Sequence
atgc intronic sequence ATGC exonic sequence...actcttaaccagtgtgaggacacatgattcaccatggactttcgttcttcactgactgtttgcagaatatctcttgttgtatgtatgatttctgatgtagTGATTGTGGGAGAGGTTGCTAATTTTGTGGCATATGCATTCGCCCCAGCTGTTCTTGTTACCCCTCTTGGGGCATTAAGTATCATTGTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g03650.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os05g43790.3 (Oryza sativa), 3'ss of exon 2
actcttaaccagtgtgaggacacatgattcaccatggactttcgttcttcac-tgac------tgtttgcagaatatctcttg--ttgtatgtatgatttctgatgt-agTGATTGTGGGAGAGGTTGCTAATTTTGTGGCATATGCATTCGCCCCAGCTGTTCTTGTTACCCCTCTTGGGGCATTAAGTATCATTGTCAG
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-----------gtaaggtttttctttttctttcttcgatttcagtagagcagatgaagagcaatgtttattgagtagtgggtgattctgaactaagttctctcctttcagTGATTGTGGGAGAAGTTGCCAATTTCGTCGCATACGCCTTCGCTCCCGCGGTTCTTGTTACTCCTCTTGGAGCACTGAGCATAATTGTTAG
upper sequence: Vv06s0009g03650.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G120175_T03 (Zea mays), 3'ss of exon 2
actcttaaccagtgtgaggacacatgatt-caccatggactttcgttcttcactgactgtttgcagaatatctcttgttgtatgtatgatttctgatgtagTGATTGTGGGAGAGGTTGCTAATTTTGTGGCATATGCATTCGCCCCAGCTGTTCTTGTTACCCCTCTTGGGGCATTAAGTATCATTGTCAG
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--------gtaaggtttcctcgtgcaatttcagtagagaattgggcatggtgcttagatgctaataggtgtttctgagcgaaggttt---tcctctttcagTGATTGTAGGTGAGATTGCCAATTTCGTGGCATATGCTTTCGCCCCCGCTGTTCTGGTTACTCCCCTTGGAGCACTCAGCATAATTGTTAG
upper sequence: Vv06s0009g03650.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G44980.1 (Glycine max), 3'ss of exon 2
----actcttaaccagtgtgag-gacacatgattcaccatggactttcgttcttca-ctgactgtttgcagaatatctcttgttgtatgtatgatttctgatgtagTGATTGTGGGAGAGGTTGCTAATTTTGTGGCATATGCATTCGCCCCAGCTGTTCTTGTTACCCCTCTTGGGGCATTAAGTATCATTGTCAG
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gttgaaggttaattaaaatatgcgaattttagtttatcatggtcattttttctttatctgatttcttgcagaattcttttc------tgtatggtttattgttcagTGATTGTAGGAGAGGTTGCAAACTTCGTTGCATATGCATTTGCTCCAGCAGTCCTAGTTACTCCTCTTGGTGCATTAAGTATTATTGTGAG
upper sequence: Vv06s0009g03650.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G44980.2 (Glycine max), 3'ss of exon 2
----actcttaaccagtgtgag-gacacatgattcaccatggactttcgttcttca-ctgactgtttgcagaatatctcttgttgtatgtatgatttctgatgtagTGATTGTGGGAGAGGTTGCTAATTTTGTGGCATATGCATTCGCCCCAGCTGTTCTTGTTACCCCTCTTGGGGCATTAAGTATCATTGTCAG---------
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gttgaaggttaattaaaatatgcgaattttagtttatcatggtcattttttctttatctgatttcttgcagaattcttttc------tgtatggtttattgttcagTGATTGTAGGAGAGGTTGCAAACTTCGTTGCATATGCATTTGCTCCAGCAGTCCTAGTTACTCCTCTTGGTGCATTAAGTATTATTGTGAGGTATTCCCC
upper sequence: Vv06s0009g03650.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G03790.1 (Glycine max), 3'ss of exon 2
------actcttaaccagtgtgaggacacat-gattcaccatggactttcgttcttcactgactgtttgcagaatatctcttgttgtatgtatgatttctgatgtagTGATTGTGGGAGAGGTTGCTAATTTTGTGGCATATGCATTCGCCCCAGCTGTTCTTGTTACCCCTCTTGGGGCATTAAGTATCATTGTCAG
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aagttgaaggttgattaaaatatgcaaattttagtttatcggtgattttt-tatttatctgatttcttgcagaatctgtttc------tgtatggtttattgtacagTGATTGCAGGAGAGGTTGCAAACTTTGTTGCATATGCGTTTGCTCCTGCAGTCCTAGTTACCCCTCTTGGTGCACTAAGTATTATTGTGAGMapped 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|161718932|gb|FC067009.1|FC067009EST: TGGGTATGCTTATCTATTGGAGCCTTTATGGTGGTTGGGCATGATCACAA TGATTGTGGGAGAGGTTGCTAATTTTGTGGCATATGCATTCGCCCCAGCTG
genomic: TGGGTATGCTTATCTATTGGAGCCTTTATGGTGGTTGGGCATGATCACAAgtaagtgttt ... tctgatgtagTGATTGTGGGAGAGGTTGCTAATTTTGTGGCATATGCATTCGCCCCAGCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttcactgactgtttgcagaatatctcttgttgtatgtatgatttctgatgtagTGATTGTGGGAGAGGTTGCTAATTTTGTGGCATATGCATTCGCCCCAGCTGTTCTTGTTACCCCTCTTGGGGCATTAAGTATCATTGTCAG
tttct CT-rich tract
tatgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actcttaaccagtgtgaggacacatgattcaccatggactttcgttcttcactgactgtttgcagaatatctcttgttgtatgtatgatttctgatgtagTGATTGTGGGAGAGGTTGCTAATTTTGTGGCATATGCATTCGCCCCAGCTGTTCTTGTTACCCCTCTTGGGGCATTAAGTATCATTGTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - ccagtgt
- - - - - - - - - -acacatg
- - - - - - - - - - - - - - - -ccatgga
- - - - - - - - - - - - - - - - - - - - - - - - - - tgactgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtatgt