Sequence
atgc intronic sequence ATGC exonic sequenceTCTTCGGTGCTTCATTCACAACCTAAGTCAACTGTGGGAACTCCAGCATATATTGCTCCAGAAGTATTGCTGAAGCAAGAGTATGATGGCAAGgtagagtactctttagtttcatagtcttgctctttttctgtattaatctcatgataatttgtgtgctagtgagttatattgacttataaaccctggaata...
Basic information
species | Glycine max |
transcript | GLYMA11G06250.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G06250.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os12g39630.1 (Oryza sativa), 5'ss of exon 6
TCTTCGGTGCTTCATTCACAACCTAAGTCAACTGTGGGAACTCCAGCATATATTGCTCCAGAAGTATTGCTGAAGCAAGAGTATGATGGCAAGgtaga----gtactcttta-gtttcatagtcttgctctttttctgtattaatctcatgataatttgtgtgctagtgagttatattgacttataaaccctggaata
|| ||||| |||||||||||||| || ||||| || ||||||||||| ||||||||||||||||| ||||| ||| |||| || ||||| |||||| | | |||| | || | | | | | || | || ||||| ||| | | || ||| | | | |||
TCATCGGTTCTTCATTCACAACCAAAATCAACAGTTGGAACTCCAGCTTATATTGCTCCAGAAGTTTTGCTCAAGAAAGAATACGATGGAAAGgtattatctatcccctttgtgctttaaaagttgccatcctgcatgcaaagatacactgata--ccagcagctgcccaacttctatgccttttg--ctcgacaat-
upper sequence: GLYMA11G06250.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G171435_T02 (Zea mays), 5'ss of exon 6
TCTTCGGTGCTTCATTCACAACCTAAGTCAACTGTGGGAACTCCAGCATATATTGCTCCAGAAGTATTGCTGAAGCAAGAGTATGATGGCAAGgtaga-gtactctttagtttcatagtcttgctctttttctgtattaatctcatgataatttgtgtgctagtgagttatattgacttataaac-cctggaata
|| || || |||||||| ||||| ||||||||||| ||||| || || |||||||| || ||||| || |||| |||| ||||||||||||||| || | || || | ||||| | | ||| || | | | | | || |||| | || | | || | | | |
TCATCTGTTCTTCATTCCCAACCGAAGTCAACTGTTGGAACACCTGCTTATATTGCACCTGAAGTTCTGTTGAAAAAAGAATATGATGGCAAGgtacttgtgcgactttccttatttatcttgagatgtgtctttaagagttgtgtat--acctctgcatcagtgcactgtagttccataaacatgtgccgcgtg
upper sequence: GLYMA11G06250.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G138861_T01 (Zea mays), 5'ss of exon 7
TCTTCGGTGCTTCATTCACAACCTAAGTCAACTGTGGGAACTCCAGCATATATTGCTCCAGAAGTATTGCTGAAGCAAGAGTATGATGGCAAGgtagagtactctttagtttcatagtcttgctctttttctgtattaatctcatgataatttgtgtgctagtgagttatattgacttataaaccctggaata--
|| || || |||||||| || || ||||| ||||| ||||| || || |||||||| || ||||| ||| |||| |||| ||||||||||||||| | | ||| | ||||| | | | | | | | || | | || |||| | | | | |||| | || | |
TCATCTGTTCTTCATTCCCAGCCGAAGTCCACTGTTGGAACACCTGCTTATATTGCACCTGAAGTTTTGTTGAAAAAAGAATATGATGGCAAGgtacttgtgctatcactttttttatcttgagaaatgtgtct-tgagagttgtgcatacctctgcatcagtgcactgttgttccatatacatg-tgccacatg
upper sequence: GLYMA11G06250.1 (Glycine max), 5'ss of exon 6
lower sequence: AT5G66880.1 (Arabidopsis thaliana), 5'ss of exon 6
TCTTCGGTGCTTCATTCACAACCTAAGTCAACTGTGGGAACTCCAGCATATATTGCTCCAGAAGTATTGCTGAAGCAAGAGTATGATGGCAAGgtagagtactctttagtttcatagtcttgctctttttctgtattaatctcatgataatttgtgtgctagtgagttatattgacttataaaccctggaata
||||| || |||||||||||||| ||||||||||| || ||||| ||||| || |||||||| ||| |||| || || ||||||||||||||| || | | || | || | | |||||||| ||| | ||| | | | | ||||| || | ||| |
TCTTCTGTTCTTCATTCACAACCAAAGTCAACTGTTGGTACTCCTGCATACATCGCTCCAGAGGTACTGCTTCGTCAGGAATATGATGGCAAGgtaaaggcttttagag-----aattcctctgtaatctctgtatt--tctaaggatgaatagccaatcattgagtgttacgg--ttaccag----------
upper sequence: GLYMA11G06250.1 (Glycine max), 5'ss of exon 6
lower sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 6
TCTTCGGTGCTTCATTCACAACCTAAGTCAACTGTGGGAACTCCAGCATATATTGCTCCAGAAGTATTGCTGAAGCAAGAGTATGATGGCAAGgtagagtactct--ttagtttcatagtcttgctctttttctgtattaatctcatgataatttgtgtgctagtgagttatattgacttataaaccctggaata---------------------
||||| || |||||||| ||||| ||||||||||| || ||||| ||||| ||||| ||||| | | || || || ||||||||||||||| | | | || | |||| | | | ||| | |||| ||| | | | | | |||| || | | ||| ||||
TCTTCTGTTCTTCATTCCCAACCAAAGTCAACTGTTGGTACTCCTGCATACATTGCACCAGAGATTCTTCTTCGACAGGAATATGATGGCAAGgtaaggccatgagaccaattcctctgtctagagttcaaaccagcttatccatatgactgtttata--ccacaaatattctttgagttgtc--ctctgaaatagctggtgttacatttttccag
upper sequence: GLYMA11G06250.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv07s0197g00080.t01 (Vitis vinifera), 5'ss of exon 6
TCTTCGGTGCTTCATTCACAACCTAAGTCAACTGTGGGAACTCCAGCATATATTGCTCCAGAAGTATTGCTGAAGCAAGAGTATGATGGCAAGgtagagtactctttagtttcatagtcttgctctttttctgtattaatctcatgataatttgtgtgctagtgagttatattgacttataaaccctggaata--
||||||||||||||||||||||| || |||||||| |||||||| ||||| ||||||||||||||||| ||| |||||| || |||||||||||| | || |||| ||| | | | | || | | | | ||| || | | | | | || | | | || || | ||
TCTTCGGTGCTTCATTCACAACCAAAATCAACTGTTGGAACTCCTGCATACATTGCTCCAGAAGTATTAATGAGGCAAGAATACGATGGCAAGgtaaa--accatttaattttacatcttaatttcaattaagcttgtgcatttttctaagttctatccatgaaactttagctttatcaataaagatgtagtaag
upper sequence: GLYMA11G06250.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S113_72V6.1 (Physcomitrella patens), 5'ss of exon 6
TCTTCGGTGCTTCATTCACAACCTAAGTCAACTGTGGGAACTCCAGCATATATTGCTCCAGAAGTATTGCTGAAGCAAGAGTATGATGGCAAGgtagagtactctt----tagtttcatagtcttgctctttttctgtattaatctcatgataatttgtgtgctagtgagttatattgacttataaaccctggaata-----------------------------------
|| || || | || || ||||||||||| || |||||||| || || || ||||||||||| || ||| |||| ||||||| ||||||||||| | || || || | || ||| | | || | | | | | | | | || | ||| | | |
TCCTCTTTGTTGCACTCCCAACCTAAGTCGACCGTGGGAACCCCCGCTTACATTGCTCCAGAGGTCTTGTCGAAGAAAGAGTACGATGGCAAGgtgagttcgtcggacgataacttagttgtattggtatggagtagtcccggcgttgtattgttagtttttccaagtagacgctgttgtcgatagtgtcggtatcggtcagctgagaagacagaaatgctttgatatgcag
upper sequence: GLYMA11G06250.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S116_98V6.1 (Physcomitrella patens), 5'ss of exon 6
TCTTCGGTGCTTCATTCACAACCTAAGTCAACTGTGGGAACTCCAGCATATATTGCTCCAGAAGTATTGCTGAAGCAAGAGTATGATGGCAAGgta------------gagtactctttagtttcatagtcttgctctttttctgtattaatctcatgataattt--gtgtgctagtgagttatattgacttataaaccctggaata---------------------------------
|| || || | || || ||||| ||||| ||||||||||| || || || ||||||||||| || ||| ||| ||||||| |||||||||||| || | || | | | | | | | | | | | | | | ||||| ||||| | || | | ||| |
TCGTCTTTGTTGCACTCGCAACCGAAGTCGACTGTGGGAACACCTGCCTACATTGCTCCAGAGGTCCTGCAAAAGAAAGAGTACGATGGCAAGgtacgtggtttgcacaagggtttttgaccgcaaggattggggtttcgcttcatgatgtctttctactgaatcaagtgtgttagtgtttactaaagttcaaggcaccttatcggggaactgaaggaacccacttgcttcgagatgcagMapped 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|9258485|gb|BE346632.1|BE346632EST: AGCATATATTGCTCCAGAAGTATTGCTGAAGCAAGAGTATGATGGGCA-G AATGCAGATGGCTGGTCA
genomic: AGCATATATTGCTCCAGAAGTATTGCTGAAGCAAGAGTATGATGG-CAAGgtagagtact ... ttaatatcagATTGCAGATGTCTGGTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTTCGGTGCTTCATTCACAACCTAAGTCAACTGTGGGAACTCCAGCATATATTGCTCCAGAAGTATTGCTGAAGCAAGAGTATGATGGCAAGgtagagtactctttagtttcatagtcttgctctttttctgtattaatctcatgataatttgtgtgctagtgagttatattgacttataaaccctggaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA