Sequence
atgc intronic sequence ATGC exonic sequence...atgcgctacttgttgggtatttgcatttgtatccatctatgcatttgtagtaatgggtcttgacatgtcctttttttctttttctttttcccatggaaagATAATCTAGTGGAGAATCTCTTAGGGGATTTTGAGTATGATGTTCAGGTTCCATATTTACTGTACCGAAATGCTGCCCAGGAAGTCAATGGTATTTGGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g02870.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os11g05650.1 (Oryza sativa), 3'ss of exon 3
-atgcgctact-tgttgggtatttgcatttgtatcca-tctatgcatttgtagtaatgggtcttgacatgtcctttttttctttttctttttcccatggaaagATAATCTAGTGGAGAATCTCTTAGGGGATTTTGAGTATGATGTTCAGGTTCCATATTTACTGTACCGAAATGCTGCCCAGGAAGTCAATGGTATTTGGTT
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aatctgaagttgtactttagctctgcgtatggagttactcgattcatttgctg-ggtttctcctgaaatgatcgatgttaccttcttgttttac--ttgcaagATAATCTGGTGGAGGATCTATTGAGTGATTTTGAATATGAACTTCAACCTCCGTATTTGTTGTACCGCAATGCTGCCCAAGAAGTAAATGGTATCTGGTT
upper sequence: Vv08s0007g02870.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G131120_T01 (Zea mays), 3'ss of exon 3
-----atgcgctacttgttgggtatttgcatttgtatccatctatgcatttgtagtaatgggtcttgacatgtcctttttttctttttctttttcccatggaaagATAATCTAGTGGAGAATCTCTTAGGGGATTTTGAGTATGATGTTCAGGTTCCATATTTACTGTACCGAAATGCTGCCCAGGAAGTCAATGGTATTTGGTT
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cttcttcactcttcacactgtgttgttaaactggtacatatggaggaaaactgatcattg-----tgccagattcatgaaaagcttaatagtgtcttcttgacagATAATTTGGTGGAGGATTTATTAAGCGATTTTGAATATGAACTTCAGCCACCATATTTGCTGTACCGAAATGCTTCCCAAGAAGTAAATGGTATTTGGTT
upper sequence: Vv08s0007g02870.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G348866_T02 (Zea mays), 3'ss of exon 3
------atgcgctacttgttgggtatttgcatttgtatccatctatgcatttgtagtaatgggtcttgacatgtcctttttttctttttctttttcccatggaaagATAATCTAGTGGAGAATCTCTTAGGGGATTTTGAGTATGATGTTCAGGTTCCATATTTACTGTACCGAAATGCTGCCCAGGAAGTCAATGGTATTTGGTT
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atggaactttagtacctttaagtttataatatgtgcacaaaattagatgcttcatgtggtgaatcctt-cacgaggggtccgatgatgttgttctc-----aacagATAATCTGGTGGAGGATCTCTTAAGTGATTTTGAATACGAGCTTCAACCTCCATATTTGTTGTACCGGAACGCTTCACAAGAAGTCAATGGAATTTGGTTMapped 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|161713925|gb|FC062591.1|FC062591EST: GAACTCACAACCCCGGTTCCAGTTCATTGTAATGAACAGAAGAAACACAG ATAATCTAGTGGAGAATCTCTTAGGGGATTTTGAGTATGATGTTCAGGTTC
genomic: GAACTCACAACCCCGGTTCCAGTTCATTGTAATGAACAGAAGAAACACAGgtttggattt ... ccatggaaagATAATCTAGTGGAGAATCTCTTAGGGGATTTTGAGTATGATGTTCAGGTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtagtaatgggtcttgacatgtcctttttttctttttctttttcccatggaaagATAATCTAGTGGAGAATCTCTTAGGGGATTTTGAGTATGATGTTCAGGTTCCATATTTACTGTACCGAAATGCTGCCCAGGAAGTCAATGGTATTTGGTT
tcttgac putative branch site (score: 3)
tcttgacatgtccttt CT-rich tract
tttttttctttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgcgctacttgttgggtatttgcatttgtatccatctatgcatttgtagtaatgggtcttgacatgtcctttttttctttttctttttcccatggaaagATAATCTAGTGGAGAATCTCTTAGGGGATTTTGAGTATGATGTTCAGGTTCCATATTTACTGTACCGAAATGCTGCCCAGGAAGTCAATGGTATTTGGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - tgttggg
- - - - - - - - - - - gcatttg
- - - - - - - - - - - - - - - - - - ctatgca