Sequence
atgc intronic sequence ATGC exonic sequencegtacaccactttcttgtcttccattcatacaaaaagcacataaccattcgaatcattttcaatagtaatcaccttgggatccgatgtgtggttgctaagttaaaatataagtccatgacaacaattttgtcttgtggttgttttgattgcagATGTGGATTTCAAAGGGAGAGTATGATGAGTCAGGGCCATCAATTGTTCACAGGAAATGTTTCTAATCATGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g06520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G17040.1 (Glycine max), 3'ss of exon 3
gtacaccactttcttgtcttccattcatacaaaaagcacataaccattcgaatcattttcaatagtaatcaccttgggatccgatgtgtggttgctaagttaaaatataagtccatgacaacaattttgtcttgtggttgttttgattgcagATGTGGATTTCAAAGGGAGAGTATGATGAGTCAGGGCCATCAATTGTTCACAGGAAATGTTTCTAATCATGGA---------------------------
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----------------------------------accaaaaagttgtgctaa-cactatct-tagtactgatctgatgcttt--tttctgataac--acttaaa---tgttttcctgataat--ttttttctt-------tcctgagagcagATGTGGATTGCAAAGGCAGAATATGATGAATCTGGCCCTTCAATTGTTCACAGGAAATGCTTCTAATAATGCAGAGAGTTCAGGAAATTTTAATATATAC
upper sequence: Vv08s0007g06520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G29160.1 (Glycine max), 3'ss of exon 4
gtacaccactttcttgtcttccattcatacaaaaagcacataaccattcgaatcattttcaatagtaatcaccttgggatccgatgtgtggttgctaagttaaaatataagtccatgacaacaattttgtcttgtggttgttttgattgcagATGTGGATTTCAAAGGGAGAGTATGATGAGTCAGGGCCATCAATTGTTCACAGGAAATGTTTCTAATCATGGA---------------------------
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----------------------------------accaaaaacttgtgcaaa-cactatct-tagtactgatct---gatcctattttctgataaca--cttaaatgta--ttcctgataa--attttttctt-------tcttgagagcagATGTGGATTGCAAAGGCAGAATATGATGAATCAGGCCCCTCAATCGTCCACAGGAAATGCTTCTAATGATGCAGAGAGTCCAGGAAATTTTAATATATAC
upper sequence: Vv08s0007g06520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G30110.1 (Glycine max), 3'ss of exon 4
gtacaccactttcttgtcttccattcatacaaaaagcacataaccattcgaatcattttcaatagtaatcaccttgggatccgatgtgtggttgctaagttaaaatataagtccatgacaacaattttgtcttgtggttgttttgattgcagATGTGGATTTCAAAGGGAGAGTATGATGAGTCAGGGCCATCAATTGTTCACAGGAAATGTTTCTAA-TCATGGA--------------------------
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---------------------------------------ttgggcgatagagtaagtatttgctgtattcaactcaaaa----------aattgata-gtgacagtgtatttactgaggctcctttttatgttttctttcccatg--tgtagATGTGGATTGCGAAGGCAGAGTATGATGAATCTGGACCATCAATCGTACACAGGAAATGCTTCTAAGTTATAACAATGGAGTATGAAAGATGGACCAGGG
upper sequence: Vv08s0007g06520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G32990.2 (Glycine max), 3'ss of exon 3
gtacaccactttcttgtcttccattcatacaaaaagcacataaccattcgaatcattttcaatagtaatcaccttggg-atccgatgt--gtggttgctaagttaaaatataagt-ccatgacaacaattttgtcttgtggttgttttgattgcagATGTGGATTTCAAAGGGAGAGTATGATGAGTCAGGGCCATCAATTGTTCACAGGAAATGTTTCTAA-------TCATGGA--------------------
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-----------------------------------------------------tgtgcttgatgggcgacagagtaagtacttgctgttaacgattgatg-gtaacaatgtagttactgaagctccttttttatgttttctttcccttg--tgtagATGTGGATTGCGAAGGCAGAGTATGATGAATCTGGACCATCAATCGTACACAGGAAATGCTTCTAAGTTATAATCATGGAGTGTGAAAGCTGGACCAGGG
upper sequence: Vv08s0007g06520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 3'ss of exon 5
gtacaccactttcttgtcttccattcatacaaaaagcacataaccattcgaatcattttcaatagtaatcacct-tgggatccgatgtgtggttgc-taagttaaaatataagtccatgacaacaattttgtct-tgtggttgttttgattgcagATGTGGATTTCAAAGGGAGAGTATGATGAGTCAGGGCCATCAATTGTTCACAGGAAATGTTTCTA-ATCATGGA--------------------------
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----------gtaatgtatttgactcgtgtctgagttgcat-----ttcgtgtttttttttat-gtcttcatgtctttgtttcttcaaatgctcgcgtttgtcgaggctgtaatcttt--ctggaatttaatccgtttacttgttgtggt-gcagATGTGGATTGCGAAGTCGGAGTACGATGAGTCAGGTCCATCAATTGTGCACAGGAAGTGTTTCTAGAGCAGTGCGACACATCTTTTGCTTTTTTCAGCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttaaaatataagtccatgacaacaattttgtcttgtggttgttttgattgcagATGTGGATTTCAAAGGGAGAGTATGATGAGTCAGGGCCATCAATTGTTCACAGGAAATGTTTCTAATCATGGA
ttttgat putative branch site (score: 4)
ttgtttt CT-rich tract
aaatataagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaccactttcttgtcttccattcatacaaaaagcacataaccattcgaatcattttcaatagtaatcaccttgggatccgatgtgtggttgctaagttaaaatataagtccatgacaacaattttgtcttgtggttgttttgattgcagATGTGGATTTCAAAGGGAGAGTATGATGAGTCAGGGCCATCAATTGTTCACAGGAAATGTTTCTAATCATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA