Sequence
atgc intronic sequence ATGC exonic sequence...tattgttgtttgtgtttagtgagttgatgatactaattcatgttaccttgctacataatttctttccaaaatcaaactcacctatgttattcttttccagGGGATACTCCATTATGCTTTGCATAATCAATATTGGAGGTTGATAGATCCTCAAGGAAAACCAACAGGAGTAGTGGGATGGTGGCCTTCACGCGCTGTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0068g00420.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA08G26860.1 (Glycine max), 3'ss of exon 9
tattgttgtttgtgtttagtgagttg-atgatactaattcatgttaccttgctacataatttctttccaaaatcaaactcacc---tatgttattcttttccagGGGATACTCCATTATGCTTTGCATAATCAATATTGGAGGTTGATAGATCCTCAAGGAAAACCAACAGGAGTAGTGGGATGGTGGCCTTCACGCGCTGTCA
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---tggggtg-gagccagatgaataataaaatataattttatgctagaatttggtattatctttctgcattttaaagattgttctatttgttaccctttcttagGGGATACTTCATTCTGCTCTGCATAATGAATATTGGAGACTGATAGATCCTCAAGGGAAACCAACAGGAGTGATGGGATGGTGGGCTTCTCGTGCTGTTA
upper sequence: Vv14s0068g00420.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S342_20V6.1 (Physcomitrella patens), 3'ss of exon 14
------------------------------------------------------------------------------------------------tattgttgtttgtgtttagtgagttgatgatactaattcatgttaccttgctacataatttctttccaaaatcaaactcacctatgttattcttttccagGGGATACTCCATTATGCTTTGCATAATCAATATTGGAGGTTGATAGATCCTCAAGGAAAACCAACAGGAGTAGTGGGATGGTGGCCTTCACGCGCTGTCA
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gtaagtcaaatgctgctgccttgtttgactcactgtacttaatttcgtagtttttcgctaaccttttaatgtgacttgtttataatgcgcgagaatcaccgtgactcgtatcaag--ggtgcacga-actgataagagggatcata--aaaccatcctgttcagctattgcactaaactccttcat-cttttacagGGCATTTTACATTCAGCACTTCATGGTGAATTCTGGAGATTGATAGATCCTCAAGGGAAACCACCCGGAGTGATGGGCTGGTGGCCTTCTCGTGCAGTCA
upper sequence: Vv14s0068g00420.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S100_191V6.1 (Physcomitrella patens), 3'ss of exon 11
-tattgttgtttgtgtttagtgagttgatgatactaattcatgttaccttgctacataatttctttccaaaatcaaactcacctatgttattcttttccagGGGATACTCCATTATGCTTTGCATAATCAATATTGGAGGTTGATAGATCCTCAAGGAAAACCAACAGGAGTAGTGGGATGGTGGCCTTCACGCGCTGTCA
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gtatggtaagagctatcaattt--ctattgtttctaagttgcaacttccttttgccaagtttaaccttatatttctcgtcttcgattgttaattttaacagGGCATATTGCACTCAGCTCTTCATGGTGAATTCTGGAGATTAATAGATCCTCAAGGAAAACCACCTGGAGTGATGGGTTGGTGGCCTTCTCGTGCAGTTAMapped 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|110428475|gb|EC994949.1|EC994949EST: GGATCAATGCCACAGATGGTACTTCATCAGCTTTTGATGTCACAACAAAG GGGATACTCCATTATGCTTTGCATAATCAATATTGGAGGTTGATAGATCCT
genomic: GGATCAATGCCACAGATGGTACTTCATCAGCTTTTGATGTCACAACAAAGgtactttctg ... tcttttccagGGGATACTCCATTATGCTTTGCATAATCAATATTGGAGGTTGATAGATCCT
EST:
gi|110413904|gb|EC979720.1|EC979720EST: GGATCAATGCCACAGATGGTACTTCATCAGCTTTTGATGTCACAACAAAG GGGATACTCCATTATGCTTTGCATAATCAATATTGGAGGTTGATAGATCCT
genomic: GGATCAATGCCACAGATGGTACTTCATCAGCTTTTGATGTCACAACAAAGgtactttctg ... tcttttccagGGGATACTCCATTATGCTTTGCATAATCAATATTGGAGGTTGATAGATCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttgctacataatttctttccaaaatcaaactcacctatgttattcttttccagGGGATACTCCATTATGCTTTGCATAATCAATATTGGAGGTTGATAGATCCTCAAGGAAAACCAACAGGAGTAGTGGGATGGTGGCCTTCACGCGCTGTCA
aactcac putative branch site (score: 2)
tgttattcttttcc putative PPT
tacataatttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattgttgtttgtgtttagtgagttgatgatactaattcatgttaccttgctacataatttctttccaaaatcaaactcacctatgttattcttttccagGGGATACTCCATTATGCTTTGCATAATCAATATTGGAGGTTGATAGATCCTCAAGGAAAACCAACAGGAGTAGTGGGATGGTGGCCTTCACGCGCTGTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - -tcatgtt
- - - - - - - - - - - - - - - - - - - - - - accttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaactc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctatgt