Sequence
atgc intronic sequence ATGC exonic sequence...taatcatgatagatgattttctctataccttctcttaaatgaacagtaaattattctatacattgaacttgtaatggtatacatgtgtgatatactgcagGAGGGCCGACCGATGAAGCGCACCAAAGCTTAAATTTGAGTATCCAGTACTGGACAAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11150.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os06g11190.1 (Oryza sativa), 3'ss of exon 11
taatcatgatagatgattttctctataccttctcttaaatgaacagtaaattattctatacattgaacttgtaa--tggtat--acatgtgtgatatactgcagGAGGGCCGACCGATGAAGCGCACCAAAGCTTAAATTTGAGTATCCAGTACTGGACAAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
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----ttgaattgctaagggaaagcagaacattaaaataaggaaatgtacttttttttaaagaaaggaaatggaaactcgtattgacattgttgcaattctttagGTGGACCTACAGATGAAGCACGTGGAGTTCTGGATCTTGGTGTTCAGTACTGGACAAGCCGAGGATGGGCATTTGTTGATGTTAACTATGGGGGAAGCAC
upper sequence: Vv18s0001g11150.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G000231_T01 (Zea mays), 3'ss of exon 9
-taatcatgatagatgattttctctataccttctcttaaatgaacagtaaattattctatacattgaacttgtaa-tggtatacatgtgtgatatactgcagGAGGGCCGACCGATGAAGCGCACCAAAGCTTAAATTTGAGTATCCAGTACTGGACAAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
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ttgattttggtccagatgcttgtcaaaagcatcacatag-tgaaaaatcttcttaacattattataagtttatagcttctttatac-cacatcattgtttagGTGGACCCACAGATGAAGCACGAGGGGTTCTGGATCTTAGTGTGCAGTACTGGACAAGCCGAGGATGGGCATTTGTTGATGTTAACTATGGGGGAAGCTC
upper sequence: Vv18s0001g11150.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA08G42730.1 (Glycine max), 3'ss of exon 11
taatcatgatagatgattttctctatacc--ttctcttaaatgaacagtaaatt-attctatacattgaacttgtaatggtatacatgtgtgatatactgcagGAGGGCCGACCGATGAAGCGCACCAAAGCTTAAATTTGAGTATCCAGTACTGGACAAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
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taattgttttggcaaactttttatgcatgggttctcttaa-tgagtaatgacttcatacaacgcacttttatattttcattattt-tgtttga-atatttcagGTGGACCAACTGCTGAAACACGTGGAATTTTAAACTTGAGCATTCAGTACTGGACTAGTCGGGGTTGGGCATTCGTTGATGTTAATTATGGTGGAAGCAC
upper sequence: Vv18s0001g11150.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA18G11480.1 (Glycine max), 3'ss of exon 11
--taatcatgatagatgattttctctataccttctcttaaatgaacagtaaattattctataca-ttgaacttgtaatggtatacatgtgtgatatactgcagGAGGGCCGACCGATGAAGCGCACCAAAGCTTAAATTTGAGTATCCAGTACTGGACAAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
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aattacttttgtcaaagttgtcatgtgtgggttctatcactctaatggcttcatgaaacatacacttctatatgtg-cattattt-tatttga-atgtttcagGTGGACCAACTCAAGAAACTCGTGGAATTTTAAATTTGAGCGTTCAGTACTGGACTAGTCGAGGTTGGGCCGTCGTTGATGTTAATTATGGTGGAAGTAC
upper sequence: Vv18s0001g11150.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT5G36210.1 (Arabidopsis thaliana), 3'ss of exon 11
-----------------------------------------------------------------------------taatcatgatagatgattttctctatacctt--ctcttaaatgaacagtaaattattctatacattgaacttgtaatggtatacatgtgtgatata---ctgcagGAGGGCCGACCGATGAAGCGCACCAAAGCTTAAATTTGAGTATCCAGTACTGGACAAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
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gtatgttaaacttacgacatcccgatttttcaaaacttaatcaaaataattcctcagtttcagtcttgttcatcttaagatcatgttttcgtttcaagtatgtactttagctgtaacataaatattgcaatcagctatgcatggcacat-cgatcatttttgttgacaatctgaatctacagGAGGACCTACTGCTGAATCACGTGGATCCTTAAATCTGAATATCCAATACTGGACAAGTCGAGGTTGGGCATTTGTTGATGTCAATTATGGTGGAAGCACMapped 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|33406811|gb|CF212438.1|CF212438EST: TAATCAAGCTAGTCAAGATGAAAAGCCTCCACTGTTATTGGAAAGCCATG GAGGGCCGACCGATGAAGCGCACCACAGCTTAAATTTGAGTATCCAGTACT
genomic: TTATCAAGCTAGTCAAGATGAAAAGCCTCCACTGTTATTGGAAAGCCATGgtatgtactc ... tatactgcagGAGGGCCGACCGATGAAGCGCACCAAAGCTTAAATTTGAGTATCCAGTACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaaattattctatacattgaacttgtaatggtatacatgtgtgatatactgcagGAGGGCCGACCGATGAAGCGCACCAAAGCTTAAATTTGAGTATCCAGTACTGGACAAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
ttattctatacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatcatgatagatgattttctctataccttctcttaaatgaacagtaaattattctatacattgaacttgtaatggtatacatgtgtgatatactgcagGAGGGCCGACCGATGAAGCGCACCAAAGCTTAAATTTGAGTATCCAGTACTGGACAAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - -ccttctc
- - - - - - - - - - - - - - - - - - aaatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgtgt