Sequence
atgc intronic sequence ATGC exonic sequenceTCTTCGCTGCTGGCCAGGTGGATTGTGCCTATCTAGATCTATAGGTGACACAGACGTGGGAGAATTTATTGTGCCAATACCACATGTTAAGCAAGTGAAGgtgagctggtttcattattatgttttttgtttggtggcctgtttatgtgaaagcttttagttctaagtttcactgctcttaaacatttgtctattgatttctcag
Basic information
species | Glycine max |
transcript | GLYMA19G41810.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G41810.2 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os03g18970.1 (Oryza sativa), 5'ss of exon 4
TCTTCGCTGCTGGCCAGGTGGATTGTGCCTATCTAGATCTATAGGTGACACAGACGTGGGAGAATTTATTGTGCCAATACCACATGTTAAGCAAGTGAAGgtgagctggtttcattattatgttttttgtttggtggcctgtttatgtgaaagcttttagttctaagtttcactgctcttaaacatttgtctattgatttctcag
||| | ||||||||||||||||||||||| || ||||| || || || || ||||| || || || ||||||||||| |||||||| |||||||||||||||| | ||| | || | || || | | |||| || | ||| | | | | | | | ||||
TCTCAGATGCTGGCCAGGTGGATTGTGCCTTTCAAGATCGATTGGGGATACTGACGTTGGGGAGTTCATTGTGCCAATTCCACATGTCAAGCAAGTGAAGgtgaaat--tttaagagtttgatcaaatgcaaggag--tagcttatcgcaatgaacttaactgtgtatgcttttcattctgggaaattgtag-------------
upper sequence: GLYMA19G41810.2 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os07g49040.1 (Oryza sativa), 5'ss of exon 4
TCTTCGCTGCTGGCCAGGTGGATTGTGCCTATCTAGATCTATAGGTGACACAGACGTGGGAGAATTTATTGTGCCAATACCACATGTTAAGCAAGTGAAGgtgagctggtttcattattatgttttttgtttggtggcctgtttatgtgaaagcttttagt----tctaagtttcactgctcttaaacatttgtctattgatttctcag
||| || |||||||||||||| ||||||| || |||||||| || |||| || || || || || |||||||| || |||||||| ||||||||||||||| | | | | | | | | || || ||| | || || |||| | | ||||| | | | | || | ||| |
TCTCCGGTGCTGGCCAGGTGGCCTGTGCCTTTCAAGATCTATCGGGGACATGGATGTCGGGGAGTTCATTGTGCCGATTCCACATGTGAAGCAAGTGAAGgtgggtagctattagaaagtggatgcaatttctagcttctttttctatggtgtattgtagtataatttctttttcaaggttgtcactttcttactcggtaattgcag--
upper sequence: GLYMA19G41810.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G006429_T02 (Zea mays), 5'ss of exon 4
TCTTCGCTGCTGGCCAGGTGGATTGTGCCTATCTAGATCTATAGGTGACACAGACGTGGGAGAATTTATTGTGCCAATACCACATGTTAAGCAAGTGAAGgtgagctggtttcattattatgttttttgtttggtggcctgtttatgtgaaagcttttagttctaagt---ttcactgctcttaaacatttgtctattgatt-tctcag
||| || ||||||||||||||||||||||| || || || || || || || || || || || || ||||| || || |||||||| |||||||||||||||| || ||| ||||| || | ||||| ||||| ||| | | | || | | || ||| ||| | | ||
TCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATTGGGGATACTGATGTCGGCGAGTTCATTGTACCGATTCCACATGTCAAGCAAGTGAAGgtgaa-----------atcatgagttttggttaaaag-----------gaaagaatttagctcttaacatatcctttgttaacatgtggttttcttttggtaattgtag
upper sequence: GLYMA19G41810.2 (Glycine max), 5'ss of exon 5
lower sequence: AT1G09160.2 (Arabidopsis thaliana), 5'ss of exon 5
TCTTCGCTGCTGGCCAGGTGGATTGTGCCTATCTAGATCTATAGGTGACACAGACGTGGGAGAATTTATTGTGCCAATACCACATGTTAAGCAAGTGAAGgtgagctggtttcattattatgttttttgtttggtggcctgtttatgtgaaagcttttagttctaagtttcactgctcttaaacatttgtctattgatttctcag
|| || |||||||| ||||| || || || || || || || ||||| || || ||||||||||||||||| || |||||||| |||||||||||||| || |||| || | | |||| | | | ||| ||| | || | || | | | ||| | || |
ACTACGATGCTGGCCTGGTGGTTTATGTCTTTCGAGGTCCATTGGTGATACGGATGTGGGAGAATTTATTGTCCCTATACCACACGTTAAGCAAGTGAAAgtaagctccctttcccttggtacatttt--tcattaattcttatatttgaca----ttgatcaaaa-----agtatttttatctgtacgttcag-----------
upper sequence: GLYMA19G41810.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv14s0060g01580.t01 (Vitis vinifera), 5'ss of exon 5
TCTTCGCTGCTGGCCAGGTGGATTGTGCCTATCTAGATCTATAGGTGACACAGACGTGGGAGAATTTATTGTGCCAATACCACATGTTAAGCAAGTGAAGgtgagctggtttcatt--------attatgttttt------tgtttggtggcc--------tgtttatgtgaaagcttt--tagttctaagtttcactgctc---ttaaacatttgtctattgatttctcag
|| ||||||||||| |||||||| || || || || || || ||||||||||| ||||||||||| ||||| |||||||||||||||||||||||||||||| | | ||| | ||| |||| | | |||| | | ||| |||| | ||| || || | || || || | | | ||||||| | ||
ACTCCGCTGCTGGCCTGGTGGATTATGTCTCTCCAGGTCAATTGGTGACACAGATGTGGGAGAATTCATTGTCCCAATACCACATGTTAAGCAAGTGAAGgtgtgtgcaccttattttgtactggtgatggttttattgcatttgtggtagtccaccatattgtactggtgatatttttattactttctgatggtacattctaagttcaatctcttttaattgattattaagMapped 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|208250632|gb|GE043735.1|GE043735EST: CAGACGTGGGAGAATTTATTGTGCCAATACCACATGTTAAGCAAGTGAAG CTTTCAAATGCTGGTGGAAGG
genomic: CAGACGTGGGAGAATTTATTGTGCCAATACCACATGTTAAGCAAGTGAAGgtgagctggt ... gatttctcagCTTTCAAATGCTGGTGGAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTTCGCTGCTGGCCAGGTGGATTGTGCCTATCTAGATCTATAGGTGACACAGACGTGGGAGAATTTATTGTGCCAATACCACATGTTAAGCAAGTGAAGgtgagctggtttcattattatgttttttgtttggtggcctgtttatgtgaaagcttttagttctaagtttcactgctcttaaacatttgtctattgatttctcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG