Sequence
atgc intronic sequence ATGC exonic sequencegttatttcttgcactttgttctgtttattgttcaccttgttcaagagttgaagcagttagggctaaacattttaattcacatgttctctctctctctctctctgtgtatttgtctttatttggaattaatgtagttgtgtacagATTGAGATGCTTACACCAAAGGACTACATTGGTTCACTTATGGAACTGGCACAAGAAAGAAGAGGGCAGTTCAGAGAAATGAAATTTATTGCTGAAAATA
Basic information
species | Glycine max |
transcript | GLYMA04G38360.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G38360.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G003157_T01 (Zea mays), 3'ss of exon 15
gttatttcttgcactttgttctgtttattgttcaccttgttcaagagttgaagcagttagggctaaacattttaattcacatgttctctctctctctctctctgtgtatttgtctttatttggaattaatgtagttgtgtacagATTGAGATGCTTACACCAAAGGACTACATTGGTTCACTTATGGAACTGGCACAAGAAAGAAGAGGGCAGTTCAGAGAAATGAAATTTATTGCTGAAAATA
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-----------------gttgtatctgt-gtacatgatgttcacca--tcaatttgcagtgacattat-tattgatctttgggagtagtgtcatgcacaggcctggttattgtttttgat-gtcttcctttccctcctttgcagATTGAAATGCTTACACCAAAAGATTATATTGGTTCAATAATGGAGCTGACTCAAGACAGAAGAGGTGAATTCAAGGAAATGAACTTCATCACAGAAAGCA
upper sequence: GLYMA04G38360.1 (Glycine max), 3'ss of exon 15
lower sequence: AT5G08650.1 (Arabidopsis thaliana), 3'ss of exon 15
gttatttcttgcactttgttctgtttattgttcaccttgttcaagagttgaagcagttagggctaaacattttaattcacatgttctctctctctctctctctgtgtatttgtctttatttggaattaatgtagttgtgtacagATTGAGATGCTTACACCAAAGGACTACATTGGTTCACTTATGGAACTGGCACAAGAAAGAAGAGGGCAGTTCAGAGAAATGAAATTTATTGCTGAAAATA
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-------------------------------------------------gttgccttttctactggagatattg-ctgataagttcacacac---cacatttcgtagaattacatttccttactgcaaaacca-ttttatacagATTGAACTGCTCACACCAAAAGACTATATTGGTGCGCTTATGGAGCTCGCTCAAGAGAGGAGAGGGGAGTTCAAAGAAATGAAATATATAGCTGAGAACA
upper sequence: GLYMA04G38360.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 15
gttatttcttgcactttgttctgtttattgttcaccttgttcaagagttgaagcagttagggctaaacattttaattcacatgttctctctctctctctctctgtgtatttgtctttatttggaattaatgtagttgtgtacagATTGAGATGCTTACACCAAAGGACTACATTGGTTCACTTATGGAACTGGCACAAGAAAGAAGAGGGCAGTTCAGAGAAATGAAATTTATTGCTGAAAATA
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gttgttgcctgcatcta----tagatgttctcccatttagtcattttctga------tatatccagatatctt------taagttcttgtttcaaatcctaaagaaaaaaaggc--tatttgattttaaaacaat-atgtacagATTGAGATGCTCACTCCAAAAGACTATATCGGTCCTCTCATGGAATTGGCTCAAGACCGTAGAGGAGAGTTCAAAGAAATGAAATTTATCACTGAGAATAMapped 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|15814694|gb|BI786969.1|BI786969EST: TACTTCCTGAGCCTGGAAAAAGGAAATCAATTGAGGAGCCATTTGTTAAG ATTGATATGCTTACACCAAAGGACTACATTGGTTCACTTATGGAACTGGCA
genomic: TACTTCCTGAGCCTGGAAAAAGGAAATCAATTGAGGAGCCATTTGTTAAGgttatttctt ... ttgtgtacagATTGAGATGCTTACACCAAAGGACTACATTGGTTCACTTATGGAACTGGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctctctctctctgtgtatttgtctttatttggaattaatgtagttgtgtacagATTGAGATGCTTACACCAAAGGACTACATTGGTTCACTTATGGAACTGGCACAAGAAAGAAGAGGGCAGTTCAGAGAAATGAAATTTATTGCTGAAAATA
aattaat putative branch site (score: 3)
tttatttggaattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttatttcttgcactttgttctgtttattgttcaccttgttcaagagttgaagcagttagggctaaacattttaattcacatgttctctctctctctctctctgtgtatttgtctttatttggaattaatgtagttgtgtacagATTGAGATGCTTACACCAAAGGACTACATTGGTTCACTTATGGAACTGGCACAAGAAAGAAGAGGGCAGTTCAGAGAAATGAAATTTATTGCTGAAAATA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG