Sequence
atgc intronic sequence ATGC exonic sequence...cattggagttctgtcttcacctgccacttatgagttacaaatttgagtcagtttcttgtacagatatttgattccacttgcctttttccttttgttacagGTGGGTTGTAAAATGGGCTGCAAATTCTGTGCAACTGGAAGCATGGGATTTAAAAGCAATCTATCCTCAGGAGAAATTGTGGAACAATTAGTGCATGCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0091g00820.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g10520.1 (Oryza sativa), 3'ss of exon 3
---------------------------------------------------------------------cattggagttctgtcttc-----acctgcca-cttatgagttacaa-atttgagtcagt--------ttcttgtacagat--------atttgattc-cacttgcctttttcctt---ttgttacagGTGGGTTGTAAAATGGGCTGCAAATTCTGTGCAACTGGAAGCATGGGATTTAAAAGCAATCTATCCTCAGGAGAAATTGTGGAACAATTAGTGCATGCTT
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gtagatatatctgccttgcacattgggtggcaagttgttttgtgaaaatcattctttaatgtcttcatgtattgccaatatttcttctgatgacctgtcgtcctgtgggcaactatatttgtgacaacgtaagttatccttgggaagctggtggcttacttgatagacactgaccttgcatctaaaattaacacagGTAGGATGCAAGATGGGCTGTAGATTCTGTGCTACAGGAACGATGGGCTTCAAAAGCAATCTGTCTTCAGGAGAAATTGTGGAGCAGTTGGTTCATGCAT
upper sequence: Vv03s0091g00820.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G119104_T01 (Zea mays), 3'ss of exon 3
cattggagttctgtcttcacctgccacttatgagttacaaat-ttgagtcagtttct---tgtacagatatttgattccacttg--cctttttccttttgttacagGTGGGTTGTAAAATGGGCTGCAAATTCTGTGCAACTGGAAGCATGGGATTTAAAAGCAATCTATCCTCAGGAGAAATTGTGGAACAATTAGTGCATGCTT
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----taagttatgt--tgactgctcttcaatactttatatttgttgagtaagcttgtaactgtatatttgttgactgctcttcaatccttttacaatactaaacagGTTGGGTGCAAGATGGGCTGCAGATTCTGTGCTACTGGAACAATGGGCTTCAAAAGCAATCTGTCTTCTGGAGAAATTGTAGAGCAGCTGGTCCATGCAT
upper sequence: Vv03s0091g00820.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G45360.1 (Glycine max), 3'ss of exon 1
cattggagttctgtcttcacctgccacttatgagttacaaatttgagtcagtttcttgtacagatatttgattccacttgcctttttccttttgttacagGTGGGTTGTAAAATGGGCTGCAAATTCTGTGCAACTGGAAGCATGGGATTTAAAAGCAATCTATCCTCAGGAGAAATTGTGGAACAATTAGTGCATGCTT
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------------gtattt-catctcaggtaaccatagctagcttagcttttcttttctttttctttttctattgctaatgcttccttttctgttctgcagCTTGGATGCAAAATGGGTTGCAATTTCTGTGCCACTGGATCCATGGGATTCAAAAACAACCTATCATCCGGAGAAATTGTGGAACAGCTCGTTCATCACA
upper sequence: Vv03s0091g00820.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G00390.1 (Glycine max), 3'ss of exon 1
cattggagttctgtcttcacctgccacttatgagttacaaatttgagtcagtttcttgtacagatatttgattccacttgcctttttccttttgttacagGTGGGTTGTAAAATGGGCTGCAAATTCTGTGCAACTGGAAGCATGGGATTTAAAAGCAATCTATCCTCAGGAGAAATTGTGGAACAATTAGTGCATGCTT
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-----------------------gtaaccatatctttcttttcttttcttttcttttcttttctttttctattgctaacgcttccttttctcttctgcagGTTGGATGCAAAATGGGTTGCAATTTCTGTGCCACTGGATCCATGGGATTCAAAAACAACCTATCATCCGGTGAAATTGTGGAACAGCTCGTTCATGCCT
upper sequence: Vv03s0091g00820.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G19630.1 (Arabidopsis thaliana), 3'ss of exon 2
cattggagttctgtcttcacctgccacttatgagttacaaatttgagtcagtttcttgtacagatatttgattccacttgcctttttccttttgttacagGTGGGTTGTAAAATGGGCTGCAAATTCTGTGCAACTGGAAGCATGGGATTTAAAAGCAATCTATCCTCAGGAGAAATTGTGGAACAATTAGTGCATGCTT
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------------gtattgattttta--tcacgcaatgttatcttggttttatcgaatgaa-agacatgtgatgtgaaa-gtatttatca-------atagGTTGGTTGTAAGATGGGTTGCACATTCTGTGCTACTGGTACCATGGGATTTAAAAGCAATTTAACATCTGGAGAAATTGTGGAGCAGCTTGTTCACGCCTMapped 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|71864844|gb|DT013899.1|DT013899EST: GAAAACCTCGTCCTGGAGGTCCAAGGTCAACCTTGTGCATATCATCTCAG GTGGGTTGTAAAATGGGCTGCAAATTCTGTGCAACTGGAAGCATGGGATTT
genomic: GAAAACCTCGTCCTGGAGGTCCAAGGTCAACCTTGTGCATATCATCTCAGgtatcatatt ... tttgttacagGTGGGTTGTAAAATGGGCTGCAAATTCTGTGCAACTGGAAGCATGGGATTT
EST:
gi|34543445|gb|CF511677.1|CF511677EST: GGTCAACCTTGTGCATATCATCTCAG GTGGGTTGTAAAATGGGCTGCAAATTCTGTGCAACTGGAAGCATGGGATTT
genomic: GGTCAACCTTGTGCATATCATCTCAGgtatcatatt ... tttgttacagGTGGGTTGTAAAATGGGCTGCAAATTCTGTGCAACTGGAAGCATGGGATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtcagtttcttgtacagatatttgattccacttgcctttttccttttgttacagGTGGGTTGTAAAATGGGCTGCAAATTCTGTGCAACTGGAAGCATGGGATTTAAAAGCAATCTATCCTCAGGAGAAATTGTGGAACAATTAGTGCATGCTT
atttgat putative branch site (score: 5)
tttgattccacttgcc CT-rich tract
atatttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattggagttctgtcttcacctgccacttatgagttacaaatttgagtcagtttcttgtacagatatttgattccacttgcctttttccttttgttacagGTGGGTTGTAAAATGGGCTGCAAATTCTGTGCAACTGGAAGCATGGGATTTAAAAGCAATCTATCCTCAGGAGAAATTGTGGAACAATTAGTGCATGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - ttctgtc
- - - - - - - - - acctgcc
- - - - - - - - - - - - - - - - - - acaaatt