Sequence
atgc intronic sequence ATGC exonic sequence...tttactacgggcttagtaacttttgaccaggtccaaattgttcctcaccccaaatagttttcctgtcactactgttttacatatttttcctttggaacagGAGTGGACAGTATATATGGGAGGACCATCGCCCTCAATCAGGTGTATGGAAAGGAACAAATGGTGGAGAAGTCATTTCCTTTAGTGGTTGTGATGATGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g00990.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G035928_T01 (Zea mays), 3'ss of exon 2
tttactacgggcttagtaacttttgaccaggtcca-aattgttcctcaccccaaatagttttcctgtcactactgttttacatatttttcctttggaacagGAGTGGACAGTATATATGGGAGGACCATCGCCCTCAATCAGGTGTATGGAAAGGAACAAATGGTGGAGAAGTCATTTCCTTTAGTGGTTGTGATGATGAT
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tatccttaggtatggctgataatcatatacatctataagagattctagttatgatagacatctcttcagctaaggattcttatctatattgat-attacagGAGTGGGCAATATGTATGGGAAGATCACCGACCGCGATCTGGTGTCTGGAAAGGCACTAGTGGTGGGGAAGCTATTTCCTTTAGTGGTTGTGATGATGAT
upper sequence: Vv15s0021g00990.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G155422_T01 (Zea mays), 3'ss of exon 2
-tttactacg---ggcttagtaacttttgaccaggtccaaattgttcctcaccccaaatagttttcctgtcactactgttttacatatttttcctttggaacagGAGTGGACAGTATATATGGGAGGACCATCGCCCTCAATCAGGTGTATGGAAAGGAACAAATGGTGGAGAAGTCATTTCCTTTAGTGGTTGTGATGATGAT
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ttgtattaggtatggctcataatcatatacatctataagagattctagttatgatagacatctcttcagctaaggcc-ttttatctaaattgatatt---acagGAGTGGGCAATATGTATGGGAAGATCACCGACCACCATCTGGTGTCTGGAAAGGCACTAGTGGTGGGGAGGCTATTTCATTTAGTGGTTGTGATGATGAT
upper sequence: Vv15s0021g00990.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G45470.1 (Glycine max), 3'ss of exon 2
tttactacgggcttagtaacttttgaccaggtccaaattgttcctcaccccaaa---tagttttcctgtcactactgttttacatatttttcctttggaacagGAGTGGACAGTATATATGGGAGGACCATCGCCCTCAATCAGGTGTATGGAAAGGAACAAATGGTGGAGAAGTCATTTCCTTTAGTGGTTGTGATGATGAT
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tataaccagtctcttctaactaactaactagtcattattgactctcattataaaccctaacttaccttttattcacactttgtttatat---ctttgtaacagGAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCCGGTGTATGGAAGGGATCTAGTGGTGGAGAAGTTATCTGCTTCAGTGGATGCGACGATCAT
upper sequence: Vv15s0021g00990.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G10880.1 (Glycine max), 3'ss of exon 2
tttactacgggcttagtaactt-ttgaccag--gtccaaattgtt---cctcaccccaaa---tagttttcctgtcactactgttttacatatttttcctttggaacagGAGTGGACAGTATATATGGGAGGACCATCGCCCTCAATCAGGTGTATGGAAAGGAACAAATGGTGGAGAAGTCATTTCCTTTAGTGGTTGTGATGATGAT
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------atagactaatagactaactgacaggctgtccttattattgactctcattataaaccctaacttaccttttattcacactttgtttatat---ctatgtaacagGAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCTGGTGTATGGAAGGGATCTAGTGGTGGAGACATTATCTGCTTCAGTGGATGCGATGATCAT
upper sequence: Vv15s0021g00990.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G02170.1 (Arabidopsis thaliana), 3'ss of exon 2
tttactacgggcttagtaacttttgaccaggtccaaattgttcctcaccccaaatagttttcctgtcactactgttttacatatttttcctttggaacagGAGTGGACAGTATATATGGGAGGACCATCGCCCTCAATCAGGTGTATGGAAAGGAACAAATGGTGGAGAAGTCATTTCCTTTAGTGGTTGTGATGATGAT
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gttattagtccctcaaccgcttctaaaaggg---atgttgcttacctctctcgttatatttaacat-acatccattttt----ttttttaattgaaacagAGCTGGGCAGTATGTGTGGGAGGATCATCGGCCTAGGTCAGGTTTGTGGAAAGGAACTGCTGGTGGAGAAGCCATTTCAATTAGTGGATGTGATGATGATMapped 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|110358495|gb|EC922751.1|EC922751EST: TGCCATAGTGGCACCATTTTGGATTTACCATTCCTTTGCAGAATGAGCAG GAGTGGACAGTATATATGGGAGGACCATCGCCCTCAATCAGGTGTATGGAA
genomic: TGCCATAGTGGCACCATTTTGGATTTACCATTCCTTTGCAGAATGAGCAGgttagtttca ... tttggaacagGAGTGGACAGTATATATGGGAGGACCATCGCCCTCAATCAGGTGTATGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caccccaaatagttttcctgtcactactgttttacatatttttcctttggaacagGAGTGGACAGTATATATGGGAGGACCATCGCCCTCAATCAGGTGTATGGAAAGGAACAAATGGTGGAGAAGTCATTTCCTTTAGTGGTTGTGATGATGAT
tcctcac putative branch site (score: 2)
catatttttccttt putative PPT
tgttttacatattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttactacgggcttagtaacttttgaccaggtccaaattgttcctcaccccaaatagttttcctgtcactactgttttacatatttttcctttggaacagGAGTGGACAGTATATATGGGAGGACCATCGCCCTCAATCAGGTGTATGGAAAGGAACAAATGGTGGAGAAGTCATTTCCTTTAGTGGTTGTGATGATGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - ccaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgtca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctactgt