Sequence
atgc intronic sequence ATGC exonic sequence...ctctctttcgacacagtttcattgatttgtttttaattttttctgatgtgttgtattttcttcattgacatttctttttttgtttaacttgtttgtgcagAGAATATCTGCCAAGGATGCTCTGGATGCTGAATATTTCTGGAATGACCCCTTACCTTGCGATCCCAAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0805g00020.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G019267_T01 (Zea mays), 3'ss of exon 10
---------------------------------ctctctttcgacacagtt-tcattgatttgtttttaattttttctgatgtgttgtattttcttca---ttgacatttctttttttgtttaacttgtttgtg-------cagAGAATATCTGCCAAGGATGCTCTGGATGCTGAATATTTCTGGAATGACCCCTTACCTTGCGATCCCAAGAG
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gtatgctacattgcgtgaattactgtaagtttaatttgtttagtcaaaatggttagttcctattccgtacttttctttggc-tgctgtgtgttgttcacacctgtcatttgggtcttcttttgacgcctctacaaatcattcagAGGATATCAGCAAAAGATGCACTTGATGCGGAATATTTCTGGACTGATCCCTTACCATGCGATCCAAAAAG
upper sequence: Vv00s0805g00020.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S235_102V6.1 (Physcomitrella patens), 3'ss of exon 9
-----------------------------------------------------------------------------ctctctttcgacacagtttc--attgattt-----gtttttaattttttctgatgtgttgtattt-tcttcattgacatttctttttttgtt-taactt--gtttgtgcagAGAATATCTGCCAAGGATGCTCTGGATGCTGAATATTTCTGGAATGACCCCTTACCTTGCGATCCCAAGAG
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gtgagtatgataacgggattcatcttgttacttgcatgttttgggttcgaacgtcgtcatcattatcatcatcatttattttttgcaattaaatttgcaactaattttcatgatatttggccctttttcatggcgcttatgaatgttaagtcatgtgttcgtgtcaattatggctttcgtttctgcagCGAATTTCTGCCAAGGATGCTTTGGATGCTGAATACTTCTGGGTTGAACCTTTTCCATGCCAACCTAGCAGMapped 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|87584731|gb|DY473781.1|DY473781EST: GTCATGCTCTGGACTTGGTAGATAGAATGCTCACTCTTGATCCATCCAAG AGAATATCTGCCAAGGATGCTCTGGATGCTGAATATTTCTGGAATGACCCC
genomic: GTCATGCTCTGGACTTGGTAGATAGAATGCTCACTCTTGATCCATCCAAGgtatatcttg ... gtttgtgcagAGAATATCTGCCAAGGATGCTCTGGATGCTGAATATTTCTGGAATGACCCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtgttgtattttcttcattgacatttctttttttgtttaacttgtttgtgcagAGAATATCTGCCAAGGATGCTCTGGATGCTGAATATTTCTGGAATGACCCCTTACCTTGCGATCCCAAGAG
gtttaac putative branch site (score: 3)
cttgttt CT-rich tract
atttctttttttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctctctttcgacacagtttcattgatttgtttttaattttttctgatgtgttgtattttcttcattgacatttctttttttgtttaacttgtttgtgcagAGAATATCTGCCAAGGATGCTCTGGATGCTGAATATTTCTGGAATGACCCCTTACCTTGCGATCCCAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - ctgatgt