Sequence
atgc intronic sequence ATGC exonic sequence...aatagtattttatcttcttgctaagttcatagacaatactatatacttgatggattttattacatttcaatttttctgatgagctagatggaatttgcagAGGGCGTTATTGCAGGTGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTATACCCAATTGACACAATAAAAACACGTCTGCAG
Basic information
species | Glycine max |
transcript | GLYMA08G15150.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G15150.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G169914_T01 (Zea mays), 3'ss of exon 2
aatagtattttatcttcttgctaagttca----tagacaatactatatacttgatggattttattacatttcaatttttctgatgagctagatggaatttgcagAGGGCGTTATTGCAGGTGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTATACCCAATTGACACAATAAAAACACGTCTGCAG
| ||| | ||| | | || | || |||| || || ||| | | ||| ||| ||| ||| | || | |||| ||||||| | | || || || | ||||| ||||||||||||||||||||||| || ||||| |||||||| || | || |||
-agagttctctattcagcagttggatttagatttatggtatacaatgtaggct-tggttgtccttatgcctca-tttgcttgacgtgccttttacaattc-cagAGGGGGCCTTGGCTGGAGGAGCTGCTGGTGTTGTTGTTGAAACAGCTTTATATCCTATTGATACAATAAAGACCAGGCTTCAG
upper sequence: GLYMA08G15150.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G39460.1 (Arabidopsis thaliana), 3'ss of exon 3
-----------------------------------------------------------------------------------------aatagtattttatcttcttgctaa--gttcatagacaatactatatacttgatggattt---tattacatttcaatttttctgatgagctagatggaatt-tgcagAGGGCGTTATTGCAGGTGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTATACCCAATTGACACAATAAAAACACGTCTGCAG----
| || | | || | || ||||||| ||| | || | | | | | || | | | | || |||| ||| | | | || ||||||||| |||| ||||| ||||||||||||||||| |||||||||||||||||||||||||| || || || || | || |||
gtttgtgtatattttgtcttttggttcatttgcaactattattttatgaatctcatgttctgactcatatacagtccttgtatctgaaaagtaatttctttttttattgctaatagtttggcatttttgctttgaa-tcggcagcttcaggtgtctaagtcttgttattcttatgttttggttttgatgatgcagAGGGGTTTATAGCAGGAGGTACAGCTGGAGTTGTAGTTGAAACAGCTTTATACCCAATTGATACTATTAAGACTAGACTTCAGGCAGMapped 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|20811387|gb|BQ295865.1|BQ295865EST: AGTTAGCATGGGAGATGAAAAGCCATTTTACTTCCTACGCACTTTATTTG AGGGCGTTATTGCAGGTGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTAT
genomic: AGTTAGCATGGGAGATGAAAAGCCATTTGACTTCCTACGCACTTTATTTGgtaagtataa ... gaatttgcagAGGGCGTTATTGCAGGTGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgatggattttattacatttcaatttttctgatgagctagatggaatttgcagAGGGCGTTATTGCAGGTGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTATACCCAATTGACACAATAAAAACACGTCTGCAG
ttctgat putative branch site (score: 3)
attttattacatttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatagtattttatcttcttgctaagttcatagacaatactatatacttgatggattttattacatttcaatttttctgatgagctagatggaatttgcagAGGGCGTTATTGCAGGTGGTACAGCTGGAGTTGTTGTTGAAACAGCTTTATACCCAATTGACACAATAAAAACACGTCTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - ttcttgc
- - - - - - - - - - - - - - - - - - - - - - -cttgatg