Sequence
atgc intronic sequence ATGC exonic sequence...ttaggagacagtggaccatagtcatcctctagttattttgttaagaatatctatatgcttagatctgaaaggtggccctttatgatttgtttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGAAATATTACTATCAAACTTGGATATGCAAATGCAAAGATATACAAATGTGAAGATGAACGGTGCCCTCGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0074g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os12g41400.1 (Oryza sativa), 3'ss of exon 3
-ttaggagacag-tggaccatagtcatcctctagttattttgttaagaatatctatatgcttagatctgaaaggtggccctttatgatttgtt-tatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGAAATATTACTATCAAACTTGGATATGCAAATGCAAAGATATACAAATGTGAAGATGAACGGTGCCCTCGTC
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gttgttgaactgctcaatcgtttttagtatgtatgtacttcatatgcaatctgtttat---ttgttttatatagttctgatttcttccttgtgatttgtacagACTGTTCGCTTCAAGAATGAGCTGGAGCGTAACATCACTATAAAGCTTGGTTATGCTAATGCGAAAATCTACAAATGTGAAGACGAGAAATGCCCACGAC
upper sequence: Vv13s0074g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os12g07740.1 (Oryza sativa), 3'ss of exon 3
-ttaggagacagtggaccatagtcatcctctagttattttgttaagaatatctatatgcttagatctgaaaggtggccctttatgatttgttt---atctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGAAATATTACTATCAAACTTGGATATGCAAATGCAAAGATATACAAATGTGAAGATGAACGGTGCCCTCGTC
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gttcatgaaca-tctttcatatttagtattta--tgttcttcacatgtaattcatatatttatatttgtatagttgtcctg-atgtcttccttgtgatttgtagACCGTTCGCTTCAAGAATGAGCTGGAGCGTAACATCACTATAAAGCTTGGCTATGCTAATGCGAAAATCTACAAATGTGAAGACGAGAAATGTCCACGAC
upper sequence: Vv13s0074g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G117900_T01 (Zea mays), 3'ss of exon 3
ttaggagaca-----gtggaccatagtcatcctctagttattttgttaagaatat-ctatatgcttagatctgaaaggtggccctttatgatttgtttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGAAATATTACTATCAAACTTGGATATGCAAATGCAAAGATATACAAATGTGAAGATGAACGGTGCCCTCGTC
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---ggaactttttttttgagtcccaatcatttttcaccatgtttgtgcttggtatgttatttgttttccacaaatattttgatggctaagttttgcct---tgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGCTATGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCACGAC
upper sequence: Vv13s0074g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G107654_T01 (Zea mays), 3'ss of exon 3
-ttaggagacagtggaccatagtcatcctctagttattttgttaagaatatcta-tatgcttagatctgaaaggtggccctttatgatttgtttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGAAATATTACTATCAAACTTGGATATGCAAATGCAAAGATATACAAATGTGAAGATGAACGGTGCCCTCGTC
| | || | || | | | | ||| ||| || | || || || | | | | | |||| | | |||||||||| || || ||||||||||| || || |||||||| || || || || || |||||||| || ||||||||||| ||||| | || || || |
aactgattttttcgaccctcaatcctttttcaccatgtctgtgcttggtatataatttgttttatactaatattttggtggcttaattttggct--ttgtagACTGTTCGGTTCAAGAATGAGCTGGAACGTAACATTACTATAAAGCTGGGTTACGCTAATGCAAAAATCTACAAATGTGAGGATGACAGATGTCCGCGAC
upper sequence: Vv13s0074g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G18240.2 (Glycine max), 3'ss of exon 3
ttaggagacagtggaccatagtc-atcctctagttattttgttaagaatatctatatgcttagatctgaaaggtggccctttatgatttgtttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGAAATATTACTATCAAACTTGGATATGCAAATGCAAAGATATACAAATGTGAAGATGAACGGTGCCCTCGTC
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ttatacataagcattccatcttttattcttaatacacattttcttttagctttggatatttacactgttgacctgtgttgtttccgtgaatgt-tgtgcagACTGTGCGTTTCAAAAATGAGTTGGAGCGTAACATTACAATCAAGCTTGGCTATGCAAATGCAAAAATATACAAGTGTGAAGATGAACGATGTCCAAGGC
upper sequence: Vv13s0074g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G40750.1 (Glycine max), 3'ss of exon 3
ttaggagacagtggaccata-gtcatcctctagttattttgttaagaatatctatatgcttagatctgaaaggtggccctttatgatttgtttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGAAATATTACTATCAAACTTGGATATGCAAATGCAAAGATATACAAATGTGAAGATGAACGGTGCCCTCGTC
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ttacacgtaagcatgccatatattattcttcatacacattctccgttagccttggatatttaaactgttgacctctgttgttttcatgaatgt-tgtgcagACTGTGCGTTTCAAAAATGAGTTGGAGCGTAACATTACAATCAAGCTTGGCTATGCTAATGCAAAAATATACAAGTGTGAAGATGAACGGTGTCCAAGGC
upper sequence: Vv13s0074g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G04170.1 (Arabidopsis thaliana), 3'ss of exon 3
-----------ttaggagacagtggaccatagtcatcctctag--ttattttgttaagaatatctatatgcttagatctgaaaggtggccctttatgatttgtttatct-------acagACTGTTCGTTTTAAAAATGAGCTGGAGCGAAATATTACTATCAAACTTGGATATGCAAATGCAAAGATATACAAATGTGAAGATGAACGGTGCCCTCGTC
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gtaaaatttgattatgcggttttc-acaattgtaatcctagaggcttttctagcttgcagcgtttgatcaattggagtgggtgaagtgatttctatggtttccttatcttctctgtacagACTGTCCGTTTTAAAAATGAATTGGAGCGTAACATTACCATTAAGCTTGGATATGCAAACGCCAAGATTTACAAATGTGAGGATGAGAAATGCCCTAGAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatatctatatgcttagatctgaaaggtggccctttatgatttgtttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGAAATATTACTATCAAACTTGGATATGCAAATGCAAAGATATACAAATGTGAAGATGAACGGTGCCCTCGTC
tttgttt CT-rich tract
tttatgatttgtttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaggagacagtggaccatagtcatcctctagttattttgttaagaatatctatatgcttagatctgaaaggtggccctttatgatttgtttatctacagACTGTTCGTTTTAAAAATGAGCTGGAGCGAAATATTACTATCAAACTTGGATATGCAAATGCAAAGATATACAAATGTGAAGATGAACGGTGCCCTCGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - catcctc
- - - - - - - - - - - - - - - - - - - - - aagaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttag