Sequence
atgc intronic sequence ATGC exonic sequencegtttgcccttttcaactgtaaactaataatgggcatgagtctatagctagtcccttcaagaactggaaatctattatatctgatatcaaataatgctctgctctgcaggttatttttaattttggtccaaaagtgtccatattcacattttattcagacgaagataagtttctgttcatgtgaattgtagTGTCGAAGCAACTTGATGACTGGATGTTTCCTGCTAATTGCAGGATTTTAG
Basic information
species | Glycine max |
transcript | GLYMA15G05410.5 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G05410.5 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g49520.2 (Oryza sativa), 3'ss of exon 8
-----------------------------gtttgcccttttcaactgtaaactaataatgggcatgagtctatagctagtcccttcaagaactggaa----atctattata-tctgatatcaaataat---gctctgctctgcaggttatttttaattttggtccaaaagtgtccatattcacattttattcagacgaagataagtttctgttcatgtgaattgtagTGTCGAAGCAACTTGATGACTGGATGTTTCCTGCTAATTGCAGGATTTTAG
|| | | || | | | | | | | | | | | ||| | | | || ||| || ||| ||| || | | | || |||||||||||||||| | |||||||||||| |||||||| ||| || | | |||||| ||||||| | || ||| | ||| | | | |
gtcgctttacttctttgcatcattctgcacctttttttatccatgaatggggtccctttttgtttccttttgttgtgccactttgcaatatttttatctgtatttatcttactcttttatgaactggtcttattgtgtgctgcagGTTATTTTTATTCCTGGTCCAAAAGTATCCATATTGACAATTAAATTGAGGGAAGATGCGTTTCTGATTGTGCAAATCTTGATGTTTGATGTTCATAGGG---------------------------------
upper sequence: GLYMA15G05410.5 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G102475_T02 (Zea mays), 3'ss of exon 8
------------------------gtttgccct--tttcaactgtaaactaataatgggcatgagtctatagcta--gtcccttcaagaact------ggaaatctattatatc---tgat--atcaaataatg-ctctgctctgcaggttatttttaattttggtccaaaagtgtccatattcacattttattcagacgaagataagtttctgttcatgtgaattgtagTGTCGAAGCAACTTGATGACTGGATGTTTCCTGCTAATTGCAGGATTTTAG
|| | | || || ||||| ||| ||| ||| | || | |||| | | || |||| | | || |||| ||| || | || || ||||||||||||||||| || ||||||||||||||||||||| ||| || | | ||||||| || ||
gtaactttgctgctttgcatcaatcttcactttaacttagacccaaaacttggaatcctcattt-tcttcacttaaagctgtttcacatgtttatgtagtaattctactctctcgtttgatggatctgttattttctgtgttctgcagGTTATTTTTATTTCTGGTCCAAAAGTGTCCATATTGACAATTAAATTGAGGGAAGATACATTCTAATT-----------------------------------------------------------------
upper sequence: GLYMA15G05410.5 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G810275_T02 (Zea mays), 3'ss of exon 8
---------------------gtttgcccttttcaactgtaaactaataatggg--catgagtctat-------agctagtcccttca--agaactggaaatctatta---tatctgat--atcaaataatg-ctctgctctgcaggttatttttaattttggtccaaaagtgtccatattcacattttattcagacgaagataagtttctgttcatgtgaattgtagTGTCGAAGCAAC-TTGATGACTGGATGTTTCCTGCTAATTGCAGGATTTTAG
|| | |||| | | | | || | ||| | | | | | |||| | || | | | || |||| || | | ||| ||| || | || || ||||||||||||||||| || ||||||||||||||||||||| ||| || | | ||||||| || || | ||| | | | ||| | | | || ||
gtagctttgctgctttgcatcattcttcattttgagttagacccaaaaattggaacccccattttctttacataagctgtttcccatgtttgtgcagtaattctactatcttgtttgaatgatctgttattttctgtgttctgcagGTTATTTTTATTTCTGGTCCAAAAGTGTCCATATTGACAATTAAATTGAGGGAAGATACATT-CTAATTATGCAGACT-TGATGTTTGATAACCATTAGTGT--------------------------------
upper sequence: GLYMA15G05410.5 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G102475_T01 (Zea mays), 3'ss of exon 8
------------------------gtttgccct--tttcaactgtaaactaataatgggcatgagtctatagcta--gtcccttcaagaact------ggaaatctattat---atctgat--atcaaataatg-ctctgctctgcaggttatttttaattttggtccaaaagtgtccatattcacattttattcagacgaagataagtttctgttcatgtgaattgtagTGTCGAAGCAACTTGATGACTGGATGTTTCCTGCTAATTGCAGGATTTTAG
|| | | || || ||||| ||| ||| ||| | || | |||| | | || |||| | | | |||| ||| || | || || ||||||||||||||||| || ||||||||||||||||||||| ||| || | | ||||||| || || | | || || || | ||||| ||| ||
gtaactttgctgctttgcatcaatcttcactttaacttagacccaaaacttggaatcctcattt-tcttcacttaaagctgtttcacatgtttatgtagtaattctactctctcgtttgatggatctgttattttctgtgttctgcagGTTATTTTTATTTCTGGTCCAAAAGTGTCCATATTGACAATTAAATTGAGGGAAGATACATT-CTAATTGTATG-----CAGACCTGATGT---TTGATAACTATTAGT------------------------
upper sequence: GLYMA15G05410.5 (Glycine max), 3'ss of exon 8
lower sequence: Vv12s0055g00360.t01 (Vitis vinifera), 3'ss of exon 9
gtttgcccttttcaactgtaaactaataatgggcatgagtctatagctagtcccttcaagaactggaaatctattatatctgatatcaaataatgctctgctctgcaggttatttttaattttggtccaaaagtgtccatattcaca-ttttattcagacgaagataagtttctgttcatgtgaattgtagTGTCGAAGCAACTTGATGACTGGATGTTTCCTGCTAATT-GCAGGATTTTAG
||||||||||||||||||||||| ||||||| ||||||||||||||||||||||||||| | |||||| ||||||||| |||| ||||||||| || ||||||| ||||
----------------------------------------------------------------------------------------------------------------------------gtccaaaagtgtccatattcacaattttattgagacgaagataagtttctgttcatgtgca---tagtgttgaagcaact--gtgacca----tttcctgcttctttgcagGATCTTAGMapped 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|254336540|gb|GR842719.1|GR842719EST: CTGTTTCTTCAGTGGACTGAGCATCATAAAAGACTAAGCAATTTTATAAG TGTCGAAGCAACTTGATGACTGGATGTTTCCTGCTAATTGCAGGATTTTAG
genomic: CTGTTTCTTCAGTGGACTGAGCATCATAAAAGACTAAGCAATTTTATAAGgtttgccctt ... tgaattgtagTGTCGAAGCAACTTGATGACTGGATGTTTCCTGCTAATTGCAGGATTTTAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccatattcacattttattcagacgaagataagtttctgttcatgtgaattgtagTGTCGAAGCAACTTGATGACTGGATGTTTCCTGCTAATTGCAGGATTTTAG
attcacattttatt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgcccttttcaactgtaaactaataatgggcatgagtctatagctagtcccttcaagaactggaaatctattatatctgatatcaaataatgctctgctctgcaggttatttttaattttggtccaaaagtgtccatattcacattttattcagacgaagataagtttctgttcatgtgaattgtagTGTCGAAGCAACTTGATGACTGGATGTTTCCTGCTAATTGCAGGATTTTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA