Sequence
atgc intronic sequence ATGC exonic sequenceGCAAGAAGTTCTCCTTGGCCATCTGGATTGGTCTCCCATGCACAAAGATCCCATATTCTGGCGAGAAAATATAAACAACTTTGAAGAAAATGATTTCCAGgtatctatgcattatcccttcttttatgcttcagccgaattcttgattaagcacacatgaaatttttggatgagaaaaataacaaggctttcagttactt...
Basic information
species | Glycine max |
transcript | GLYMA02G06710.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G06710.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os07g36470.1 (Oryza sativa), 5'ss of exon 6
GCAAGAAGTTCTCCTTGGCCATCTGGATTGGTCTCCCATGCACAAAGATCCCATATTCTGGCGAGAAAATATAAACAACTTTGAAGAAAATGATTTCCAGgta---tctatgcattatcccttcttttatgcttcagccgaattcttgattaagcacacatgaaatttttggatgagaaaaataacaaggctttcagttactt----
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GCAACAAGTTCTTCTTGGCCATCTTGACTGGTCTCCAATGCACAAAGACCCAAGTTTCTGGCGCGAGAACATTAATAATTTTGAAGAAAATGATTTCCAGgtatgctttgtcctttattggatgggaaatattccaatc-aatattttatggaacttcagtaagactattgga------gattctttatgcttgcccttgttccagg
upper sequence: GLYMA02G06710.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G019999_T01 (Zea mays), 5'ss of exon 8
GCAAGAAGTTCTCCTTGGCCATCTGGATTGGTCTCCCATGCACAAAGATCCCATATTCTGGCGAGAAAATATAAACAACTTTGAAGAAAATGATTTCCAGgtat-ctatgcattatcccttctttt----atgcttcagccgaattcttgattaagcacac-atgaaatttttggatgagaaaaataacaaggctttcagttactt
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ACAGCAAGTTCTTCTTGGTCATCTGGACTGGTCTCCAATGCACAAAGATCCAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttgtcctttcatcttgattgaaaatatttaaataaacttgttgcacaattgggctaagtagtttaactctcaaattcatagctaagctattat------
upper sequence: GLYMA02G06710.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G163233_T04 (Zea mays), 5'ss of exon 11
GCAAGAAGTTCTCCTTGGCCATCTGGATTGGTCTCCCATGCACAAAGATCCCATATTCTGGCGAGAAAATATAAACAACTTTGAAGAAAATGATTTCCAGgtat-ctatgcattatcccttcttttatgctt-cagccgaattcttgattaagcacaca--tgaaatttttggatgagaaaaataacaaggctttcagttactt-------------------------------------------------------------------------------------------
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ACAGCAAGTTCTTCTTGGTCATCTTGACTGGTCTCCAATGCACAAAGATCCAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAGAATGATTTCCAGgtatgccttgccctttcttctttgggacaattgtgattatacccttcgctggtcttgcaattgtgattttaccctccgttttccaactttgtgttcatagataagctattctggacaattcaatgttatagattagataggctcacaagcatttagctctgtggttgtgatgaaattgcacttataacttggcag
upper sequence: GLYMA02G06710.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv16s0039g01610.t01 (Vitis vinifera), 5'ss of exon 11
GCAAGAAGTTCTCCTTGGCCATCTGGATTGGTCTCCCATGCACAAAGATCCCATATTCTGGCGAGAAAATATAAACAACTTTGAAGAAAATGATTTCCAGgtatctatgcattatcccttcttttatgcttcagccgaattcttgattaagcacacatgaaatttttgg--atgagaaaaataacaaggctttcagttactt
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ACAAGAAGTCCTCCTTGGCCATCTCGACTGGACCCCTGTTCACAAAGATCCCATGTTCTGGCGTGATAACATTAGTAACTTTGAAGAGAATGATTTCCAGgtatttttttctccttctgagttct-ttcttc-gtggctttatcttctaaactgtgatgtcttcattgacagtgtgctctacatgcacaacatcgatgatat
upper sequence: GLYMA02G06710.1 (Glycine max), 5'ss of exon 11
lower sequence: PP1S21_158V6.1 (Physcomitrella patens), 5'ss of exon 10
GCAAGAAGTTCTCCTTGGCCATCTGGATTGGTCTCCCATGCACAAAGATCCCATATTCTGGCGAGAAAATATAAACAACTTTGAAGAAAATGATTTCCAGgtatctat--gcattatcccttcttttatgcttcagccgaattcttga--ttaagcacacatgaaatttttggatgagaaaaataacaaggctttcagttactt
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AGGTGAAGTATTCTCCGGGAATCTGGATTGGTCTCCAATGCACAAAGATCCTGTGTTCTGGCGTGAGAACATCTCCAAGTTTGAAGAAAGCGACTTTCAGgttcttcttgacgtcttcaatgttgttctctttcttccatattcttctccttccttgtctctctggctcactccgtctcttgctaacaaaa-ttgcaattg---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|18732408|gb|BM527028.1|BM527028EST: CCATATTCTGGCGAGAAAATATAAACAACTTTGAAGAAAATGATTTCCAG ATTCTAAGGGTCCTACTAACAATTTTGGACACGTCCAGTGATCCAAGGACT
genomic: CCATATTCTGGCGAGAAAATATAAACAACTTTGAAGAAAATGATTTCCAGgtatctatgc ... tctgttgcagATTCTAAGGGTCCTACTAACAATTTTGGACACGTCCAGTGATCCAAGGACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAAGAAGTTCTCCTTGGCCATCTGGATTGGTCTCCCATGCACAAAGATCCCATATTCTGGCGAGAAAATATAAACAACTTTGAAGAAAATGATTTCCAGgtatctatgcattatcccttcttttatgcttcagccgaattcttgattaagcacacatgaaatttttggatgagaaaaataacaaggctttcagttactt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcccttct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaataa