Sequence
atgc intronic sequence ATGC exonic sequencegtacaagatttttcacatatcactgttagttttacttaagtatttgaaccaattatatgctgtcttgagaagtaacaaagaaaagcagtttagatgtaggatacctatccaaaagtaacacataacatgcattttattcattattttgttctagGAAGAGAAGGCAATTGAAAGAGGGATTCTTACACTACTACGGCGTGCTACCTTGGTTCAAACATTTGGACAGAGAAATCATGTGTGCTTGAAAGAGGGCT
Basic information
species | Glycine max |
transcript | GLYMA05G33420.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G33420.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g32110.1 (Oryza sativa), 3'ss of exon 2
--------gtacaagatt-tttcacatatcac-tgttagttttacttaagtatttgaaccaattat-atgctg--tcttgagaagtaacaaagaa-aagcagtttag-atgtaggatacct---atccaaaagtaacacataacatgcattt-tattcattattttgttcta--gGAAGAGAAGGCAATTGAAAGAGGGATTCTTACACTACTACGGCGTGCTACCTTGGTTCAAACATTTGGACAGAGAAATCATGTGTGCTTGAAAGAGGGCT
|| | || ||| | | | || || | | | | | || | | | | || || | || | ||| || || | | || | || || | ||||| ||| | || ||| ||||| | | | |||| | | || ||||||||| || ||||| | ||||| ||| || | || || ||||| || ||||||||||| |||||||||| || |||||||||||||| ||||| |
gtaatgatatattggtttatttgtcttcttacctgccaagtccttgtcactgttgtagctagtcatgattttagttccacaatagttttaagaaataggtagctcaggatagatcctacctttagtccctatctattctgaaac-tgcatatgcaatggttatatgtctttacagGAAGAGAAAGCTATTGAGCGTGGGATACTTCCATTGCTCCGCCGTGCCACATTGGTTCAAACTTTTGGACAGAAGAACCATGTGTGCTTGAAGGAGGGTT
upper sequence: GLYMA05G33420.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g00120.t01 (Vitis vinifera), 3'ss of exon 2
-------------------------gtacaagatttttc-acatatcactgttagt----tttacttaagtat----ttgaaccaattatatgctgtcttgagaagtaacaaagaaaagcagtttagatgtaggataccta--tccaaaagtaacacataacatgcattttattcat-tattttgttctagGAAGAGAAGGCAATTGAAAGAGGGATTCTTACACTACTACGGCGTGCTACCTTGGTTCAAACATTTGGACAGAGAAATCATGTGTGCTTGAAAGAGGGCT
|| | | | |||| ||| | | | ||| | | | ||||||||| | | | || | | | || | | | | | |||| || | | || | || | | ||||| | || | |||||||||| || ||||||||||| |||||| | || | |||||| |||||||||||||| |||||||| | |||||||| ||||||||||| ||||
gtaagaaacttcaatttcttttgtcacccagtactcccccacattcattcgtttggatagtctgcttgaatgtgctcttgaaccaactg-gcccagatttagtttttcagagaggcctctggctagtgtcttttcttcctaaactcattattcactttcactgggc-ctctgttcatgtccattataacagGAAGAGAAAGCTATTGAAAGAGGAATTCTTCACTTGCTCCAGCGTGCCACCTTGGTTCAAACTTTTGGACAACGGAATCATGTTTGCTTGAAAGAAGGCT
upper sequence: GLYMA05G33420.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 2
gtacaagatttttcacatatcactgttagttttacttaagtatttgaaccaattatatgctgtcttgagaagtaacaaagaaaagcagtttagatgtaggatacctatccaaaagtaacacataacatgcattttattcattattttgttctagGAAGAGAAGGCAATTGAAAGAGGGATTCTTACACTACTACGGCGTGCTACCTTGGTTCAAACATTTGGACAGAGAAATCATGTGTGCTTGAAAGAGGGCT
|| | || || | || || | || | |||| || || || || | ||| | | || | || || | | | ||||||||||| || |||||| | |||||||| || |||| | ||||| ||||||||||| || |||||||| || || |||||||||||||| ||||| |
-----------------------------------------------------aatgcgaaatcctgcctacatttgaattgaaaaatattcgttgtactttatcttggcataactcacatgtga-gtgttccatctttgttcgtattgtgtagGAAGAGAAAGCTATTGAACGGGGGATTCTCCCATTACTCCAACGTGCAACCTTGGTTCAGACTTTTGGACAAAGGAACCATGTGTGCTTGAATGAGGGTTMapped 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|13312605|gb|BG406256.1|BG406256EST: ATCACTTCTTTGTGGTTCCTCATGACTTTGGGGCATGTTTCCATTACCAG GAAGAGAAGGCAATTGAAAGAGGGATTCTTACACTACTACGGCGTGCTACC
genomic: ATCACTTCTTTGTGGTTCCTCATGACTTTGGGGCATGTTTCCATTACCAGgtacaagatt ... tttgttctagGAAGAGAAGGCAATTGAAAGAGGGATTCTTACACTACTACGGCGTGCTACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatacctatccaaaagtaacacataacatgcattttattcattattttgttctagGAAGAGAAGGCAATTGAAAGAGGGATTCTTACACTACTACGGCGTGCTACCTTGGTTCAAACATTTGGACAGAGAAATCATGTGTGCTTGAAAGAGGGCT
ttttgttct CT-rich tract
attttattcattattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaagatttttcacatatcactgttagttttacttaagtatttgaaccaattatatgctgtcttgagaagtaacaaagaaaagcagtttagatgtaggatacctatccaaaagtaacacataacatgcattttattcattattttgttctagGAAGAGAAGGCAATTGAAAGAGGGATTCTTACACTACTACGGCGTGCTACCTTGGTTCAAACATTTGGACAGAGAAATCATGTGTGCTTGAAAGAGGGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG