Sequence
atgc intronic sequence ATGC exonic sequence...tgctaaatcaagtgcctgaaatcctttgatgggtcgatgtgaagtatctatccactggttcttgaaatttcatcctaaatatggaatttgatctctacagGGTTTTAGAAAGATTGATCCGGACAGATGGGAGTTTGCAAATGAAGGATTCATCAGGGGTCAAAGACATCTCCTTAAGAACATCAGGAGAAGAAAGACAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0179g00150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os10g28340.3 (Oryza sativa), 3'ss of exon 2
----------tgctaaat--caagtgcctgaaatcctttgatgggtcgatgtgaagtatc-tatccactggttcttgaaatttcatcctaaatatg---gaat--ttgatctctacagGGTTTTAGAAAGATTGATCCGGACAGATGGGAGTTTGCAAATGAAGGATTCATCAGGGGTCAAAGACATCTCCTTAAGAACATCAGGAGAAGAAAGACAC
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gtcattctttcactaaaaagctacagtctaaaatc--tagagcagttatcctaatctttcacgttggcatgtgcatctggccttacaatggtgatgtttgtctcattaaaatctacagGGCTTCAGAAAGGTCGATCCTGATAGGTGGGAGTTTGCAAATGAGGGTTTTCTCAGGGGCCAAAGGCATCTCCTGAAAACGATAAAGAGAAGGAAGCCCC
upper sequence: Vv00s0179g00150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os10g28340.5 (Oryza sativa), 3'ss of exon 1
--tgcta-aatcaagtgcctgaaatcctttgatgggtcgatgtgaagtatctatccactggttcttgaaatttcatcctaaatatggaatttgatctctacagGGTTTTAGAAAGATTGATCCGGACAGATGGGAGTTTGCAAATGAAGGATTCATCAGGGGTCAAAGACATCTCCTTAAGAACATCAGGAGAAGAAAGACAC
|||| | || | || | || || | | | || | ||| ||| | | | || | ||||||||| || |||||| | ||||| || || ||||||||||||||||| || || ||||||| ||||| |||||||| || | || | |||||| ||| | |
aaagctacagtctaaaatctagagcagttatcctaatctttcacgttggcatgtgcatctggccttacaatggtgatgtttgtctca---ttaaaatctacagGGCTTCAGAAAGGTCGATCCTGATAGGTGGGAGTTTGCAAATGAGGGTTTTCTCAGGGGCCAAAGGCATCTCCTGAAAACGATAAAGAGAAGGAAGCCCC
upper sequence: Vv00s0179g00150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g06630.2 (Oryza sativa), 3'ss of exon 1
tgctaaatcaagtg-cctgaaatcctttgatgggtcgatgtgaagtatctatccactggttcttgaaatttcatcctaaatatggaatttgatctctacagGGTTTTAGAAAGATTGATCCGGACAGATGGGAGTTTGCAAATGAAGGATTCATCAGGGGTCAAAGACATCTCCTTAAGAACATCAGGAGAAGAAAGACAC
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acatactttgtgtgacttgctatcctaattgagttttgtctgtggcttctgtacttgaactaactatacct-gtaatattctttgtgtttgcaatttgcagGGTTTCAGAAAGATTGATCCTGACAGATGGGAATTCGCGAATGATGGTTTCCTGAGAGGCCAGAGGCATCTTCTAAAGATGATTAAGAGGAGGAGACCAT
upper sequence: Vv00s0179g00150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G010871_T05 (Zea mays), 3'ss of exon 2
--------------------------------------tgctaa-atcaagtgcctgaaatcctttgatgggtcgatgtgaa-gtatctatccactggttcttgaaatttcatc--ctaaatatggaat-ttgatctctacagGGTTTTAGAAAGATTGATCCGGACAGATGGGAGTTTGCAAATGAAGGATTCATCAGGGGTCAAAGACATCTCCTTAAGAACATCAGGAGAAGAAAGACAC
| || || | ||||||| || || | | | || || | ||| | | | | ||| | ||| || ||||| || |||||| ||||||| ||||| |||||||||||||||||||| ||| |||| |||||||| || || || |||| || | |||||| ||| |||
gtatattgctggcctatcattatccctgttattgcagatataaatatacaaaagctgaaatttacagagaacctcatccaagcgaacataatgccttatgactgacctgctgatgaccatttctggtctattgcaacctgcagGGCTTCAGAAAGGTTGATCCTGACAGGTGGGAGTTTGCAAATGAAGGTTTCCTCAGAGGTCAAAGGCACCTGCTGAAGATGATAAAGAGAAGGAAGCCAC
upper sequence: Vv00s0179g00150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G010871_T03 (Zea mays), 3'ss of exon 1
---tgctaaatc---aagtgcctgaaatcctttgatgggtcgatgtgaagtatctatccactggttcttgaaatttcatcctaaatatggaatttgatctctacagGGTTTTAGAAAGATTGATCCGGACAGATGGGAGTTTGCAAATGAAGGATTCATCAGGGGTCAAAGACATCTCCTTAAGAACATCAGGAGAAGAAAGACAC
| | ||| | || | | || | ||| | | | | | || |||| | ||| | | ||| || ||||| || |||||| ||||||| ||||| |||||||||||||||||||| ||| |||| |||||||| || || || |||| || | |||||| ||| |||
atatacaaaagctgaaatttacagagaacctcatccaagcgaacataa--tgccttatgactgacctgctgatgaccatttctggtcta----ttgcaacctgcagGGCTTCAGAAAGGTTGATCCTGACAGGTGGGAGTTTGCAAATGAAGGTTTCCTCAGAGGTCAAAGGCACCTGCTGAAGATGATAAAGAGAAGGAAGCCAC
upper sequence: Vv00s0179g00150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G03530.1 (Glycine max), 3'ss of exon 1
tgctaaatcaagtgcctgaaatcctttgatgggtcgatgtgaagtatctatccactggttc----ttgaaattt--catcctaaatatggaatttgatctctacagGGTTTTAGAAAGATTGATCCGGACAGATGGGAGTTTGCAAATGAAGGATTCATCAGGGGTCAAAGACATCTCCTTAAGAACATCAGGAGAAGAAAGACAC
||| | |||| | | ||| | || || | | | || |||| || | ||| ||| | | | ||| || || | |||||||||||||| |||||||| |||| |||||||||||||||||||||||||||||| || || || || | | | ||||| |||||||| ||| |||
--ataattaaagttgttta---ttattgcaattacaattccaaattattcttagcttgttcaaatttaatgttttgcatattgattgtggtgttcaattttc-cagGGTTTTAGAAAAATTGATCCAGACAAATGGGAGTTTGCAAATGAAGGATTCATCAGAGGGCACAGGCACTTGTTAAGAAACATAAGGAGAAGGAAGGCAC
upper sequence: Vv00s0179g00150.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G34210.1 (Glycine max), 3'ss of exon 1
----tgctaaatcaagtgcctgaaatcctttgatgggtcgatgtgaagtatctatccactggttcttgaaatttcatcctaaatatggaatttgatctctacagGGTTTTAGAAAGATTGATCCGGACAGATGGGAGTTTGCAAATGAAGGATTCATCAGGGGTCAAAGACATCTCCTTAAGAACATCAGGAGAAGAAAGACAC
| ||| | || | | | | || |||| | | | | | | || | | | | | || | ||| || || || | ||||||||||||| |||||||| || || |||||||||||||||||||||||| | || || || || || | | | ||| |||||||| || ||
cctgtcataattatagcaattatggttcca-atttattcagtgtgtattgagtttttatggattttgggtactaaaaaata--tgtggggttaaatttc-atagGGTTTTAGAAAAATTGATCCAGATAGGTGGGAGTTTGCAAATGAAGGATTCCTTAGAGGGCACAGGCACCAGTTGGCAAGCATAAGGAGAAGGAAACAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctatccactggttcttgaaatttcatcctaaatatggaatttgatctctacagGGTTTTAGAAAGATTGATCCGGACAGATGGGAGTTTGCAAATGAAGGATTCATCAGGGGTCAAAGACATCTCCTTAAGAACATCAGGAGAAGAAAGACAC
tctctac CT-rich tract
taaatatggaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgctaaatcaagtgcctgaaatcctttgatgggtcgatgtgaagtatctatccactggttcttgaaatttcatcctaaatatggaatttgatctctacagGGTTTTAGAAAGATTGATCCGGACAGATGGGAGTTTGCAAATGAAGGATTCATCAGGGGTCAAAGACATCTCCTTAAGAACATCAGGAGAAGAAAGACAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - aaatcaa
- - - - - - tgcctga
- - - - - - - - - - - - - tgatggg
- - - - - - - - - - - - - - - - - - - - - - - - - tccactg