Sequence
atgc intronic sequence ATGC exonic sequence...ctgtataaacacttttgaactggttccatggtcattgctattcagtacccatgcatgaaagcaatgttgcatatatttaaatttcaattttaatttacagGAATTGTTGGACGCATATCCCCAAAAACATGGGCTGCTATGGAAGTCTTTTTGGAATCAATTGCAACCGAAGAGTATGAGTCAATGGCATCTGCTTTAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g03210.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os07g12530.2 (Oryza sativa), 3'ss of exon 9
-------------------------------------------------------------------------------ctg-tataaacacttttgaactggttccatggtcattgc--tattcagtacccatgcatgaaag----caatgttgcatatatttaaatttcaattttaatttacagGAATTGTTGGACGCATATCCCCAAAAACATGGGCTGCTATGGAAGTCTTTTTGGAATCAATTGCAACCGAAGAGTATGAGTCAATGGCATCTGCTTTAAT
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gtatgtaacatattctccaatctccacggtggcacggttgctctatatctcattaggcaatttaggatgcaccttgtatttgctaaaaaaggaaatattctggccttttaattcttacattatctattagtcaaaacacaaagtggtcaagaaagtttatcactattggttaataccatttcacagGAATTGTTGGCCGGATATCGCCAAGGACCTGGGCTGCAATGGAGGTCTTTTTGGCTTCATTTGCAACTGACGATTATAATGCTATGGCATCAGCCCTTTC
upper sequence: Vv13s0067g03210.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G36520.1 (Glycine max), 3'ss of exon 7
ctgtataaacacttttgaactggttccatggtcattgctattcagtacccatgcatgaaagcaatgttgcatatatttaaatttca-------attttaatttacagGAATTGTTGGACGCATATCCCCAAAAACATGGGCTGCTATGGAAGTCTTTTTGGAATCAATTGCAACCGAAGAGTATGAGTCAATGGCATCTGCTTTAAT
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------agacaccatttctttt-ctaaaaactaaatgttttacagtattcagttatatgtatgagattttgtgaatctaaattctattaaaaaaattcgatctacagGAATTGTTGGTCGTATATCCCCTAAAACATGGGCTGCTATGGAAGTCTTCTTAGGATCAATTGCCATTGAAGATTATGACTCAATGGCATCTTCCTTAAT
upper sequence: Vv13s0067g03210.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G05200.1 (Arabidopsis thaliana), 3'ss of exon 8
-------------------------------------------------------------ctgtataaacacttttgaactggttccatggtcattgctattcagtacccatgcatgaaagcaatgttgcatatatttaaatttcaattttaatttacagGAATTGTTGGACGCATATCCCCAAAAACATGGGCTGCTATGGAAGTCTTTTTGGAATCAATTGCAACCGAAGAGTATGAGTCAATGGCATCTGCTTTAAT
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gtaaatcatactctctcaagcctaattagtgcaacatttcttgcctacttacctctgactcatctattaatacagaaaaatgcagtctttttccataaatactcttcctttttattggtaattttttgtgtattcaagtaagtatccacattttttt-cagGCATTGTTGGTCGGATATCCCCCAAAACATGGGCTGCTATGGAAGTATTTTTAGCGTCTATTGCAACTGAAGAATATGAATCCATGGCCTCAGCTTTGATMapped 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|110358410|gb|EC922602.1|EC922602EST: AGGCAATTTGTGGTTGCTACGTGATGGCCGCATTGGGTTTCTTGATTTTG GAATTGTTGGACGCATATCCCCAAAAACATGGGCTGCTATGGAAGTCTTTT
genomic: AGGCAATTTGTGGTTGCTACGTGATGGCCGCATTGGGTTTCTTGATTTTGgtatgcattt ... taatttacagGAATTGTTGGACGCATATCCCCAAAAACATGGGCTGCTATGGAAGTCTTTT
EST:
gi|110400587|gb|EC967153.1|EC967153EST: AGGCAATTTGTGGTTGCTACGTGATGGCCGCATTGGGTTTCTTGATTTTG GAATTGTTGGACGCATATCCCCAAAAACATGGGCTGCTATGGAAGTCTTTT
genomic: AGGCAATTTGTGGTTGCTACGTGATGGCCGCATTGGGTTTCTTGATTTTGgtatgcattt ... taatttacagGAATTGTTGGACGCATATCCCCAAAAACATGGGCTGCTATGGAAGTCTTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacccatgcatgaaagcaatgttgcatatatttaaatttcaattttaatttacagGAATTGTTGGACGCATATCCCCAAAAACATGGGCTGCTATGGAAGTCTTTTTGGAATCAATTGCAACCGAAGAGTATGAGTCAATGGCATCTGCTTTAAT
ttttaat putative branch site (score: 3)
aatgttgcatatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgtataaacacttttgaactggttccatggtcattgctattcagtacccatgcatgaaagcaatgttgcatatatttaaatttcaattttaatttacagGAATTGTTGGACGCATATCCCCAAAAACATGGGCTGCTATGGAAGTCTTTTTGGAATCAATTGCAACCGAAGAGTATGAGTCAATGGCATCTGCTTTAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - -taaacac
- - - - - - - - - - - - -ccatggt
- - - - - - - - - - - - - - - - cattgct
- - - - - - - - - - - - - - - - - - - - - - - - ccatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgca