Sequence
atgc intronic sequence ATGC exonic sequence...attgacaagaatagcatggtcttagcttgactttacaggcttctatattttcctaatatttattcatctaatttgatttcacatattcacttacaaacagGCAGGAAGCTGCTGGTGCTTTGTGGAATTTGTCATTTGATGATAGAAATAGAGAAGCCATTGCAGCAGCTGGTGGTGTTGAGGCCTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0013g01430.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os10g41360.1 (Oryza sativa), 3'ss of exon 5
----attgacaagaatagcatggtcttagcttgactttacaggcttctatatt--ttcctaatatttattcatctaatttgatttcacatattc---acttacaaacagGCAGGAAGCTGCTGGTGCTTTGTGGAATTTGTCATTTGATGATAGAAATAGAGAAGCCATTGCAGCAGCTGGTGGTGTTGAGGCCTTG
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gtatacttctagctgatgtgctgttttaagttgcaacgcctgattttgccattaaattatactttatattatcctaatttaatattgtgattcctgtgcatttaattagACAAGAAGCTGCTGGTGCTCTGTGGAATCTGTCATTTGATGATAGAAACCGTGAAGGCATTGCTGCTGCGGGTGGCGTTGAAGCTTTG
upper sequence: Vv16s0013g01430.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G079031_T03 (Zea mays), 3'ss of exon 5
----------------attgacaagaat-agcatggtcttagcttgactttacaggcttctatattttcctaatattt---attcatcta-att--tgatttcacatattcacttac--aaacagGCAGGAAGCTGCTGGTGCTTTGTGGAATTTGTCATTTGATGATAGAAATAGAGAAGCCATTGCAGCAGCTGGTGGTGTTGAGGCCTTG
|||| | | | | | | | | | | || | || || | |||| || || ||||| ||| | ||| | | | | || || || || ||||||||||||||||||||||| ||||||||||||| ||||| | ||||||||||| |||| ||||| ||||| || |||
gtatacatataactgttttgatatgctccaacttccatggcgtccaagtcttaatgcctgcattcttcctgaatagttcgcatgaatctacattaataattcaaaacttctatgtatcaaattagACAAGAAGCTGCTGGTGCTTTGTGGAACCTGTCATTTGATGACAGAAACCGTGAAGCCATTGCTGCAGTGGGTGGCGTTGAAGCTTTG
upper sequence: Vv16s0013g01430.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G028796_T01 (Zea mays), 3'ss of exon 5
------at-tgacaagaatagcatggtcttagcttgac-tttacaggcttctata-------ttttcctaata-tttattca--tctaatttga--tttcacatattc-acttacaaa--cagGCAGGAAGCTGCTGGTGCTTTGTGGAATTTGTCATTTGATGATAGAAATAGAGAAGCCATTGCAGCAGCTGGTGGTGTTGAGGCCTTG
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gtatacatataactgttttgatatgctccaacttgcatgccttcagggctcaatacgagcattatccctgatagttcatacaaatctgcattaatatttcacaacttctatgtatcaaattagACAAGAAGCTGCTGGTGCTTTGTGGAACCTGTCATTTGATGACAGAAACCGTGAAGCCATTGCTGCAGTGGGTGGCGTTGAAGCTTTG
upper sequence: Vv16s0013g01430.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S13_130V6.1 (Physcomitrella patens), 3'ss of exon 5
------------attgacaagaata----gcatggtcttagcttgactttacaggcttctatattttcctaatat--ttattcatctaatttgatttcacatattcacttacaaa----cagGCAGGAAGCTGCTGGTGCTTTGTGGAATTTGTCATTTGATGATAGAAATAGAGAAGCCATTGCAGCAGCTGGTGGTGTTGAGGCCTTG
||| || | |||| | | | ||| | | | || ||| ||| || | | | | || | |||| ||| ||| || | ||| || ||||| ||||| || |||||||| |||| |||||||||||||| ||||||| ||||||||||||||||| || ||||| ||
gtacgtgtgatctctgaggcgagtgtgcggcattgaaattggttgg-tcaatgagattggataaggtccaaactcggtgacttacctgacagtattttg-gtatcggctttcacatgtgcagACAAGAAGCAGCTGGAGCACTGTGGAATCTGTCTTTTGATGATAGAAACCGAGAAGCTATTGCAGCAGCTGGTGGCGTGGAGGCACTG
upper sequence: Vv16s0013g01430.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ24586 (Selaginella moellendorffii), 3'ss of exon 5
attgacaagaatagcatggtcttagcttgactttacaggcttctatattttcctaatatttattcatctaatttgatttcacatattcacttacaaacagGCAGGAAGCTGCTGGTGCTTTGTGGAATTTGTCATTTGATGATAGAAATAGAGAAGCCATTGCAGCAGCTGGTGGTGTTGAGGCCTTG
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----------------------------------gtgaggtcgtttcgtttcaagtctatcatggatttagtttgtgtt----tcttc---------tagGCAAGAAGCTGCTGGCGCCCTGTGGAACTTGTCATTTGACGACAGAAATCGGGAGGCAATTGCTGCAGCTGGTGGTGTTGAGGCATTG
upper sequence: Vv16s0013g01430.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ24022 (Selaginella moellendorffii), 3'ss of exon 5
attgacaagaatagcatggtcttagcttgactttacaggcttctatattttcctaatatttattcatctaatttgatttcacatattcacttacaaacagGCAGGAAGCTGCTGGTGCTTTGTGGAATTTGTCATTTGATGATAGAAATAGAGAAGCCATTGCAGCAGCTGGTGGTGTTGAGGCCTTG
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----------------------------------gtgaggtcgtttcatttcaagtctatcatggatttagtttg------cgtctcttct-------agGCAAGAAGCTGCTGGCGCCCTTTGGAACTTGTCATTTGACGACAGAAATCGGGAGGCAATTGCTGCAGCTGGTGGTGTTGAGGCATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattttcctaatatttattcatctaatttgatttcacatattcacttacaaacagGCAGGAAGCTGCTGGTGCTTTGTGGAATTTGTCATTTGATGATAGAAATAGAGAAGCCATTGCAGCAGCTGGTGGTGTTGAGGCCTTG
cacttac putative branch site (score: 2)
ttcactt CT-rich tract
taatatttattcatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attgacaagaatagcatggtcttagcttgactttacaggcttctatattttcctaatatttattcatctaatttgatttcacatattcacttacaaacagGCAGGAAGCTGCTGGTGCTTTGTGGAATTTGTCATTTGATGATAGAAATAGAGAAGCCATTGCAGCAGCTGGTGGTGTTGAGGCCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - acaagaa
- - - - - - - catggtc
- - - - - - - - - - - - gcttgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tattcac