Sequence
atgc intronic sequence ATGC exonic sequencegtcatcactcctctcttaatatctaaacttcaccttatcctttcttctttcttgtttttcatgtatgctgacattactgggtttttggggcttcctcagGTGGTCCCAAATCGCAGCACAGCTGCCTGGACGCACTGACAATGAAATAAAGAATTTGTGGAACTCTTGCTTGAAGAAGAAGCTCAGGCAGAGAGGCATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g02480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G27940.1 (Glycine max), 3'ss of exon 2
------------------gtcatcactcctctcttaatatctaa------acttcaccttatcctttcttctttcttg---------tttttcatgtatgct-gacattactg--ggtttttggggcttcctcagGTGGTCCCAAATCGCAGCACAGCTGCCTGGACGCACTGACAATGAAATAAAGAATTTGTGGAACTCTTGCTTGAAGAAGAAGCTCAGGCAGAGAGGCATT
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gtaatcttaattgtaattgtaattcaatctctctcatgattgaattaatcaattctctcccttttttattttctactgtggttaacttttttttcttttgcttgacatgcatattattatcctgtgctgtttcagGTGGTCTCAAATTGCAGCACAGTTGCCGGGGAGGACAGACAATGAAATAAAGAATCTGTGGAACTCTTGCTTGAAGAAGAAACTGAGGCAAAAGGGAATA
upper sequence: Vv07s0005g02480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G00960.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------gtcatcactcctctcttaatatctaaacttcaccttatcctttcttctttcttgtttttcatgtatgctgacattactgggtttttggggcttcctcagGTGGTCCCAAATCGCAGCACAGCTGCCTGGACGCACTGACAATGAAATAAAGAATTTGTGGAACTCTTGCTTGAAGAAGAAGCTCAGGCAGAGAGGCATT
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gtaattgtaattgtaattttaattcagtctctctcatgattgaattaatgaattctctccctttttcttttctactgtggttaacatttatttttctttttcatttgcttgacatgc--atattatta----tcctgtgctgtctcagGTGGTCTCAAATTGCGGCACAGTTGCCGGGGAGAACAGACAATGAAATAAAGAATCTGTGGAACTCTTGCTTGAAGAAGAAACTGAGGCAAAAGGGAATA
upper sequence: Vv07s0005g02480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G38410.1 (Glycine max), 3'ss of exon 3
------------------gtcatcactcctctcttaatatctaaacttcaccttatcctttctt-ctttcttgtt---------tttcatgtatgctgacattactgggtttttggggcttc---ctcagGTGGTCCCAAATCGCAGCACAGCTGCCTGGACGCACTGACAATGAAATAAAGAATTTGTGGAACTCTTGCTTGAAGAAGAAGCTCAGGCAGAGAGGCATT
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gtaaatctaacaatccttctttacatgattttattagtctctgactctcggccgatggatacctgttttcttgtgattgggtcatcctagatatcttgacatggatatccttttgttttcttcttctcagATGGTCTCAAATTGCAGCACAATTGCCAGGGAGGACTGACAATGAAATAAAGAATCTGTGGAATTCTTGCTTAAAGAAGAAACTCAGGCAAAGAGGAATA
upper sequence: Vv07s0005g02480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G41010.1 (Glycine max), 3'ss of exon 2
-----------------------------------------gtcatcactcctctcttaatatctaaacttcaccttatcctttcttctttcttgttttt---------catgtatgctgacattactgggtttttg-------gggcttcctcagGTGGTCCCAAATCGCAGCACAGCTGCCTGGACGCACTGACAATGAAATAAAGAATTTGTGGAACTCTTGCTTGAAGAAGAAGCTCAGGCAGAGAGGCATT
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gtaaatctattcatgatttttaatctctggctctcggcccagtgatacctgaccgttgaaaaaagaagaagaagaaaactattacatttttcttgtgattgggtcatcctagatatcttgacatagatgttctttttctttccttttctttctcagATGGTCTCAAATTGCAGCTCAATTGCCAGGGAGGACCGACAATGAAATAAAGAATCTGTGGAATTCTTGCCTAAAGAAGAAACTGAGGCAAAGAGGAATA
upper sequence: Vv07s0005g02480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S277_14V6.1 (Physcomitrella patens), 3'ss of exon 2
gtcatcactcctctcttaatatctaaa---cttcaccttatcctttcttctttcttgtttttcatgta--tgctgacattactgggtttttggggcttcct----cagGTGGTCCCAAATCGCAGCACAGCTGCCTGGACGCACTGACAATGAAATAAAGAATTTGTGGAACTCTTGCTTGAAGAAGAAGCTCAGGCAGAGAGGCATT
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--------tcatcgatgagaggcagaagggccggattgtagtctctgcagctacatgtgctccttgcaaatgttgagttaaagcagaatttgatcctgtataatgcagGTGGTCACAGATTGCAACCCAGCTACCAGGCCGCACGGACAACGAAATAAAAAACTTCTGGAACTCTTGCATCAAGAAGAAGCTGCGTAACATCGGCATCMapped 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|161713802|gb|FC063790.1|FC063790EST: CTACAGGAAGAGAATCTTATAATTGAGCTTCATTCAGTTCTTGGGAACAG GTGGTCCCAAATCGCAGCACAGCTGCCTGGACGCACTGACAATGAAATAAA
genomic: CTACAGGAAGAGAATCTTATAATTGAGCTTCATTCAGTTCTTGGGAACAGgtcatcactc ... gcttcctcagGTGGTCCCAAATCGCAGCACAGCTGCCTGGACGCACTGACAATGAAATAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctttcttgtttttcatgtatgctgacattactgggtttttggggcttcctcagGTGGTCCCAAATCGCAGCACAGCTGCCTGGACGCACTGACAATGAAATAAAGAATTTGTGGAACTCTTGCTTGAAGAAGAAGCTCAGGCAGAGAGGCATT
tgctgac putative branch site (score: 2)
cttcctc putative PPT
ttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcatcactcctctcttaatatctaaacttcaccttatcctttcttctttcttgtttttcatgtatgctgacattactgggtttttggggcttcctcagGTGGTCCCAAATCGCAGCACAGCTGCCTGGACGCACTGACAATGAAATAAAGAATTTGTGGAACTCTTGCTTGAAGAAGAAGCTCAGGCAGAGAGGCATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG