Sequence
atgc intronic sequence ATGC exonic sequence...ttgtcactgttgattttatatgatgaccttaagaatgcttcatcagttcctacctaagaaaaaatgtagaacacctctttaattcccctctttcatgcagATGTGTACGGAACGGCAATTATGATGAGGCTCTTGATTTAGAGGCTTTTGTTTGCAAACTTTCAACAATGCACCCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G22880.1 (Glycine max), 3'ss of exon 2
-----------------------------ttgtcactgttgattttatatgatgaccttaaga-atgcttcatcagttcctacctaagaaaaaatgtagaacacctctttaattcccctctttcatgcagATGTGTACGGAACGGCAATTATGATGAGGCTCTTGATTTAGAGGCTTTTGTTTGCAAACTTTCAACAATGCACCCAAA
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gtatgttaaaaaagatagaccatttaattacactcctggaatttccacatactaatgttctcacatattatgacaatcacttcctc--------tgtgagaagccttgtaaattcctatatttt-tgcagATGTGTACGGAACGGGAATTATGATGAAGCCCTAGATTTGGAAGCATTTGTTGGCAAACTTTCAACCATGCATCCAAA
upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G04920.1 (Glycine max), 3'ss of exon 2
------ttgtcactgttgattttatatgatgaccttaagaatgctt---catca--gttcctacctaagaaaaaa-----------tgtagaacacctctttaattcccctctttcatgcagATGTGTACGGAACGGCAATTATGATGAGGCTCTTGATTTAGAGGCTTTTGTTTGCAAACTTTCAACAATGCACCCAAA
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gtatgttaaaaaatatagactatttaattacactcctggaatgtccatgtactaatgttattgcatattatgatgatcacttcctctgtgagaagcgttgtaaattcctatatttt-tgcagATGTGTACGGAATGGGAATTATGATGAAGCCCTAGATTTGGAAGCATTTGTTGGCAAACTTTCAACCATGCATCCAAA
upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S30_178V6.1 (Physcomitrella patens), 3'ss of exon 3
------------------------------------------------------------------------------ttgtcac-tgttgattttatatgatgaccttaagaatgcttcatcagttc-ctacctaagaaaaaatgtaga---acacctct--ttaattcc--cctctttcatgcagATGTGTACGGAACGGCAATTATGATGAGGCTCTTGATTTAGAGGCTTTTGTTTGCAAACTTTCAACAATGCACCCAAA
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gtgagcctatttgtgtgcaacagagcaactgcagatataaaaaatagtggaagttttctttctggtgaccatcgcacttcattaggttttgattagtttcgctagttttcacagtatgttaaaagtcaattgtttgattgcttgcgttggcttagagttttgatcaattcggatgttttttatgcagATGTGTGCGAAACGGCAATTATGACGAAGCTCTAGATCTCGAAGCTTTTGTC-ACGAAATTGCTACGATGCATTCAAGMapped 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|110389066|gb|EC953878.1|EC953878EST: AATCATAGTACTTTGCTTGACTTGCTTGAAATTCCTCAGCTCATGGACAC ATGTGTACGGAACGGCAATTATGATGAGGCTCTTGATTTAGAGGCTTTTGT
genomic: AATCATAGTACTTTGCTTGACTTGCTTGAAATTCCTCAGCTCATGGACACgtatgtgttt ... tttcatgcagATGTGTACGGAACGGCAATTATGATGAGGCTCTTGATTTAGAGGCTTTTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttcctacctaagaaaaaatgtagaacacctctttaattcccctctttcatgcagATGTGTACGGAACGGCAATTATGATGAGGCTCTTGATTTAGAGGCTTTTGTTTGCAAACTTTCAACAATGCACCCAAA
ctttaat putative branch site (score: 4)
cacctctttaattccc CT-rich tract
taagaaaaaatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtcactgttgattttatatgatgaccttaagaatgcttcatcagttcctacctaagaaaaaatgtagaacacctctttaattcccctctttcatgcagATGTGTACGGAACGGCAATTATGATGAGGCTCTTGATTTAGAGGCTTTTGTTTGCAAACTTTCAACAATGCACCCAAA
- - - ctgttga
- - - - - - - - - - tgatgac
- - - - - - - - - - - - - - - - gaatgct
- - - - - - - - - - - - - - - - - - - - - - - - cctacct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaat