Sequence
atgc intronic sequence ATGC exonic sequencegtaatcctttctgtctggcttggaatttattactcaaattttgttggtaccagcaatggtttttagttttattagtttggtgtatgatgcaaatatatgacatgttcctttagaaataaaactggatttctacttttgcattcgtattaaaatatttttttattgttaatatttctttattttatagTTATACTTCAATTGGGAGCATACATGACACGGTTCCAAATGCCTTGTTGTGCGTCAACAATTCTTCCAGTAGCAAAGAAAAGTTTAGACCTGCATATCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G381933_T03 (Zea mays), 3'ss of exon 6
gtaatcctttctgtctggcttggaatttattactcaaattttgttggtaccagcaatggtttttagttttattagtttggtgtatgatgcaaatatatgacatgttcctttagaaataaaactggatttctacttttgcattcgtattaaaatatttttttattgttaatatttctttattttatagTTATACTTCAATTGGGAGCATACATGACACGGTTCCAAATGCCTTGTTGTGCGTCAACAATTCTTCCAGTAGCAAAGAAAAGTTT-AGACCTGCATATCTG---------
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--------------------------------------------------------------------ttattt-ttcagctcattttgtgaatcca----------ctgcagaagtatt-ctggtcttcgatattaac-tttgcaatataacttacatctatcatatatactgattt------cagGTATACTTCCATTGGGAGCATACACGATACTGTTCCAAATGCACT------CCTTAGTGATTCATC----ATCTGAGAAAAGTTTTAGACCAGCATACATGCTAACTGAT
upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA19G36860.1 (Glycine max), 3'ss of exon 7
gtaatcctttctgtctggcttggaatttattactcaaattttgttggtaccagcaatggtttttagttttattagtttggtgtatgatgcaaatatatgacatgttcctttagaaataaaactggatttct-acttttgcattcgtattaa-aatatttttttattgttaatatttctttattt-tatagTTATACTTCAATTGGGAGCATACATGACACGGTTCCAAATGCCTTGTTGTGCGTCAACAATTCTTCCAGTAG---CAAAGAAAAGTTTAGACCTGCATATCTG
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------------------------------------------------------------------------------------------gaatttaataattgatccatcatggttgacattaagttctagatgtttgtgtttattcagggaatttttgtgtgcaattatttctttgttatttgtgcagTTATACTTCAATTGGGAGCATATACGACACAGTTCCCAACTCATTATTATGCATTAGCAATTCTTCCAATAAATTCAAACCTGCGTATTTACTTGCTGAC---
upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA03G34140.1 (Glycine max), 3'ss of exon 6
gtaatcctttctgtctggcttggaatttattactcaaattttgttggtaccagcaatggtttttagttttattagtttggtgtatgatgcaaatatatgacatgttcctttagaaataaaactggatttctacttttgcattcgtattaaaatatttttttattg-ttaatatttctttattttatagTTATACTTCAATTGGGAGCATACATGACACGGTTCCAAATGCCTTGTTGTGCGTCAACAATTCTTCCAGTAGCAAAGAAAAGTTTAGACCTGCATATCTG
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-----------------------------------aggggatttttgtgt--gcaattatttct----ttatgaatttg--------tgcagttatacttcaattgggagcatatacgacac-agttcccaactcattattatgcattagCAATTCTTCCAATAAATTCAAACCTGCATATTTACTTGCTG-ACGGAAGATTAGAGAGGGCAGGGA--GGGCTAAAAGGCCATCT---ACTTCAACTGGTGGACAA--------------------------------Mapped 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|71855620|gb|DT004675.1|DT004675EST: GCCTTTCTTTTAGCGTGCAAGATTCCATACTGCAGTCTTTATGATCGAGG TTATACTTCAATTGGGAGCATACATGACACGGTTCCAAATGCCTTGTTGTG
genomic: GCCTTTCTTTTAGCTTGCAAGATTCCATACTGCAGTCTTTATGATCGAGGgtaatccttt ... tattttatagTTATACTTCAATTGGGAGCATACATGACACGGTTCCAAATGCCTTGTTGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttgcattcgtattaaaatatttttttattgttaatatttctttattttatagTTATACTTCAATTGGGAGCATACATGACACGGTTCCAAATGCCTTGTTGTGCGTCAACAATTCTTCCAGTAGCAAAGAAAAGTTTAGACCTGCATATCTG
tgttaat putative branch site (score: 3)
tatttctttatttt CT-rich tract
tattaaaatatttttt 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
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gtaatcctttctgtctggcttggaatttattactcaaattttgttggtaccagcaatggtttttagttttattagtttggtgtatgatgcaaatatatgacatgttcctttagaaataaaactggatttctacttttgcattcgtattaaaatatttttttattgttaatatttctttattttatagTTATACTTCAATTGGGAGCATACATGACACGGTTCCAAATGCCTTGTTGTGCGTCAACAATTCTTCCAGTAGCAAAGAAAAGTTTAGACCTGCATATCTG
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