Sequence
atgc intronic sequence ATGC exonic sequenceAGCGGCGCTGAGAGAGGCTTACAAGAAGAAGAAGTATTTGCCCCTTGACCTCCGTCCCAAGAAGACCCGCGCCATTCGCAGACGCCTTACCAAACACCAGgtttcattctcttttcgcacaattcttttgtttggttattaattgatttggcgagtaatttaaattttttgtcatttttttattatttaatgttaccact...
Basic information
species | Glycine max |
transcript | GLYMA13G19650.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G19650.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os04g30730.1 (Oryza sativa), 5'ss of exon 3
AGCGGCGCTGAGAGAGGCTTACAAGAAGAAGAAGTATTTGCCCCTTGACCTCCGTCCCAAGAAGACCCGCGCCATTCGCAGACGCCTTACCAAACACCAGgttt-----cattctcttttcgcacaattcttttgtttggttattaattgatttggcgagtaat--ttaaattttttgtcatttttttattatttaatgttaccact
||||||||||| ||||| ||||||||||||| | || || |||||||| |||||||||||||||||||| ||||| ||||| ||||| |||||||| | || | | | || ||||| || ||| || | | || | || || | | | ||||| |||| | |
GGCGGCGCTGAGGGAGGCGTACAAGAAGAAGAGCCTGCTCCCGCTCGACCTCCGCCCCAAGAAGACCCGCGCCATCCGCAGGCGCCTCACCAAGCACCAGgtatagaaacaactcgtgtctcttctctttctttgtcccatt-cgaatgcatctaccttatactaattggatgtgaattacctcagttattgtttagggct------
upper sequence: GLYMA13G19650.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os02g30050.1 (Oryza sativa), 5'ss of exon 3
AGCGGCGCTGAGAGAGGCTTACAAGAAGAAGAAGTATTTGCCCCTTGACCTCCGTCCCAAGAAGACCCGCGCCATTCGCAGACGCCTTACCAAACACCAGgtttcattctcttt----tcgcacaattcttttgtttggttattaa-ttgatttggcgagtaatttaaattttttgtcatttttttattatttaatgttaccact
||||||||| | ||||| ||||||||||||| | ||||| |||||||| |||||||||||||||||||| ||| | ||||| ||||| |||||||| | | | | || || || | | | | || | || | || ||| | || | | || || | ||| | |||
GGCGGCGCTGCGTGAGGCGTACAAGAAGAAGAGCCTCCTCCCCCTCGACCTCCGCCCCAAGAAGACCCGCGCCATCCGCCGCCGCCTCACCAAGCACCAGgtataagatttcataaaaccgtgcacacctactactgatatctaaaactcatgctgatagagattcacatggtgtcatcttccttcaaacttttagctta-----
upper sequence: GLYMA13G19650.1 (Glycine max), 5'ss of exon 2
lower sequence: AC206642.4_FGT001 (Zea mays), 5'ss of exon 3
AGCGGCGCTGAGAGAGGCTTACAAGAAGAAGAAGTATTTGCCCCTTGACCTCCGTCCCAAGAAGACCCGCGCCATTCGCAGACGCCTTACCAAACACCAGgt-ttcattctcttttcgcacaattcttttgtttggt---tattaattgatttggcgagtaatttaaattttttgtc--atttttttattatttaatgttaccact
|||||||| | ||||| ||||||||||||||| | || || |||||||| |||||||||||||||||||| ||||| ||||| ||||| |||||||| | || || | | | | | || || ||||| | | | | || | | || ||| || || || | ||| |
GTCGGCGCTGCGTGAGGCGTACAAGAAGAAGAAGCTGCTCCCGCTCGACCTCCGCCCCAAGAAGACCCGCGCCATCCGCAGGCGCCTCACCAAGCACCAGgtatatgctcatgttccttgcgtctactctaatttgtccgcattaacgcgtcgtgtttacatgctgaagctcctatctgattgttctactagt-gctgtga-----
upper sequence: GLYMA13G19650.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G010599_T02 (Zea mays), 5'ss of exon 3
AGCGGCGCTGAGAGAGGCTTACAAGAAGAAGAAGTATTTGCCCCTTGACCTCCGTCCCAAGAAGACCCGCGCCATTCGCAGACGCCTTACCAAACACCAGgt-----ttcattctcttttcgcacaattcttttgtttggttattaattgatttggcgagtaatttaaattttttgtcatttttttattatttaatgttaccact
|||||||| | ||||| ||||||||||||||| | | || || || ||||| |||||||||||||||||||||||||| ||||| ||||| ||||||| | || || || || | ||| | | | | || |||| | ||| || |||| | || | || | | | | ||
GTCGGCGCTGCGTGAGGCGTACAAGAAGAAGAAGCTTCTCCCGCTCGATCTCCGCCCCAAGAAGACCCGCGCCATTCGCAGGCGCCTCACCAAGTACCAGgtatatacttatgttccttgcgtctacttcaat-gcgttctctttcattgctgaagcgcttattttat-tgttctaccagtgctgtgaggctagctgggttt---
upper sequence: GLYMA13G19650.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ36167 (Selaginella moellendorffii), 5'ss of exon 3
AGCGGCGCTGAGAGAGGCTTACAAGAAGAAGAAGTATTTGCCCCTTGACCTCCGTCCCAAGAAGACCCGCGCCATTCGCAGACGCCTTACCAAACACCAGgttt-cattctcttttcgcacaattcttttgtttggttattaattgatttggcgagtaatttaaattttttgtcatttttttattatttaatgttaccact
|| |||||||||||| |||||||| |||||||| |||| || || || ||||||||||||||||| || || | ||||| | || ||||| ||||| || | | | | | | | || | || || | || | |
GGCCAAGCTGAGAGAGGCCTACAAGAACAAGAAGTACATGCCTCTGGATCTTCGTCCCAAGAAGACCCGAGCGATCAGGCGACGCTTGACAAAACATCAGgtaaacaattttccattgtagaggtgg--tggcagctttaaaactttctttcttcgcag------------------------------------------
upper sequence: GLYMA13G19650.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ36169 (Selaginella moellendorffii), 5'ss of exon 2
AGCGGCGCTGAGAGAGGCTTACAAGAAGAAGAAGTATTTGCCCCTTGACCTCCGTCCCAAGAAGACCCGCGCCATTCGCAGACGCCTTACCAAACACCAGgtttcattctcttttcgcacaattcttttgtttggttattaattgatttggcgagtaatttaaattttttgtcatttttttattatttaatgttaccact
|| |||||||||||| |||||||| |||||||| |||| || || || ||||| ||||||||||| || || | ||||| | || || || ||||| |||||| | | || || ||| | | |||| ||| || | || | |
GGCCAAGCTGAGAGAGGCGTACAAGAACAAGAAGTACATGCCTCTGGATCTTCGTCCAAAGAAGACCCGAGCGATCAGGCGACGCTTGACAAAGCATCAGgt--------------aaacaatt--------tagaatcta---gaggtggtggaagctctaaaactttctcgcttgtgtttcttcgcag----------
upper sequence: GLYMA13G19650.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ18648 (Selaginella moellendorffii), 5'ss of exon 3
AGCGGCGCTGAGAGAGGCTTACAAGAAGAAGAAGTATTTGCCCCTTGACCTCCGTCCCAAGAAGACCCGCGCCATTCGCAGACGCCTTACCAAACACCAGgtttcattctcttttcgcacaattcttttgtttggttattaattgatttggcgagtaatttaaattttttgtcatttttttattatttaatgttaccact
|| |||||||||||| |||||||| |||||||| |||| || || || ||||||||||||||||| || || | ||||| | || ||||| ||||| ||| ||| |||| | | | | | || || | | ||||| ||||||
GGCCAAGCTGAGAGAGGCGTACAAGAACAAGAAGTACATGCCTCTGGATCTTCGTCCCAAGAAGACCCGAGCGATCAGGCGACGCTTGACAAAACATCAGgtaa------------gcaattttccattgtagaggtggtggcagctctg------aaactttctcgtttgt-gttttttcgcag---------------Mapped 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|10844155|gb|BF067487.1|BF067487EST: TCCGTCCCAAGAAGACTCGCGCCATTCGCAGACGCCTTACCAAACACCAG GTGTCTTTGAAGACGGAACGTGAGAAGAAGAAGGAGCTGTACTTTCCACTA
genomic: TCCGTCCCAAGAAGACCCGCGCCATTCGCAGACGCCTTACCAAACACCAGgtttcattct ... gtttgtgcagGTGTCTTTGAAGACGGAACGTGAGAAGAAGAAGGAGCTGTACTTTCCACTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGCGGCGCTGAGAGAGGCTTACAAGAAGAAGAAGTATTTGCCCCTTGACCTCCGTCCCAAGAAGACCCGCGCCATTCGCAGACGCCTTACCAAACACCAGgtttcattctcttttcgcacaattcttttgtttggttattaattgatttggcgagtaatttaaattttttgtcatttttttattatttaatgttaccact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG