Sequence
atgc intronic sequence ATGC exonic sequencegtgtgtgcagattgtcatcttacagccttaatatattttcacatgatcaatttaatttcatagtttgcagtttttagttaaaaaaaaaaaaattaatttgcagTTTGACACAAAATATTACTATGAGGTTGGAATTGGGAATTCTACACGACAATTCTGGTTTGTAACTCCTCCCAGAGCTGGCCCTGATGTTCCCTACACTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g13340.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g56880.1 (Oryza sativa), 3'ss of exon 2
gtgtgtgcagattgtcatcttacagccttaatatattttcacatgatcaatttaatttcatagtttgcagtttttagttaaaaaaaaaaaaattaattt---gcagTTTGACACAAAATATTACTATGAGGTTGGAATTGGGAATTCTACACGACAATTCTGGTTTGTAACTCCTCCCAGAGCTGGCCCTGATGTTCCCTACACTT
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---------------------------gtattagttctttgcaa----aagtcgtctttagtgtttgga-ctgtaaattaaagattgactattggctttgttgcagTTTGACACAAAATACTACTATGCTGTTGGGATTGGACAAACCGTGAGGAAGTTTTGGTTCAGAACCCCTCCAAAAAGTGGCCCAGATGTTCCATATACAT
upper sequence: Vv18s0001g13340.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G03100.1 (Glycine max), 3'ss of exon 2
----gtgt-gtgcagattgtcatcttac---agccttaatatattttcacatgatcaatttaatttcatagtttgcagtttttagttaaaaaaaaaaaaattaatttgcagTTTGACACAAAATATTACTATGAGGTTGGAATTGGGAATTCTACACGACAATTCTGGTTTGTAACTCCTCCCAGAGCTGGCCCTGATGTTCCCTACACTT
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gttcgtgtcgcacttgtccttgtctcgctctgactttttcttttttcttttttctttttttcacttaatagcaattaacacctaccccttctcattgcaaata-tatacagTTTGACACCAAATATTACTATGAGGTTGGAATAGGGAATACCACTCGACAATTCTGGTTCAAAACTCCTCCTCCTGTTGGCCCCAATGTTCCCTATACAT
upper sequence: Vv18s0001g13340.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G03100.3 (Glycine max), 3'ss of exon 3
gtgtgtgcag--attgtcatcttacagc-cttaatatattttcacatgatcaatttaatttcatagtttgcagtttttagttaaaaaaaaaaaaattaatttgcagTTTGACACAAAATATTACTATGAGGTTGGAATTGGGAATTCTACACGACAATTCTGGTTTGTAACTCCTCCCAGAGCTGGCCCTGATGTTCCCTACACTT
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gtgtgtgccgcacttgttcttgcctagctctcactattttttttcact-ttatagcaattgggtaacacctacctcttc-tcattgcaa-------ttatatacagTTTGATACCAAATATTACTATGAGGTTGGAATAGGGAATACCACTCGACAATTCTGGTTCAAAACTCCTCCCCCTGTTGGCCCCGATGTTCCCTATACATMapped 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|294965076|gb|GW838879.1|GW838879EST: TCAATTACACTTCTGGATACATACATCACTGCACCATCAA-AACTTGATG TTTGACACAAAATATTACTATGAGGTTGGAATTGGGAATTCTACACGACAA
genomic: TCAATTACACTTCTGGATACATACATCACTGCACCATCAAGAACTTGACGgtgtgtgcag ... taatttgcagTTTGACACAAAATATTACTATGAGGTTGGAATTGGGAATTCTACACGACAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttaatttcatagtttgcagtttttagttaaaaaaaaaaaaattaatttgcagTTTGACACAAAATATTACTATGAGGTTGGAATTGGGAATTCTACACGACAATTCTGGTTTGTAACTCCTCCCAGAGCTGGCCCTGATGTTCCCTACACTT
aattaat putative branch site (score: 3)
atagtttgcagttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgtgcagattgtcatcttacagccttaatatattttcacatgatcaatttaatttcatagtttgcagtttttagttaaaaaaaaaaaaattaatttgcagTTTGACACAAAATATTACTATGAGGTTGGAATTGGGAATTCTACACGACAATTCTGGTTTGTAACTCCTCCCAGAGCTGGCCCTGATGTTCCCTACACTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT