Sequence
atgc intronic sequence ATGC exonic sequence...caaaagcattcaaggaactgtatccaagttttgtccttttttgttttggttacattggttattgtgtgtttatgtgtgtgtttaatttctggggttggagGGGAGTTGAAGAAAATGCTGTCTGGGCCAACTGGGTTACACCATGAAGATCAAAAGCTGTTATACAAAGACAAGGAGAGGGATTCAAAGGCTTTTCTTGA
Basic information
species | Glycine max |
transcript | GLYMA16G32280.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G32280.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0100g00470.t01 (Vitis vinifera), 3'ss of exon 1
caaaagcattcaaggaactgtatccaagttttgtccttttttgttt-tggttacattggttattgtgtgtttatg-tgtgtgtttaat--ttctggggttggagGGGAGTTGAAGAAAATGCTGTCTGGGCCAACTGGGTTACACCATGAAGATCAAAAGCTGTTATACAAAGACAAGGAGAGGGATTCAAAGGCTTTTCTTGA
| | | | | | | ||| || | | | | ||| ||| | | | ||| || || || | | | ||| ||||||||||||||| ||| |||| |||||||| ||| | ||||| |||| || |||||||| | ||| |||||||||||||| || || || | |||||
----gtcttctcctgtagtttgtgtttgttatgagaatgatcttatatggaagtggtggaaaaatagaataaatgatggagaattgatggtggttgaattgcagGGGAGTTGAAGAAGATGTTGTCAGGGCCAACAGGGCTTCACCACCAAGACCAGAAGCTGTTGTTCAAGGACAAGGAGAGGGACTCCAATGCCTACCTTGAMapped 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|16348491|gb|BI974086.1|BI974086EST: ATATGGTTCAATTTATCATGAAGTCAACATTAGTTCACAAGCTACATTTG GGGAGTTGAAGAAAATGCTGTCTGGGCCAACTGGGTTACACCATGAAGATC
genomic: ATATGGTTCAATTTATCATGAAGTCAACATTAGTTCACAAGCTACATTTGgtaactcttc ... ggggttggagGGGAGTTGAAGAAAATGCTGTCTGGGCCAACTGGGTTACACCATGAAGATC
EST:
gi|254333908|gb|GR848826.1|GR848826EST: ATATGGTTCAATTTATCATGAAGTCAACATTAGTTCACAAGCTACATTTG GGGAGTTGAAGAAAATGCTGTCTGGGCCAACTGGGTTACACCATGAAGATC
genomic: ATATGGTTCAATTTATCATGAAGTCAACATTAGTTCACAAGCTACATTTGgtaactcttc ... ggggttggagGGGAGTTGAAGAAAATGCTGTCTGGGCCAACTGGGTTACACCATGAAGATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggttacattggttattgtgtgtttatgtgtgtgtttaatttctggggttggagGGGAGTTGAAGAAAATGCTGTCTGGGCCAACTGGGTTACACCATGAAGATCAAAAGCTGTTATACAAAGACAAGGAGAGGGATTCAAAGGCTTTTCTTGA
gtttaat putative branch site (score: 4)
tgtttaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caaaagcattcaaggaactgtatccaagttttgtccttttttgttttggttacattggttattgtgtgtttatgtgtgtgtttaatttctggggttggagGGGAGTTGAAGAAAATGCTGTCTGGGCCAACTGGGTTACACCATGAAGATCAAAAGCTGTTATACAAAGACAAGGAGAGGGATTCAAAGGCTTTTCTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - -gcattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgtgtg