Sequence
atgc intronic sequence ATGC exonic sequence...gttcttgtaattttaaatgcaagattgtttctgttaatccacaattccttttgacgtggatctctttttcatcattatgattaaaaattacatgctccagTTGCTTGCAGATAGCACGGGCATTTGGTGCCTCTGATATTATTGCTGTGGATGTTAATGATGAAAAACTGGAGAATGCGAAGGTTTTTGGTGCCAGTCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g03150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G00740.1 (Glycine max), 3'ss of exon 5
gttcttgtaattttaaatgca-agattgtttctgttaatc---cacaattccttttgacgtggatctctttttcatcattatgattaaaaattacatgctccagTTGCTTGCAGATAGCACGGGCATTTGGTGCCTCTGATATTATTGCTGTGGATGTTAATGATGAAAAACTGGAGAATGCGAAGGTTTTTGGTGCCAGTCAT
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---ggtatagttgggaatcagtagatttcctatgttgactgtgtatcagctctattggctctaatcaaattgtgtttccttttaacatta-tcacccattccagTTGTTTACAGATAGCTAGAGCCTTTGGTGCCTCAGATATAATTGCTGTGGATGTACGGGATGAAAAGCTACAGAAAGCAAAGACATTTGGTGCTACTCAC
upper sequence: Vv07s0031g03150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G33140.1 (Glycine max), 3'ss of exon 5
gttcttgtaattttaaatgca-agattgtttctgttaatc---cacaattccttttgacgtggatctcttt-ttcatcattatgattaaaaattacatgctccagTTGCTTGCAGATAGCACGGGCATTTGGTGCCTCTGATATTATTGCTGTGGATGTTAATGATGAAAAACTGGAGAATGCGAAGGTTTTTGGTGCCAGTCAT
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---ggtataattgggaaccagtagatttcctatgttgaccatgtatcagctctattggctctaatcaaattgtgtatccttttaactttg--tcacccattccagTTGTTTACAGATAGCTAGAGCCTTTGGTGCCTCAGATATAATTGCTGTGGATGTACGGGATGAAAAGCTACAGAAAGCAAAGACATTTGGTGCTACTCAC
upper sequence: Vv07s0031g03150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G63620.2 (Arabidopsis thaliana), 3'ss of exon 5
gttcttgtaattttaaatgcaagattgtttctgttaatccacaattccttttgacgtggatctctttttcatcattatgattaaaaattacatgctccagTTGCTTGCAGATAGCACGGGCATTTGGTGCCTCTGATATTATTGCTGTGGATGTTAATGATGAAAAACTGGAGAATGCGAAGGTTTTTGGTGCCAGTCAT
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------gta-tgttaaatgtgtggcattttcttttctttaccggatttgggttttattgcttcttgtatgaccataaccatctttgagttgttgcttcagTTGTTTGCAGATCGCAAGGGCTTTTGGAGCCTCGGATATCATTGCTGTGGATGTTCAGGATGATAAATTACAGAAGGCCAAGACACTTGGTGCTACTCATMapped 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|122689960|gb|EC935059.1|EC935059EST: CGTCCTGGCAATTCTGTTGCTGTAATTGGTATTGGGGGTGTTGGCTCAAG TTGCTTGCAGATAGCACGGGCATTTGGTGCCTCTGATATTATTGCTGTGGA
genomic: CGTCCTGGCAATTCTGTTGCTGTAATTGGTATTGGGGGTGTTGGCTCAAGgtaaactctt ... catgctccagTTGCTTGCAGATAGCACGGGCATTTGGTGCCTCTGATATTATTGCTGTGGA
EST:
gi|161713964|gb|FC063149.1|FC063149EST: CGTCCTGGCAATTCTGTTGCTGTAATTGGTATTGGGGGTGTTGGCTCAAG TTGCTTGCAGATAGCACGGGCATTTGGTGCCTCTGATATTATTGCTGTGGA
genomic: CGTCCTGGCAATTCTGTTGCTGTAATTGGTATTGGGGGTGTTGGCTCAAGgtaaactctt ... catgctccagTTGCTTGCAGATAGCACGGGCATTTGGTGCCTCTGATATTATTGCTGTGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccttttgacgtggatctctttttcatcattatgattaaaaattacatgctccagTTGCTTGCAGATAGCACGGGCATTTGGTGCCTCTGATATTATTGCTGTGGATGTTAATGATGAAAAACTGGAGAATGCGAAGGTTTTTGGTGCCAGTCAT
ttttgac putative branch site (score: 3)
tttttcatcattatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcttgtaattttaaatgcaagattgtttctgttaatccacaattccttttgacgtggatctctttttcatcattatgattaaaaattacatgctccagTTGCTTGCAGATAGCACGGGCATTTGGTGCCTCTGATATTATTGCTGTGGATGTTAATGATGAAAAACTGGAGAATGCGAAGGTTTTTGGTGCCAGTCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - -aatgcaa
- - - - - - - - - - - - - - - - - - -tccacaa
- - - - - - - - - - - - - - - - - - - - - - - ccttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaatta