Sequence
atgc intronic sequence ATGC exonic sequenceATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAGgtccgttagttaacattgttgtctcctcttgtgctttacagttgtgttaaaattgtaaggtgtgtgtgtttgattcagagggagtttgctttgcgaag
Basic information
species | Glycine max |
transcript | GLYMA11G02410.3 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G02410.3 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os02g34460.1 (Oryza sativa), 5'ss of exon 2
ATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAGgtccgttagttaacattgttgtctcctcttgtgctttacagttgtgtta-aaattgtaaggtgtgtgtgtttgattcagagggagttt----gctttgcgaag----
||||| ||| |||||||||| || ||||||||||| ||||||||||||||| | | || | | |||||| || ||| | | ||| ||| || | | || ||| | | |||| | | | |
ATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAGgttggct------cactctgctctccttgattggttt-cgatctcattacaaaatggattgcgtaaacaggaaattgggtgattgttttaatccctcgtttaattgg
upper sequence: GLYMA11G02410.3 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os04g35090.1 (Oryza sativa), 5'ss of exon 2
ATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAGgtccgttagttaacattgttgtctcctcttgtgctttacagttgtgttaaaattgtaaggtgtgtg---tgtttgattcagag-ggagttt--gctttgcgaag--
||||| || |||||||||| || ||||||||||| |||||||||||||||| || | ||| ||| | ||| | | | | || || | ||| | | ||||| | ||| | |||| | ||||| ||
ATCATCCCGAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCCAAGgtcagtggttc----ttg--gtccctatttgcacctcgtaatcgtactagaggcgtagagccgccgccatgtttagtggagattgttgttttaggtttgcaaaacg
upper sequence: GLYMA11G02410.3 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G459828_T01 (Zea mays), 5'ss of exon 2
ATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAGgtccg-ttagttaacattgttgtctcct--cttgtgctttacagttgtgttaaaattgtaaggtgtgtgtgtttgattcagagggagtttgctttgcgaag
||||| ||| |||||||||| || ||||||||||| ||||||||| | ||| | | || | | || | | || ||| ||||| || || || | ||| | | |||| | ||
ATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAgtacctcttcaagggtatggtccactagactcgcagtagggtaacctgggctgattggttgt-ttcgccttctaggaggtgacagatc--ttcaaattatttt------------
upper sequence: GLYMA11G02410.3 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G050925_T01 (Zea mays), 5'ss of exon 2
ATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAGgtccgttagttaacattgttgtctcctcttgtgctttacagttgtgttaaaattgtaaggtgtgtgtgtttgattcagagggagtttgctttgcgaag-------------
||||| ||| |||||||||| || ||||||||||| ||||||||| | ||| | | || | | | |||| | || | || | || ||| | ||| | | | | || | ||
ATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGgtatgcga----------ttattcgtccgctaaactcgcagtagggtaacttgcgttggttggttgtttcgctttctaggaggggacgtctt-caaactgtttccttatta
upper sequence: GLYMA11G02410.3 (Glycine max), 5'ss of exon 2
lower sequence: AC209215.4_FGT006 (Zea mays), 5'ss of exon 2
ATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAGgt-ccgttagttaacattgttgtctcct--cttgtgctttacagttgtgttaaaattgtaaggtgtgtgtgtttgattcagagggagtttgctttgcgaag--
||||| ||| |||||||||| || ||||||||||| ||||||||| | ||| || || | | || | | || ||| ||||| || || || | ||| | | |||| | |||| || | | |
ATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGgtatggtccactagactcgcagtagggtaacctgggctgattggttgt-ttcgccttctaggaggtg-acatatc-ttcaaattatttttgtattactaggag
upper sequence: GLYMA11G02410.3 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G043737_T01 (Zea mays), 5'ss of exon 2
ATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAGgtccgttagttaacattgttgtctcctcttgtgctttacagttgtgttaaaattgtaaggtgtgtgtgtttga---ttcagagggagtttgctttgcgaag-----------
||||| ||| |||||||||| || ||||||||||| ||||||||| | ||| | | ||| | | | | |||| | || || || | || ||||| | | || || | | | | | ||
ATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGgt----------atgtggttcttggtccactagactcgcagtagggt--aacctgggctgattggttgtttcaccttctaggaggtgacaggtcttcaaattattttcgtatMapped 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|58014465|gb|CX701207.1|CX701207EST: ATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG AAGGACTTCAATCTGGCAAAGCACCCAGAGATTGATGTGCCGAATCTGCAG
genomic: ATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAGgtccgttagt ... ctttgcgaagAAGGACTTCAATCTGGCAAAGCACCCAGAGATTGATGTGCCGAATCTGCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAGgtccgttagttaacattgttgtctcctcttgtgctttacagttgtgttaaaattgtaaggtgtgtgtgtttgattcagagggagtttgctttgcgaag
- - - - - - AAGAAC
- - - - - - - - - - - AAGAGA
- - - - - - - - - - - - GAGATC