGGCATTGGCACAATCTCCAGCGACTGGCATGGMapped 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|20814668|gb|BQ299146.1|BQ299146EST: GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAG TCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACTCTATCTGCT
genomic: GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAGgcaagtctac ... tgatctgcagTCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACTCTATCTGCT
EST:
gi|192318710|gb|FK011408.1|FK011408EST: GTGTTTTCCATCCAACATATTTTTCGCTGTTGGTCGTTGGTTGTTACCAG TCATTGGAGTTCTGGAACATGACTGAGAACAAGACGATGACTCTATCTGCT
genomic: GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAGgcaagtctac ... tgatctgcagTCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACTCTATCTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttataattagatttgtaattttggcccgttataattggtaccatgatctgcagTCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACTCTATCTGCTCATGAAGGTCTTATTGCGGCATTGGCGGTTTCTACTGTAAATGGTTTGG
taattagatttgtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgattatattttactttctccctaacaaatagtaattatatccaatttataattagatttgtaattttggcccgttataattggtaccatgatctgcagTCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACTCTATCTGCTCATGAAGGTCTTATTGCGGCATTGGCGGTTTCTACTGTAAATGGTTTGG
- - - - - - - - ttctccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggcccg