Sequence
atgc intronic sequence ATGC exonic sequenceTTTGAAGACAATGGATGTAGTGTTCAATCTTGATTGGTTCAGTGGTGCTTCCAAGAATGAGTGTTCCGCAGCTGTGGGCTACAAGTGGATGCTTAATCAGgtaattggagggtgtccaagaatgagttgtttttttaatggcaaatattaattgtttgtgttgttagttttttttttttttttttgttaatgggaggatt...
Basic information
species | Glycine max |
transcript | GLYMA14G08870.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G08870.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G136538_T03 (Zea mays), 5'ss of exon 3
TTTGAAGACAATGGATGTAGTGTTCAATCTTGATTGGTTCAGTGGTGCTTCCAAGAATGAGTGTTCCGCAGCTGTGGGCTACAAGTGGATGCTTAATCAGgtaattggagggtgtccaagaatgagttgtttttttaatggcaaatattaattgtttgtgttgttagtt--ttttttttttttttttgttaatgggaggatt
| || | |||||| ||||| || | |||||| |||| ||||||||||||||||||| | || ||| | |||| ||||||||||||||||||||| || || || | ||| || | | || | ||| | || | | | | | || || | |||
AGTAAATGCCATGGATAGAGTGTACAGCTTGGATTGGAACAGTAGTGCTTCCAAGAATGAGTGCACTGCTGCTATTGGCTTCAAGTGGATGCTTAATCAGgtgatgactaaaacatgcagtatagataatttaattggatatcatt-ttgttcatttattttttcattcagtcccagtacattcacaactaggtgctagat-
upper sequence: GLYMA14G08870.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G003530_T01 (Zea mays), 5'ss of exon 3
TTTGAAGACAATGGATGTAGTGTTCAATCTTGATTGGTTCAGTGGTGCTTCCAAGAATGAGTGTTCCGCAGCTGTGGGCTACAAGTGGATGCTTAATCAGgta---attggagggtgtc-caagaatgagttgtttttttaatggcaaatattaattgtttgtgttgttagttttttttttttttttttgttaatgggaggatt
| | || ||||| ||||| |||| | || ||| |||| | ||||||||||||||||| | |||||| | |||| |||||||||||| |||||||| | | | || | || | || ||| | || | | | | || ||| | |||||| | | ||| || ||| | | | |
AATAGATACCCTGGATAAAGTGTACAATTTGGACTGGAACAGTAGCGCTTCCAAGAATGAGTGCACTGCAGCTATTGGCTTCAAGTGGATGCTAAATCAGgtgcggactaaaacatgcagtatagataatttatttggatgat--cctttttcatttatttttccatttagttccagtatgtttcaattattagtatgtgta--
upper sequence: GLYMA14G08870.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv18s0001g11050.t01 (Vitis vinifera), 5'ss of exon 2
TTTGAAGACAATGGATGTAGTGTTCAATCTTGATTGGTTCAGTGGTGCTTCCAAGAATGAGTGTTCCGCAGCTGTGGGCTACAAGTGGATGCTTAATCAGgtaattggagggtgtccaagaatgagttgtttttttaatggcaaatattaattgtttgtgttgttagttttttttttttttttttgttaatgggaggatt-----
| ||| ||||||||| ||| | || || || ||||||||| ||||||||||||||||||| | || || || |||| ||| ||||||||||||||||| | | | | | | | |||| | || | || | || | | | | ||| | || | || || ||||||||
TCTGAGTACAATGGATAAAGTATATAACCTGGACTGGTTCAGTAGTGCTTCCAAGAATGAGTGCTTGGCTGCAGTTGGCTTCAAATGGATGCTTAATCAGgtgagt--aacataacagaatttcagttcatgacttga-atttcatttgaaaaatgtagttaatcggttatgcgcttctattatta--aatgggagatcatgttg
upper sequence: GLYMA14G08870.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S57_92V6.1 (Physcomitrella patens), 5'ss of exon 4
TTTGAAGACAATGGATGTAGTGTTCAATCTTGATTGGTTCAGTGGTGCTTCCAAGAATGAGTGTTCCGCAGCTGTGGGCTACAAGTGGATGCTTAATCAGgta--------attggagggtgtccaagaatgagttgtttttttaatggcaaatattaattgtttgtgttgttagtttttt---ttttt----tttttttgttaatgggaggatt--------------
| | | ||||| || ||||| | || ||| | | ||||||| |||||||| || ||||||||||||| | |||||||||||| ||||||||| |||| | |||| | | | | | | | | || ||| ||| | |||| ||||| ||| | ||| ||| | |
TGCTAGAAACATGGACAAGGTCTTCAACTTGGACTGGCTGAACAGTGCTTCGAAGAATGAATGCACCGCAGCTGTGGGTTTCAAGTGGATGCTAAATCAGgtagacatttcattgaaacaactccatgtttttgattcaaatgttgcaatgagcgcaacttttttactttgcttcttttccacctttttaaaatttctgtgtcgatgtgtgatgctcgttttgctgcagMapped 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|192318876|gb|FK011448.1|FK011448EST: AAGAATGAGTGTTCCGCAGCTGTGGGCTACAAGTGGATGCTTAATCAG GGTTTGATGGAGCATCATAAGGAGATAGTGGAATACTTTGAACGGAGGAAA
genomic: AAGAATGAGTGTTCCGCAGCTGTGGGCTACAAGTGGATGCTTAATCAGgtaattggag ... atattggcagGGTTTGATGGAGCATCATAAGGAGATAGTGGAATACTTTGAACGGAGGAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTGAAGACAATGGATGTAGTGTTCAATCTTGATTGGTTCAGTGGTGCTTCCAAGAATGAGTGTTCCGCAGCTGTGGGCTACAAGTGGATGCTTAATCAGgtaattggagggtgtccaagaatgagttgtttttttaatggcaaatattaattgtttgtgttgttagttttttttttttttttttgttaatgggaggatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgggagg