Sequence
atgc intronic sequence ATGC exonic sequence...taattgctaaaatggaaagttaagggacgtgctgtgattctcccttcccctctgttttgatcatatcattaatcataatattttattaatttgattgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAG
Basic information
species | Glycine max |
transcript | GLYMA08G17450.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os02g07760.1 (Oryza sativa), 3'ss of exon 11
---------------------------------------------taattgctaaaatggaaagttaagggacgtgctgtgattctcccttcccctctgttttgatcatatcattaatcataatat---tttattaatttgattgc-----agCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAG
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gtaagcaaaaaaaaaaaagacttatctaccatttcaacatttttttttgtggtgtactttgtttctcattgatatactgaccaacatacatcatcattaattgcattttatattctattatgatgcatgtttatcaacactacttctgttcagCTTGCTGCTAAGTTCCGTAACAGCGGACAGACATGTGTATGTGCAAACAGGATATTGGTGCAAGAAG
upper sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G128114_T01 (Zea mays), 3'ss of exon 11
---taattgctaaaatggaaagttaagggacgt-gctgtgattctccctt-cccctctgttttgatcatatcattaatcataatattttattaatttgattgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAG
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tcattatgtatataatactttgtttggctttgttgttgaagtattgcattgccattgtattttaatataatcaatattcaccaagtcc-----atatgtgtgcagCTTGCTGCCAAGTTCCGTAACAGTGGACAGACATGTGTTTGTGCAAACAGGATATTGGTGCAAGAAG
upper sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G119482_T01 (Zea mays), 3'ss of exon 11
----taattgctaaaatggaaagttaagggacgtgctgtgattctccctt-cccctctgttttgatcatatcattaatcataatattttattaatttgattgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAG
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atgaggttcatttgagatagacttcgtttgacttgttgaaatattgcattgcccttgcattttaatgtgatcaatgttcatgaaatcc-----atatgtgtgcagCTTGCTGCCAAGTTTCGTAACAGTGGACAGACATGTGTTTGTGCAAACAGGATATTGGTGCAAGAAG
upper sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv19s0085g00880.t01 (Vitis vinifera), 3'ss of exon 11
taattgctaaaatggaaa--gttaagggacgtg-ctgtgattctcccttcccctctgttttgatcatatcattaatcataatattttattaatttgattgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAG
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-agtagtgaaaatggactttgttatttaatttgacaacatttctgcattctcagtttctgtgcaccattgtttaactaaaatgtggaatc--ttcttttgcagCTTGGTACAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGMapped 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|16278230|gb|BI942795.1|BI942795EST: TGCATTAGTTTT-GATGATGCTGACCTGNNATGT-GCAGTANAAGGAACT CTTGCAGCAAAGTTCCGTAACAGTGGACAA-CATGTG
genomic: TGCAT-AGTTTTTGATGATGCTGACCTGG-ATGTTGCAGTAAAAGGAACTgtaagttaga ... ttgattgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcccctctgttttgatcatatcattaatcataatattttattaatttgattgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAG
ttttgatcatatcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taattgctaaaatggaaagttaagggacgtgctgtgattctcccttcccctctgttttgatcatatcattaatcataatattttattaatttgattgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - gctgtga