Sequence
atgc intronic sequence ATGC exonic sequencegtttattagcagcctcttttatttctgttcttttgaatagctataacaattgttcatttcaacattttcactatgtttttgtatacccagCATGTCCCTGCTACTGTCTGGAATCGTTTGGTGGCTGGTTTGAATGCTCAATTAAGGACAGTGAGACATGGATCCATCCGTTCTGCATTAATTCCTATTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G015291_T02 (Zea mays), 3'ss of exon 7
----------------gtttattagcagcctcttttatt-tctgttcttttgaatagctataacaattgttcatttcaacattttcactatgtttttgtatacccagCATGTCCCTGCTACTGTCTGGAATCGTTTGGTGGCTGGTTTGAATGCTCAATTAAGGACAGTGAGACATGGATCCATCCGTTCTGCATTAATTCCTATTA
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acatattccttcttgagcttgtatgatgctgatatcattatatgttctggtgttctgctaaaaaatgtgga-atgactttgattttgtcatctttttata------gTATGTATCTACTGCGATCTGGAATAGATTAGTCGCTGGTTTGAATGCTCAATTAAGGACAGTAAGACAAGGAAGTGTCCGTTCTACTTTGGGCCCTGTTG
upper sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G015291_T01 (Zea mays), 3'ss of exon 9
----------------gtttattagcagcctcttttatt-tctgttcttttgaatagctataacaattgttcatttcaacattttcactatgtttttgtatacccagCATGTCCCTGCTACTGTCTGGAATCGTTTGGTGGCTGGTTTGAATGCTCAATTAAGGACAGTGAGACATGGATCCATCCGTTCTGCATTAATTCCTATTA
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acatattccttcttgagcttgtatgatgctgatatcattatatgttctggtgttctgctaaaaaatgtgga-atgactttgattttgtcatctttttata------gTATGTATCTACTGCGATCTGGAATAGATTAGTCGCTGGTTTGAATGCTCAATTAAGGACAGTAAG-----------------------------------
upper sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA11G04290.1 (Glycine max), 3'ss of exon 17
gtttattagcagcctcttttatttctgttcttttgaatagctataacaattgttcatttc-aacattttcactatgtttttg-tatacccagCATGTCCCTGCTACTGTCTGGAATCGTTTGGTGGCTGGTTTGAATGCTCAATTAAGGACAGTGAGACATGGATCCATCCGTTCTGCATTAATTCCTATTA
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gtatcttgattcattgttaatgttgtgaagatttagtcaattatgttctctatacatagctgacatactaatcccaaacttgatatccacagCATGTCCCGGCAACTGTTTGGAATCGCTTGGTAGCTGGACTGAATGCTCAGTTAAGGACTGTAAGGCATGGATCAATTCGTACTGCACTAGGTCCTGTTG
upper sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA01G41140.1 (Glycine max), 3'ss of exon 17
gtttattagcagcctcttttatttctgttc--ttttgaatagctataacaattgttcatttc-aacattttcactatgtttttg-tatacccagCATGTCCCTGCTACTGTCTGGAATCGTTTGGTGGCTGGTTTGAATGCTCAATTAAGGACAGTGAGACATGGATCCATCCGTTCTGCATTAATTCCTATTA
|| | || | | ||| | |||| ||| ||| ||| | | ||| | |||| | | ||| ||| | ||||||||||| || ||||| |||||||| ||||| ||||| | |||||||| ||| ||||||| || |||||||| || ||| ||||| || |||| ||
gtatcttgtt--tcattgttaatgttgttaagatttagttagttatgttctctatacatagctgacatactaatcccaaacttgatatccacagCATGTCCCAGCAACTGTTTGGAATCGCTTGGTAGCTGGACTCAATGCTCAGTTACGGACAGTAAGGCATGGATCAATTCGTACTGCACTAGGTCCTGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatagctataacaattgttcatttcaacattttcactatgtttttgtatacccagCATGTCCCTGCTACTGTCTGGAATCGTTTGGTGGCTGGTTTGAATGCTCAATTAAGGACAGTGAGACATGGATCCATCCGTTCTGCATTAATTCCTATTA
ctataac putative branch site (score: 3)
tttttgt putative PPT
tatgtttttgtata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttattagcagcctcttttatttctgttcttttgaatagctataacaattgttcatttcaacattttcactatgtttttgtatacccagCATGTCCCTGCTACTGTCTGGAATCGTTTGGTGGCTGGTTTGAATGCTCAATTAAGGACAGTGAGACATGGATCCATCCGTTCTGCATTAATTCCTATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA