Sequence
atgc intronic sequence ATGC exonic sequenceGTGGAGTTAGCTGGAATCATGTTTACTGGTGAACCTGCCAAGAATAAGAAACAAGCGGAGAAAAATGCAGCTATGGCCGCATGGTCTTCTCTAAAGCAATgtaagtggctagctagcttttcttgactgaatgtttttctttgtgtgaaatgatatggaactttacattaatttgttgtatggataatatggcttcaaaa...
Basic information
species | Glycine max |
transcript | GLYMA12G08070.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G08070.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G027462_T01 (Zea mays), 5'ss of exon 2
GTGGAGTTAGCTGGAATCATGTTTACTGGTGAACCTGCCAAGAATAAGAAACAAGCGGAGAAAAATGCAGCTATGGCCGCATGGTCTTCTCTAAAGCAATgtaagtggctagctagcttttcttgactgaatgtttttctttgtgtgaaatgatatggaac-tttacattaatttgttgtatggataatatggcttcaaaa-
|| ||| ||||||| |||| ||||| ||||| | ||| |||||||||||||| || || |||||||||||| || |||||||| | ||||| |||||| ||| || || | | | || | || | || | | || || || | || || |||| || || |
GTTGAGCTAGCTGGTATCACATTTACAGGTGATCATGCTAAGAATAAGAAACAGGCTGAAAAAAATGCAGCTTCAGCTGCATGGTCAGCACTAAAACAATgtgagta-ttacatattgtgttccgcacatattcatgaaagaaattgtagctatgttgcttattcacgtttgtctgcaataactgtaat-tgatgaaaagag
upper sequence: GLYMA12G08070.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G027462_T02 (Zea mays), 5'ss of exon 1
------------------------------------------------------------------------GTGGAGTTAGCTGGAATCATGTTTACTGGTGAACCTGCCAAGAATAAGAAACAAGCGGAGAAAAATGCAGCTATGGCCGCATGGTCTTCTCTAAAGCAATgtaagtggctagctagcttttcttgactgaatgtttttctttgtgtgaaatgatatggaactttacattaatttgttgtatggataatatggcttcaaaa
|| ||| ||||||| |||| ||||| ||||| | ||| |||||||||||||| || || |||||||||||| || |||||||| | ||||| |||||| ||| || || | | |
GTTGGGGCGCCGTTGCCATTGTATACAACAGAGCGATCTGGCGTTGGCCACCTGCCGGTTTTCACATGCACTGTTGAGCTAGCTGGTATCACATTTACAGgtgatcatgctaagaataagaaacaggctgaaaaaaatgcagcttcagctgcatggtcagcactaaaacaatgtgagta-ttacatattgtgttccgcaca-----------------------------------------------------------------------
upper sequence: GLYMA12G08070.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv06s0004g02810.t01 (Vitis vinifera), 5'ss of exon 2
GTGGAGTTAGCTGGAATCATGTTTACTGGTGAACCTGCCAAGAATAAGAAACAAGCGGAGAAAAATGCAGCTATGGCCGCATGGTCTTCTCTAAAGCAATgtaagtggctagctagcttttcttgactgaatgtttttctttgtgtgaaatgatatggaactttacattaatttgttgtatggata-atatggcttcaaaa
|| || || |||||||||| || || || |||||||| |||||||||||||| || ||||| ||||| || ||||| || ||||| |||||||| |||||||||| | ||| |||| || | | | || | || | | || | | | | || | | ||| ||| |||| | | |
GTAGAATTGGCTGGAATCACATTCACAGGGGAACCTGCAAAGAATAAGAAACAGGCAGAGAAGAATGCTGCAATGGCAGCTTGGTCATCTCTAAAACAATgtaagttccagtctaaattttttttagtagttagttgcaatggtagtcagtagtagatttatggagagttatatat-atatatatatatatatatatatat
upper sequence: GLYMA12G08070.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S173_23V6.1 (Physcomitrella patens), 5'ss of exon 2
GTGGAGTTAGCTGGAATCATGTTTACTGGTGAACCTGCCAAGAATAAGAAACAAGCGGAGAAAAATGCAGCTATGGCCGCATGGTCTTCTCTAAAGCAATgtaagtggct-------agctagcttttcttgactgaatgtttttctttgtgtgaaatgatatggaactttacattaatttgttgtatggataatatggcttcaaaa
||||||||||| ||| | || | || ||| |||| |||| ||||| ||||||||||| ||||| || ||||| ||||||||| |||| ||||||||||||| ||| ||| |||| ||||| | | ||| | | | | ||| | | | | |||| | || | ||| |
GTGGAGTTAGCGAAAATGACTTTCAGCGGGGAAGCTGCAAAGACAAAGAAGCAAGCGGAGAAGAATGCGGCAATGGCTGCATGGTCTGCTCTCAAGCAATgtaagttgctcttctacagcacgcttctcttgcattctagctttatggggagcaaggggtattgggagcatgctgcttctggttg-acgg-cagtattatta-----
upper sequence: GLYMA12G08070.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S173_93V6.1 (Physcomitrella patens), 5'ss of exon 3
GTGGAGTTAGCTGGAATCATGTTTACTGGTGAACCTGCCAAGAATAAGAAACAAGCGGAGAAAAATGCAGCTATGGCCGCATGGTCTTCTCTAAAGCAATgtaagtggctagctagctttt-cttgactgaatgtttttctttgtgtgaaatgatatggaactttacattaatttgttgtatggataatatggcttcaaaa
|||||| | || || || | || ||| |||| |||| ||||| ||||||||||| |||||||||||||| || |||||| | | ||||| |||||| || | || | ||| || | || ||| | | | | | | || | || | | | || | | | |
GTGGAGGTGGCGAATATGTCCTTCAGCGGGGAAGCTGCGAAGACAAAGAAGCAAGCGGAGAAGAATGCAGCTATGGCTGCTTGGTCTGCCATCCAGCAACgtaagttgccttccagtgctcacttagctttagcttcttcagtaaggaagaataggtcgagaaccatgcagcttcgggatgtagacagtttcatggacca-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|298197221|gb|HO041964.1|HO041964EST: ACAAGCGGAGAAAAATGCAGCTATGGCCGCATGGTCTTCTCTAAAGCAAT TGGCAAAAGAAACTGCAAGGTCTTCAACTGAACCCGAGAACAATGACGAAC
genomic: ACAAGCGGAGAAAAATGCAGCTATGGCCGCATGGTCTTCTCTAAAGCAATgtaagtggct ... tacttgacagTGGCAAAAGAAACTGCAAGGTCTTCAACTGAACCCGAGAACAATGACGAAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGGAGTTAGCTGGAATCATGTTTACTGGTGAACCTGCCAAGAATAAGAAACAAGCGGAGAAAAATGCAGCTATGGCCGCATGGTCTTCTCTAAAGCAATgtaagtggctagctagcttttcttgactgaatgtttttctttgtgtgaaatgatatggaactttacattaatttgttgtatggataatatggcttcaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA