Sequence
atgc intronic sequence ATGC exonic sequencegttattgatccactctgattttaccttcgtcacatccttttgcctggatcagtactattaaatattgttggatcttgttgcacagGCCCCAAATGCCACAAATAGTTTATGTGGTTACAAGATAGTGACTGGTCAACCATCAGATAGGCTCGGGGAGGACTTCTCAGAATATTACAAGGACTTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g00670.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os02g20930.1 (Oryza sativa), 3'ss of exon 11
-gttattgatccact-ctgattttaccttcgtcacatccttttgcctggatcagtactattaaatattgttggatcttgttgcacagGCCCCAAATGCCACAAATAGTTTATGTGGTTACAAGATAGTGACTGGTCAACCATCAGATAGGCTCGGGGAGGACTTCTCAGAATATTACAAGGACTTCA
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gtttgatgacagaatgtttatcatctattatgaaccatgtcttttcttcatggatggccttg--tgctgaccaaa--tgaaatacagACACCAAACACCACAAACAGCCTATGTGGTTACAAGATTGTTACTGGACAACCATCGGATAGACTTGGAGAGGATTTCTCAGAACATTACAAAGACTTTA
upper sequence: Vv10s0003g00670.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G059039_T01 (Zea mays), 3'ss of exon 11
---------------gttattgatccactctgattttaccttcgtcacatcct--tttgcctggatcagtactattaaatattgttggatcttgttgcacagGCCCCAAATGCCACAAATAGTTTATGTGGTTACAAGATAGTGACTGGTCAACCATCAGATAGGCTCGGGGAGGACTTCTCAGAATATTACAAGGACTTCA
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ggaatatacggagtaataagtagtatgattctctttgagacgagttgaagccagatttattttcattat--ctaaaaagtgctgaccaaatctgcatttcagACTCCAAACACAACGAACAGTCTATGTGGTTACAAGATTGTTACTGGGCAACCATCAGATAGACTTGGAGAGGACTTCTCAGAGCATTACAAAGATTTCA
upper sequence: Vv10s0003g00670.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G014577_T01 (Zea mays), 3'ss of exon 11
---------gttattgatccactctgattttaccttcgtcacatccttttgcctggatcagtactatta--------aatattgttggatcttgttgcacagGCCCCAAATGCCACAAATAGTTTATGTGGTTACAAGATAGTGACTGGTCAACCATCAGATAGGCTCGGGGAGGACTTCTCAGAATATTACAAGGACTTCA
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tggaatggagtaataagt--agtctggttttcttggagacaaaagctgaagccagatttatttccattatctaaacgagtgctgacaaaatctgcatttcagACTCCAAACACAACGAACAGTCTATGTGGTTACAAGATTGTTACTGGGCAACCATCGGATAGACTTGGAGAGGACTTCACAGAGCATTACAAAGATTTTA
upper sequence: Vv10s0003g00670.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S47_196V6.1 (Physcomitrella patens), 3'ss of exon 11
-----------gttattgatccactctgattttacctt-cgtcacatccttttgcctggatcagtactattaaatattgttggatct---tgttgcacagGCCCCAAATGCCACAAATAGTTTATGTGGTTACAAGATAGTGACTGGTCAACCATCAGATAGGCTCGGGGAGGACTTCTCAGAATATTACAAGGACTTCA
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tctttccaactgcagtagttttactcgcgtggtagcacatttcatgtttattgctttttatttattcatttataaattcaattatctatttgttttgcagACTCCCAATACGACAAACAGCTTATGTGGCTATAAGATTGTGACTGGTCAACCATCAGACCGTTTAGGAGAGGATTTTGCAGAGCTCTTTAAAGATTTCAMapped 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|110362029|gb|EC925536.1|EC925536EST: TCACTTATGTTGAGTGTTTGTTGTACACATTTCACCATTTAGCTTATAAG GCCCCAAATGCCACAAATAGTTTATGTGGTTACAAGATAGTGACTGGTCAA
genomic: TCACTTATGTTGAGTGTTTGTTGTACACATTTCACCATTTAGCTTATAAGgttattgatc ... tgttgcacagGCCCCAAATGCCACAAATAGTTTATGTGGTTACAAGATAGTGACTGGTCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacatccttttgcctggatcagtactattaaatattgttggatcttgttgcacagGCCCCAAATGCCACAAATAGTTTATGTGGTTACAAGATAGTGACTGGTCAACCATCAGATAGGCTCGGGGAGGACTTCTCAGAATATTACAAGGACTTCA
tcttgtt CT-rich tract
tactattaaatattgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttattgatccactctgattttaccttcgtcacatccttttgcctggatcagtactattaaatattgttggatcttgttgcacagGCCCCAAATGCCACAAATAGTTTATGTGGTTACAAGATAGTGACTGGTCAACCATCAGATAGGCTCGGGGAGGACTTCTCAGAATATTACAAGGACTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA