Sequence
atgc intronic sequence ATGC exonic sequencegttcccctactacctgaaacatattatctccttttggcatgcatatctatgtcaagttgactttagtcatctatatccttattgcagTTGGGGATGAAGTTTGATGTAATAAGAGAAGAATCCTCAATTCTCCATGTTTTCCCTTTCAACTCAGAGAAAAAGAGAGGTGGTGTTGCAGTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: LOC_Os04g51610.3 (Oryza sativa), 3'ss of exon 19
-------------gttcccctactacctgaa--acatattatctccttttggcatgcatatctatgtcaagttgactttagtcatctatatccttattgcagTTGGGGATGAAGTTTGATGTAATAAGAGAAGAATCCTCAATTCTCCATGTTTTCCCTTTCAACTCAGAGAAAAAGAGAGGTGGTGTTGCAGTACAG---
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gtacacatacaatcctattttagtagctgaatcacagattctagattttttgtatgcct-tctgttt---ggtgaccatgctcttc-atatttcca---cagCTTGGCATGAGATTCAATGACACAAGAACAAAGTCCTCTATTCTTCATGTTTTCCCATTCAACTCAGAGAAAAAAAGAGGCGGGGTTGCAGTGCATCTG
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GRMZM2G140328_T02 (Zea mays), 3'ss of exon 19
---------gttcccctactacctgaaacatattatctccttttggcatgcatatctatgtcaagttgactttagtcatctatatccttattgcagTTGGGGATGAAGTTTGATGTAATAAGAGAAGAATCCTCAATTCTCCATGTTTTCCCTTTCAACTCAGAGAAAAAGAGAGGTGGTGTTGCAGTACAG---
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gtgcaaaaagatccttta-tagtagtcacagagatccttctataggttaatctcttgctatt--gctaatcatggtcggc-acattttta---cagCTGGGTATGAAATTCAATGAAACAAGATTGAAGTCATCTATTCTTCATGTATTTCCTTTCAACTCAGAGAAAAAGCGAGGTGGGGTTGCAGTGCACCTG
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GRMZM2G391042_T02 (Zea mays), 3'ss of exon 19
--------gttcccctactacctgaaacatattatctccttttggcatgcatatctatgtcaagttgactttagtcat--ctatatccttattgcagTTGGGGATGAAGTTTGATGTAATAAGAGAAGAATCCTCAATTCTCCATGTTTTCCCTTTCAACTCAGAGAAAAAGAGAGGTGGTGTTGCAGTACAG---
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gtgcaaaaagtccctttgtagtagtttcagcctagatccttcca-----tatgttgatctcttgctatcgctaatcgtggttgtcacatttctacagCTGGGTATGAAATTCAGTGAAACAAGATCGAAGTCATCTATTCTTCATGTATTTCCTTTCAACTCAGAGAAAAAGCGAGGCGGGGTTGCGGTGTACCTG
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA07G00630.1 (Glycine max), 3'ss of exon 21
gttcccctacta----cctgaaacatattatctccttttggcat-gcatatctatgtcaa---gttgacttt--agtc--atctatatccttattgcagTTGGGGATGAAGTTTGATGTAATAAGAGAAGAATCCTCAATTCTCCATGTTTTCCCTTTCAACTCAGAGAAAAAGAGAGGTGGTGTTGCAGTACAG---
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gtacccttgctgattttttttcttgtattatttttttttctgatcactcccctctattaatctgttgattttgaagctgaactcatttcaatatggcagTTGGGTATGGATTTTGATGTTATAAGATCAAATTCAACAGTTCTCCATGTCTTCCCCTTCAATTCTGAGAAAAAGAGAGGTGGTGTTGCTTTGAAGCTG
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA08G23760.1 (Glycine max), 3'ss of exon 21
gttcccctacta------cctgaaacatattatctccttttgg-catgcatatctatgtcaagttgacttt--agtc--atctatatccttattgcagTTGGGGATGAAGTTTGATGTAATAAGAGAAGAATCCTCAATTCTCCATGTTTTCCCTTTCAACTCAGAGAAAAAGAGAGGTGGTGTTGCAGTACAG---
|| | | | || | |||| | | || || || | | | ||||| ||| || | || || ||| ||||||||| ||||| |||||||| |||||| | | || || |||||||||| ||||| ||||| || ||||||||| ||||||||||||| | ||
gtactcttgctgattttttttttcttgtattttttttttctgatcaccccctccattaatctgttgattttgaagctgaactcatttcaatatggcagTTGGGTATGAATTTTGATGTTATAAGATCAAATTCAACAGTTCTCCATGTCTTCCCCTTCAATTCTGAGAAAAAGCGAGGTGGTGTTGCTTTGAAGCTG
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: AT3G21180.1 (Arabidopsis thaliana), 3'ss of exon 18
gttcccctactacctgaaacatattatctccttttggcatgcatatctatgtcaagttgactttagtcatctatatccttattgcagTTGGGGATGAAGTTTGATGTAATAAGAGAAGAATCCTCAATTCTCCATGTTTTCCCTTTCAACTCAGAGAAAAAGAGAGGTGGTGTTGCAGTACAG---
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--gtatcaaatgtttgtttaccctggtccatctttgacatattcttcctctgtatgagcaatatatttaaagaagttgttgttgcagTTGGGGATGAAGTTTGATACCATCAGGTCGGAGTCTGCTATCATCCATGCCTTCCCTTTCAATTCAGAGAAAAAGCGTGGTGGTGTTGCTGTGCTTCGAMapped 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|71864361|gb|DT013416.1|DT013416EST: AAATTTCTGGATCTCCTACAGAAAAGGCTATCCTTGCTTGGGCAGTCAAG TTGGGGATGAAGTTTGATGTAATAAGAGAAGAATCCTCAATTCTCCATGTT
genomic: AAATTTCTGGATCTCCTACAGAAAAGGCTATCCTTGCTTGGGCAGTCAAGgttcccctac ... cttattgcagTTGGGGATGAAGTTTGATGTAATAAGAGAAGAATCCTCAATTCTCCATGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggcatgcatatctatgtcaagttgactttagtcatctatatccttattgcagTTGGGGATGAAGTTTGATGTAATAAGAGAAGAATCCTCAATTCTCCATGTTTTCCCTTTCAACTCAGAGAAAAAGAGAGGTGGTGTTGCAGTACAG
agttgac putative branch site (score: 4)
tccttatt putative PPT
atatctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcccctactacctgaaacatattatctccttttggcatgcatatctatgtcaagttgactttagtcatctatatccttattgcagTTGGGGATGAAGTTTGATGTAATAAGAGAAGAATCCTCAATTCTCCATGTTTTCCCTTTCAACTCAGAGAAAAAGAGAGGTGGTGTTGCAGTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG