Sequence
atgc intronic sequence ATGC exonic sequence...tcaatgatagtttccttggtccatttggaaggtaatcgttactttttccacatgttttgaaacctatcagctatcttcaaactttatatgccatttgcagGTAGTAGAACTGCTAGGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAACACCAAGCTACTATAGTTTGGCTGCATGGTCTTGG
Basic information
species | Glycine max |
transcript | GLYMA08G22420.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G22420.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G52700.1 (Arabidopsis thaliana), 3'ss of exon 1
-------tcaatgatagtttccttggtccatttggaaggtaatcgttactttttccacatgttttgaaacctatcagctatcttcaaactttatatgccatttgcagGTAGTAGAACTGCTAGGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAACACCAAGCTACTATAGTTTGGCTGCATGGTCTTGG---
| |||||| || || ||||| || | | | | ||| | ||||||| | | | | | || || |||| ||||||||||| ||| ||| || | || ||||| | ||| |||| |||||||| |||||||| || ||||| ||| |||| ||||| |||||||||||
tgggttttggcctgaagtttcttttgtt-atttgaaaaaataaagaaattctttttgc-----ttgaaacttgttta-tgacactgtatttggtaaaatctttgaagGTAGTAGAAATGCAAGGGGA---TATGAATTTGGAAGGACTTATGTTGTGAGGCCTAAAGGAAAGCATCAAGCCACTCTAGTCTGGCTTCATGGTCTTGGTGA
upper sequence: GLYMA08G22420.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G15650.2 (Arabidopsis thaliana), 3'ss of exon 1
------tcaatgatagtttccttggtccatttggaaggtaatcgttactttttc---cacatgttt-tgaaacctatcagctatcttcaaactttatatg---ccatttgcagGTAGTAGAACTGCTAGGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAACACCAAGCTACTATAGTTTGGCTGCATGGTCTTGG---
| | || ||||| ||| | | | ||| | | | | || || || || | || ||| | | | || | |||| ||||||||||| | | ||| ||| |||||||| | ||| |||| |||||||| |||||||| |||||||||||||| |||||| |||| ||||||||
gtttgtttctcacttacttgtttggttcatgtt-agtattatcttaagtgtgtcacttgtgtgcttatgtgattactctgctttatatatgtttctggcaaaatcttttgtagGTAGTAGAAGTACAAGGG---GCTATGAGTTTGGAAGGACTTATGTTGTGAGGCCTAAAGGAAAGCACCAAGCTACTATTGTTTGGTTGCACGGTCTTGGAGA
upper sequence: GLYMA08G22420.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 2
tcaatgatagtttccttggtccatttggaaggtaatcgttactttttccacatgttttgaaacctatca--gctatcttcaaactttata--tgccatttgcagGTAGTAGAACTGCTAGGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAACACCAAGCTACTATAGTTTGGCTGCATGGTCTTGG
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-ttttttcccctttttgggatcatctgtggaatttgaattatttttctcttat---ttaaaaattattatggttttgagctgactttcttgctaaaaatttcagGTAGTAGAACTGCAAGAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGMapped 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|14011490|gb|BG726412.1|BG726412EST: AATTGTTTGTAACAGAAAAATGAGCTATCCACATTATCATATGGGCTCTG GTAGTACAACTGCTAGGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGA
genomic: AATTGTTTGTAACAGCAAAATGAGCTATCCACATTATCATATGGGCTCTGgttagttctt ... ccatttgcagGTAGTAGAACTGCTAGGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttccacatgttttgaaacctatcagctatcttcaaactttatatgccatttgcagGTAGTAGAACTGCTAGGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAACACCAAGCTACTATAGTTTGGCTGCATGGTCTTGG
ttcaaactttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaatgatagtttccttggtccatttggaaggtaatcgttactttttccacatgttttgaaacctatcagctatcttcaaactttatatgccatttgcagGTAGTAGAACTGCTAGGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAACACCAAGCTACTATAGTTTGGCTGCATGGTCTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - -ttccttg
- - - - - - - - - - - - -tggaagg
- - - - - - - - - - - - - - - - - - - - - - - - - - tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcaaact