Sequence
atgc intronic sequence ATGC exonic sequencegtaagcgttccccttctatctctctattgaattatccgttctggacctcacacttgtctgttgcagCATCATGGGCTATATCAATGTATTACGCCTGTCAACGTACCTGGAAGCCTTTTAATCCAATTCTTGGTGAGACTTATGAATTGACCAATCATGGTGGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G174644_T01 (Zea mays), 3'ss of exon 4
gtaagcgttccccttctatctctct-------attgaattatccgttctggacctcacacttgtc------tgttgcagCATCATGGGCTATATCAATGTATTACGCCTGTCAACGTACCTGGAAGCCTTTTAATCCAATTCTTGGTGAGACTTATGAATTGACCAATCATGGTGGCAT
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gtaagttttctgcttcccttcccttgcacaccattctatgccatatcatggttgcctgaactgttaatccatttttcagCTACATGGGCTGTTTCTGTGTACTTTGCATATCAACGCACATGGAAGCCTTTTAATCCGATCCTTGGAGAGACTTATGAGATGGTTAACCACCAGGGCAT
upper sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G39880.1 (Glycine max), 3'ss of exon 4
------------------------gtaagcgttcccc---ttctatctct-ctattgaattatccgtt--------ctggacctcacacttgtctgttgcagCATCATGGGCTATATCAATGTATTACGCCTGTCAACGTACCTGGAAGCCTTTTAATCCAATTCTTGGTGAGACTTATGAATTGACCAATCATGGTGGCAT
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tgtaagcattactttcacatttttgttctctctccctcgtctccgtctctgtcatttgtgcatacattgcatggaatttgatcttacagattatttttgcaGCATCATTCTTTATATCCATCTACTATGCCTATCAACGAACATGGAAGCCATTCAATCCAATTCTTGGTGAGACTTATGAAATGGTTAACCATGGTGGCA-
upper sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G15930.3 (Glycine max), 3'ss of exon 4
------------------------gtaagcgttccccttctatctctctattgaat---tatccgtt--------ctggacctcacacttgtctgttgcagCATCATGGGCTATATCAATGTATTACGCCTGTCAACGTACCTGGAAGCCTTTTAATCCAATTCTTGGTGAGACTTATGAATTGACCAATCATGGTGGCAT
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gtaagcattactttcatattcgctttctctctccctcctctccctctctgtcatttgtgcatacattgcatggaatttgatcttacagatgatttttgcagCATCATTCTTTATATCTGTCTACTATGCCTATCAACGAACGTGGAAGCCATTCAATCCAATTCTTGGTGAGACTTATGAAATGGTTAACCATGGTGGCAT
upper sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S20_97V6.1 (Physcomitrella patens), 3'ss of exon 4
---------------------------------gtaagcgttccccttctatctctctattgaattatccgttctggacctcacacttgtctg--ttgcagCATCATGGGCTATATCAATGTATTACGCCTGTCAACGTACCTGGAAGCCTTTTAATCCAATTCTTGGTGAGACTTATGAATTGACCAATCATGGTGGCAT
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atcacttcgtcagtgtatctcttgcttatgtttgtaaggaagtaccgttttacaagcagtggcggctactgttctt-acactattgtcgcctcatttgcagCTACATGGGCAGTATCGGTGTACTTCGCATATGCGCGGACCTGGAAGCCTTTCAATCCCATTCTCGGTGAGACCTATGAGATGGTCGACAAGAATGGCCTMapped 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|33404142|gb|CF209769.1|CF209769EST: AGACCTGGCAGATGAATGCGAGGATCCCTACCTGCGATTGGTGTATACTT CATCATGGGCTATATCAATGTATTACGCCTGTCAACGTACCTGGAAGCCTT
genomic: AGACCTGGCAGATGAATGCGAGGATCCCTACCTGCGATTGGTGTATACTTgtaagcgttc ... tctgttgcagCATCATGGGCTATATCAATGTATTACGCCTGTCAACGTACCTGGAAGCCTT
EST:
gi|156735607|gb|EV239728.1|EV239728EST: AGACCTGGCAGATGAATGCGAGGATCCCTACCTGCGATTGGTGTATACTT CATCATGGGCTATATCAATGTATTACGCCTGTCAACGTACCTGGAAGCCTT
genomic: AGACCTGGCAGATGAATGCGAGGATCCCTACCTGCGATTGGTGTATACTTgtaagcgttc ... tctgttgcagCATCATGGGCTATATCAATGTATTACGCCTGTCAACGTACCTGGAAGCCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttctatctctctattgaattatccgttctggacctcacacttgtctgttgcagCATCATGGGCTATATCAATGTATTACGCCTGTCAACGTACCTGGAAGCCTTTTAATCCAATTCTTGGTGAGACTTATGAATTGACCAATCATGGTGGCAT
acctcac putative branch site (score: 3)
cttgtct CT-rich tract
tattgaattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcgttccccttctatctctctattgaattatccgttctggacctcacacttgtctgttgcagCATCATGGGCTATATCAATGTATTACGCCTGTCAACGTACCTGGAAGCCTTTTAATCCAATTCTTGGTGAGACTTATGAATTGACCAATCATGGTGGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG