Sequence
atgc intronic sequence ATGC exonic sequenceAGAAGTACTTGTCTGGTTTTACGAAGGTGGATGACAATAGATACTCCATGAAGATCTTCTTTGAGATACGCAAGCAGAAGTACTTAGAAGCATTGGACAAgtaggttatctgtggtgtttggctgctgtgttattcttttccaatttgcttactgcttagacatttattttgttgttagttaaaaattgaatgggaaaaatattgtcacag
Basic information
species | Glycine max |
transcript | GLYMA17G12110.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G12110.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv11s0016g05620.t01 (Vitis vinifera), 5'ss of exon 3
AGAAGTACTTGTCTGGTTTTACGAAGGTGGATGACAATAGATACTCCATGAAGATCTTCTTTGAGATACGCAAGCAGAAGTACTTAGAAGCATTGGACAAgtaggttatctgtggtgtttggctgctgtgttattcttttccaatttgcttactgcttagacatttattttgttgttagttaaaaattgaatgggaaaaatattgtcacag
||||||| |||| || || |||||||| ||||| ||||||||||| |||||||| || |||||||| || || || ||||| | ||||| || |||||||| || | | ||| | | | | ||| || | | | | || | | | | | |||| || || | |||||||||
AGAAGTATCTGTCAGGATTCACGAAGGTTGATGATAATAGATACTCTATGAAGATATTTTTTGAGATCCGAAAACAAAAGTATCTGGAAGCCTTAGACAAgtatgtcttat-tggattgttgtttatgtttttatttgcttgatttgggaagccattgaaaaattttgggaattttttttgcaaaattgaag-------------------
upper sequence: GLYMA17G12110.2 (Glycine max), 5'ss of exon 3
lower sequence: PP1S99_260V6.1 (Physcomitrella patens), 5'ss of exon 2
AGAAGTACTTGTCTGGTTTTACGAAGGTGGATGACAATAGATACTCCATGAAGATCTTCTTTGAGATACGCAAGCAGAAGTACTTAGAAGCATTGGACAAgtaggttatctgtggtgtttggctgctgtgttattcttttccaatttgcttactgcttagacatttattttgttgttagttaaaaattgaatgggaaaaatattgtcacag
| || || ||||| ||||| || || || ||||| | || |||||||| |||||||||||||| |||||||||||||| || ||||| |||| ||||| || | | | | || | || | || |||| | ||| || | | | | |||| ||| | | |||||| | || |
AACGATATTTATCTGGGTTTACTAAAGTCGACGACAACCGCTATTCCATGAAAATCTTCTTTGAGATTCGCAAGCAGAAGTATTTGGAAGCTCTGGATAAgtatgta----gcgatttgtgccgcgtgcgg-gctcatttcta--ccacttgaagcaaaacacatcagatgaatgtttgtttagag--gaatggctgtgtcttggtttc--
upper sequence: GLYMA17G12110.2 (Glycine max), 5'ss of exon 3
lower sequence: PP1S316_34V6.1 (Physcomitrella patens), 5'ss of exon 2
AGAAGTACTTGTCTGGTTTTACGAAGGTGGATGACAATAGATACTCCATGAAGATCTTCTTTGAGATACGCAAGCAGAAGTACTTAGAAGCATTGGACAAgtaggttatctgtggtgtttggctgctgtgttattcttttccaattt-gcttactgcttagacatttattttgttgttagttaaaa-attgaatgggaaaaatattgtcacag
| || || ||||| || || |||||||||||||| | || || ||||| ||||||||||||||||| || || |||||| | ||||| |||||||||| || || || | | | | | | || ||| | || || ||| | | || | | | ||| | | || | || | || |
AACGATATTTATCTGGGTTCACTAAGGTGGATGACAACCGCTATTCAATGAAAATCTTCTTTGAGATACGGAAACAAAAGTACCTGGAAGCTCTGGACAAgtacgtattcagttgcatctcgtt-tggagtcattggggtgattcttagcagactacattgatttaagtctcgttctgggggaagatgttatcttggttag------------
upper sequence: GLYMA17G12110.2 (Glycine max), 5'ss of exon 3
lower sequence: EFJ36405 (Selaginella moellendorffii), 5'ss of exon 6
---------------------AGAAGTACTTGTCTGGTTTTACGAAGGTGGATGACAATAGATACTCCATGAAGATCTTCTTTGAGATACGCAAGCAGAAGTACTTAGAAGCATTGGACAAgtaggttatctgtggtgtttggctgctgtgttattcttttccaatttgcttactgcttagacatttattttgttgttagttaa---aaattgaatgggaaaaatattgtcacag
||| |||||||||||| || || ||||||||||||||| | |||||||||||||| ||||| |||||| | ||||| |||||| | || || ||||||| || || | || | | | || || | | ||| | ||||||| |||| | | |||| | || | ||| ||
ATGGGGAGTGGGACGAGGTGGAGAGGTACTTGTCTGGCTTCACCAAGGTGGATGACAATCGCTACTCCATGAAGATTTTCTTGGAGATAAGAAAGCAAAAgtacctcgaggccttggacaggtgagtgactagttctctctctct-ctctctctctctctctttttttgcttttctctta------tctcttgtggcgagccgatctgtgttgtttgcag---------------
upper sequence: GLYMA17G12110.2 (Glycine max), 5'ss of exon 3
lower sequence: EFJ32018 (Selaginella moellendorffii), 5'ss of exon 2
AGAAGTACTTGTCTGGTTTTACGAAGGTGGATGACAATAGATACTCCATGAAGATCTTCTTTGAGATACGCAAGCAGAAGTACTTAGAAGCATTGGACAAgtaggttatctgtggtgtttggctgctgtgttattcttttccaatttgcttactgcttagacatttattttgttg--ttagttaaaaattgaatgggaaaaatattgtc-acag
||| |||||||||||| || || ||||||||||||||| | |||||||||||||| ||||| |||||| | ||||| |||||| | || || ||||||| || || | || | | | || || | | |||||| ||| ||| || || || | | || || |||| | | ||| | |||| |||
AGAGGTACTTGTCTGGCTTCACCAAGGTGGATGACAATCGCTACTCCATGAAGATTTTCTTCGAGATAAGAAAGCAAAAGTACCTCGAGGCCTTGGACAGgtgagtgacaagttttctctttct-ctctttctctctttttatgttttcttgcttctctcttatctcgtgtggtgagccagttctga-taaggggggctctgtgttgtttgcag
upper sequence: GLYMA17G12110.2 (Glycine max), 5'ss of exon 3
lower sequence: EFJ17248 (Selaginella moellendorffii), 5'ss of exon 2
AGAAGTACTTGTCTGGTTTTACGAAGGTGGATGACAATAGATACTCCATGAAGATCTTCTTTGAGATACGCAAGCAGAAGTACTTAGAAGCATTGGACAAgtaggttatctgtggtgtttggctgctgtgttattcttttccaatttgcttactgcttagacatttattt-tgttgttagttaaaaattgaatgggaaaaatattgtcacag
|| |||||||| || ||||| ||||| ||||||||| | || || ||||||||||| || || || |||||||| ||||| || |||||| |||||||||| | | || || ||| || | || || | | ||| || | || | | | | | || || ||
AGCGTTACTTGTCGGGCTTTACCAAGGTAGATGACAATCGCTATTCAATGAAGATCTTTTTCGAAATTCGCAAGCAAAAGTATTTGGAAGCACTGGACAAgtaaggagtttg------tttgctattgattcgtttcttcgctggtagctaacgggtttgttacctctctctggcgtcag--------------------------------
upper sequence: GLYMA17G12110.2 (Glycine max), 5'ss of exon 3
lower sequence: EFJ30926 (Selaginella moellendorffii), 5'ss of exon 2
AGAAGTACTTGTCTGGTTTTACGAAGGTGGATGACAATAGATACTCCATGAAGATCTTCTTTGAGATACGCAAGCAGAAGTACTTAGAAGCATTGGACAAgtaggttatctgt--ggtgtttggctgctgtgttattcttttccaatttgcttactgcttagacatttattttgttgttagttaaaaattgaatgggaaaaatattgtcacag
|| |||||||| || ||||| ||||| ||||||||| | || || ||||||||||| || || || |||||||| ||||| || |||||| |||||||||| | | ||| ||| || | | | | | || || | || | | | | | || || ||
AGCGTTACTTGTCGGGCTTTACCAAGGTAGATGACAATCGCTATTCAATGAAGATCTTTTTCGAAATTCGCAAGCAAAAGTATTTGGAAGCACTGGACAAgtaaggagtttgtttggtattgattcgtttcttcgctgatatctaacgggtttgttacct-----ctctctctggcgtcag--------------------------------
upper sequence: GLYMA17G12110.2 (Glycine max), 5'ss of exon 3
lower sequence: EFJ37833 (Selaginella moellendorffii), 5'ss of exon 2
AGAAGTACTTGTCTGGTTTTACGAAGGTGGATGACAATAGATACTCCATGAAGATCTTCTTTGAGATACGCAAGCAGAAGTACTTAGAAGCATTGGACAAgtaggttatctgtggtgtttggctgctgtgttattcttttccaatttgcttactgcttagacatttattttgttgttagttaaaaattgaatgggaaaaatattgtc-acag
||| |||||||||||| || || ||||||||||||||| | |||||||||||||| ||||| |||||| | ||||| |||||| | || || |||||||||| || | || | | | || | | | || | | ||||||| ||| | | | || | |||| | | ||| | |||| |||
AGAGGTACTTGTCTGGCTTCACCAAGGTGGATGACAATCGCTACTCCATGAAGATTTTCTTCGAGATAAGAAAGCAAAAGTACCTCGAGGCCTTGGACAAgtgagtgacaagttttctctctct-ttctctctttttatgtttttttgcttctctctttatctcgtgtggtga-gccagttctga-taaggggggctctgtgttgtttgcag
upper sequence: GLYMA17G12110.2 (Glycine max), 5'ss of exon 3
lower sequence: EFJ35798 (Selaginella moellendorffii), 5'ss of exon 2
AGAAGTACTTGTCTGGTTTTACGAAGGTGGATGACAATAGATACTCCATGAAGATCTTCTTTGAGATACGCAAGCAGAAGTACTTAGAAGCATTGGACAAgtaggttatctgtggtgtttggctgctgtgttattcttttccaatttgcttactgcttagacatttattttgttgttagttaaaaattgaatgggaaaaatattgtc-acag
||| |||||||||||| || || ||||||||||||||| | |||||||||||||| || || |||||| | ||||| |||||| | || || ||||||| || || | || | | | || || | | ||| | | | | || || | ||| ||| | ||| | | | | |||| |||
AGAGGTACTTGTCTGGCTTCACCAAGGTGGATGACAATCGCTACTCCATGAAGATTTTTTTGGAGATAAGAAAGCAAAAGTACCTGGAGGCCTTGGACAGgtgagtgactagttctctctctct-ctctctctctctctctctctct-ctctctctatgtttttttgcttttctcttatctcttgtggcgagccggtctgtgttgtttgcagMapped 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|192308621|gb|FG999716.1|FG999716EST: AAGATCTTCTTTGAGATACGGAAGCAGAAATACTTAGAAGCATTGGACAA GCAAGATCGAGCTAAAGCGGTGGATATTTTAGTGAAGGATTTGAAAGTATT
genomic: AAGATCTTCTTTGAGATACGCAAGCAGAAGTACTTAGAAGCATTGGACAAgtaggttatc ... attgtcacagGCAAGATCGAGCAAAAGCGGTGGATATTTTAGTGAAGGATTTGAAAGTATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAAGTACTTGTCTGGTTTTACGAAGGTGGATGACAATAGATACTCCATGAAGATCTTCTTTGAGATACGCAAGCAGAAGTACTTAGAAGCATTGGACAAgtaggttatctgtggtgtttggctgctgtgttattcttttccaatttgcttactgcttagacatttattttgttgttagttaaaaattgaatgggaaaaatattgtcacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC