Sequence
atgc intronic sequence ATGC exonic sequencegtacccatgtatgttcatcttttggtgtgtcactgtaaatgcagaacagcaaccgttattgagaccaagtctcctgtgttttttttttcttttttctctttctatcataattggcagGTTTGCAGAGGTGTGGGAAGAGCTGCAGGCTAAGATGGATTAACTACTTGAGGCCTGATTTGAAGAGGGGAGCATTCTCACAACAGGAAGAGAGCCTGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g00240.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G22230.1 (Glycine max), 3'ss of exon 1
gtacccatgtatgttcatcttttggtgtgtcactgtaaatgcagaacagcaaccgttattgagaccaagtctcctgtgttttttttttcttttttctctttctatcataattggcagGTTTGCAGAGGTGTGGGAAGAGCTGCAGGCTAAGATGGATTAACTACTTGAGGCCTGATTTGAAGAGGGGAGCATTCTCACAACAGGAAGAGAGCCTGAT
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gtatacacatatataatattgtttgttt-caactttcaacactt--cattaattgatgttgtagttgtgcactatgaagtacaattcacaaccttaattgt-----aaacatgccagGTTTGCAGAGATGTGGCAAGAGCTGCAGGTTGAGGTGGATAAATTACCTGAGGCCTGATTTGAAGAGAGGAGCATTCTCACAACAGGAAGAAAACATGAT
upper sequence: Vv14s0060g00240.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G28250.1 (Glycine max), 3'ss of exon 1
---------------gtacccatgtatgttcatcttt----tggtgtgtcactgtaaatgcagaacagcaaccgttattgagaccaagtctcctgtgttttttttttcttttttctctttctatcataattggcagGTTTGCAGAGGTGTGGGAAGAGCTGCAGGCTAAGATGGATTAACTACTTGAGGCCTGATTTGAAGAGGGGAGCATTCTCACAACAGGAAGAGAGCCTGAT
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gtatatacatacatagtact-atatataataatgtttgtttcaacacttcattgatgttgtagtgtgcacaatgaagtacaattcaaaacacaagagagtctttaatttctaaccttaattgtaaacacatgccagGTTTGCAGAGATGTGGGAAGAGCTGCAGGTTGAGGTGGATAAATTATCTAAGGCCTGATTTGAAGAGAGGAGCATTCTCACAGCAAGAAGAGAACATGAT
upper sequence: Vv14s0060g00240.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G41250.1 (Glycine max), 3'ss of exon 1
-------------------------------------------gtacccatgtatgttcatctt-ttggtgtgtcac-tgta-aatgcagaacagcaaccgttattgagaccaagtctcctgtgttttttttt---tcttttttctctttctatcataattgg---cagGTTTGCAGAGGTGTGGGAAGAGCTGCAGGCTAAGATGGATTAACTACTTGAGGCCTGATTTGAAGAGGGGAGCATTCTCACAACAGGAAGAGAGCCTGAT
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gtaggatgatgagtactatactatacaatacttcatgtttccatcatcactttatcaatatattgttgctgcagcatgtgcacaacacaacacaaaagtcatcatttgaattaattaaccttccttttttttaagatttaatttttttgtgttgtatatcttgtctcagGTCTTCAGAGGTGTGGCAAGAGCTGCAGATTAAGATGGATAAATTATCTCAGGCCTGATTTGAAGAGAGGAGCATTCTCACAGCAGGAAGAGAACTCCAT
upper sequence: Vv14s0060g00240.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA03G38660.1 (Glycine max), 3'ss of exon 1
--gtacccatgtatgttcatcttttggtgtgtcactgtaaatgcagaacagcaaccgttattgagaccaagtctcctgtgttttttttttcttttttctctttctatcataattgg-----cagGTTTGCAGAGGTGTGGGAAGAGCTGCAGGCTAAGATGGATTAACTACTTGAGGCCTGATTTGAAGAGGGGAGCATTCTCACAACAGGAAGAGAGCCTGAT
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gtaggatgatgagtact-atacaacactttatcaatattaatattgcatcatgtttgtccacaacac-aacacaaaagtcattttacttaattaaccttccttctctcaaactttgtgtctcagGTCTTCAGAGGTGTGGCAAGAGCTGCAGATTAAGGTGGATAAATTATCTCAGGCCTGATTTGAAGAGAGGAGCATTCTCACAGCAAGAAGAGAATTCCAT
upper sequence: Vv14s0060g00240.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S211_139V6.1 (Physcomitrella patens), 3'ss of exon 1
gtacccatgtatgttcatcttttggtgtgtcactgtaaatgcagaacagcaaccgttattgagaccaagtctcctgtgttttttttttcttttttctctttctatcataat-tggcagGTTTGCAGAGGTGTGGGAAGAGCTGCAGGCTAAGATGGATTAACTACTTGAGGCCTGATTTGAAGAGGGGAGCATTCTC-ACAACAGGAAGAGAGCCTGAT
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----------------aatgaaaatggtttcgcag-gaatgaagagcgaccag-gttagcacactttgttttgtactaatcactaaccaatatttgtgtttgtgaatggatgcaacagGTCTTCAAAGGTGTGGGAAGAGCTGCAGGCTGCGATGGATCAACTACTTGAGACCAGATTTGAAACGAGGGGTATTCTCCGCGACAG-AAGAAAGTTTGAT
upper sequence: Vv14s0060g00240.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ38262 (Selaginella moellendorffii), 3'ss of exon 1
gtacccatgtatgttcatcttttggtgtgtcactgtaaatgcagaacagcaaccgttattgagaccaagtctcctgtgttttttttttcttttttctctttctatcataattggcagGTTTGCAGAGGTGTGGGAAGAGCTGCAGGCTAAGATGGATTAACTACTTGAGGCCTGATTTGAAGAGGGGAGCATTCTCACAACAGGAAGAGAGCCTGAT
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---------------------------------------------------gtgagtatttgtacctcaatttc-aagttctcgtgagctcacaattcttggtggcattgtca-cagGCCTCCAAAGATGTGGGAAGAGCTGCAGGCTGAGATGGATCAACTATCTCCGGCCCGACTTGAAAAGGGGCCACTTTTCGCAACAGGAAGAAGAGTTGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaccaagtctcctgtgttttttttttcttttttctctttctatcataattggcagGTTTGCAGAGGTGTGGGAAGAGCTGCAGGCTAAGATGGATTAACTACTTGAGGCCTGATTTGAAGAGGGGAGCATTCTCACAACAGGAAGAGAGCCTGAT
tctcctgtgttttttt CT-rich tract
ttttttttttcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacccatgtatgttcatcttttggtgtgtcactgtaaatgcagaacagcaaccgttattgagaccaagtctcctgtgttttttttttcttttttctctttctatcataattggcagGTTTGCAGAGGTGTGGGAAGAGCTGCAGGCTAAGATGGATTAACTACTTGAGGCCTGATTTGAAGAGGGGAGCATTCTCACAACAGGAAGAGAGCCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA