Sequence
atgc intronic sequence ATGC exonic sequencegtattcatgatatctatctgaaaaccactcctaatctttcttatgttttcttgtcttcatttaacagattgtaaactgcagGCATTACAGATGATTGATGTCTATACAAAATTTGCTTATGAGCAAGCTGCAATACCTGTTATTACAGGTCGAAAATCAAAAGTGGAGACATTTGCTGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os07g07060.1 (Oryza sativa), 3'ss of exon 3
--------------------------gtattcatgatatctatctgaaaaccactcctaatctttcttatgttttcttgt--cttcatttaacagattgtaaactgcagGCATTACAGATGATTGATGTCTATACAAAATTTGCTTATGAGCAAGCTGCAATACCTGTTATTACAGGTCGAAAATCAAAAGTGGAGACATTTGCTGGTG
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gtttgttgaatgctaatcattgcacaagttccttcatgcacttgataacacaaattggaaagaatggaagattctaatgtaatatcatctgctccatttttctcttcagGCAATGCAAATGATTGATGTATATACAAAATTTGCATACGAGCAAGCTGCAATCCCTGTTATTCCGGGTCGAAAATCAAGAGTGGAAACGTTTGCTGGTG
upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G107089_T01 (Zea mays), 3'ss of exon 5
-----------------------------------------------------------------------gtattcatgatatctatctgaaaaccactcctaatctttcttatgttttcttgtcttcatttaacagattgtaaactgcagGCATTACAGATGATTGATGTCTATACAAAATTTGCTTATGAGCAAGCTGCAATACCTGTTATTACAGGTCGAAAATCAAAAGTGGAGACATTTGCTGGTG
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gttagttttcacattttctttccaaattattgttgcttctgctgaaatttcaaagccatgcatgtgatggtgcaggaaagtcatttct-tgataaacaatgaaagattctagtgcactacctcatattc-tccaattgttattgctctgcagGCGATGCAGATGATTGATGTATATACCAAATTTGCCTTTGAGCATGCTGCAATACCAGTTATTCCAGGTAGAAAATCAAGAGTAGAAACATTTGCGGGTG
upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G24670.1 (Glycine max), 3'ss of exon 5
gtattcatgatatctatctgaaaaccactcctaatctttcttatgttttcttgtcttcatt-taacagattgta-aactgcagGCATTACAGATGATTGATGTCTATACAAAATTTGCTTATGAGCAAGCTGCAATACCTGTTATTACAGGTCGAAAATCAAAAGTGGAGACATTTGCTGGTG
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gtgcacatcttttctgtcaagatgacaaaatctttactagtgtagttgcataatcttagtgacaatattctgttcaactgcagGCTATACAGATGATTGACATCTATACCAGATTTGCTTATGAGCAAGCTGCAATACCTGTTGTTACAGGTCGAAAATCTAAAGTGGAAACATTTGCTGGTG
upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G29890.1 (Glycine max), 3'ss of exon 5
gtattcatgatatctatctgaaaaccactcctaatctttcttatgttttcttgtcttcatttaacagattgta---aactgcagGCATTACAGATGATTGATGTCTATACAAAATTTGCTTATGAGCAAGCTGCAATACCTGTTATTACAGGTCGAAAATCAAAAGTGGAGACATTTGCTGGTG
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--gtccacttcttttctgtcaagatgataaatctttactagtataattgcataatcttagtgacgacattctgttcaactgcagGCTATACAGATGATTGACATCTATACCAGATTTGCGTATGAGCAAGCTGCAATACCAGTTATTACAGGTCGAAAATCTAAAGTGGAAACATTTGCCGGTG
upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G52520.1 (Arabidopsis thaliana), 3'ss of exon 5
gtattcatgatatctatctgaaaaccactccta---atctttcttatgttttcttgtctt--catttaacagattgtaaactgcagGCATTACAGATGATTGATGTCTATACAAAATTTGCTTATGAGCAAGCTGCAATACCTGTTATTACAGGTCGAAAATCAAAAGTGGAGACATTTGCTGGTG
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gtttgttctctatagagctgtggtcaacttgtggagattttttttgtggtactctcctgtgacaaatgattagttttgtattgcagGCGAAACAGATGATCGAGATCTACACCAGATTTGCTTTTGAGCAAACTGCAATTCCTGTTATTCCAGGTCGAAAATCAAAGTTAGAGACTTTTGCTGGTGMapped 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|110711045|gb|EE087798.1|EE087798EST: GGCAAGAGGGCCACACTGCTCATGCCACCCCTGAAGAGGCAGAAAAAGAG GCATTACAGATGATTGATGTCTATACAAAATTTGCTTATGAGCAAGCTGCA
genomic: GGCAAGAGGGCCACACTGCTCATGCCACCCCTGAAGAGGCAGAAAAAGAGgtattcatga ... taaactgcagGCATTACAGATGATTGATGTCTATACAAAATTTGCTTATGAGCAAGCTGCA
EST:
gi|27586757|gb|CB009452.1|CB009452EST: GGCAAGAGGGCCACACTGCTCATGCCACCCCTGAAGAGGCAGAAAAAGAG GCATTACAGATGATTGATGTCTATACAAAATTTGCTTATGAGCAAGCTGCA
genomic: GGCAAGAGGGCCACACTGCTCATGCCACCCCTGAAGAGGCAGAAAAAGAGgtattcatga ... taaactgcagGCATTACAGATGATTGATGTCTATACAAAATTTGCTTATGAGCAAGCTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actcctaatctttcttatgttttcttgtcttcatttaacagattgtaaactgcagGCATTACAGATGATTGATGTCTATACAAAATTTGCTTATGAGCAAGCTGCAATACCTGTTATTACAGGTCGAAAATCAAAAGTGGAGACATTTGCTGGTG
ttatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattcatgatatctatctgaaaaccactcctaatctttcttatgttttcttgtcttcatttaacagattgtaaactgcagGCATTACAGATGATTGATGTCTATACAAAATTTGCTTATGAGCAAGCTGCAATACCTGTTATTACAGGTCGAAAATCAAAAGTGGAGACATTTGCTGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA