Sequence
atgc intronic sequence ATGC exonic sequencegtcaaattacaattctgtttgaatttgttatggatgctcttgtagaatactttttcccctgcttaacactaattatggttttagtaaagaaatgcagGAGATTGACGCATTTTGATGTTGACACATTTGTTGAAGAAGTGCTCGTGAAGGATGGTGAGTGGCAGCCTGTAACTCCTGAAAAACTAATTGGGTCATGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0015g00750.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G147041_T01 (Zea mays), 3'ss of exon 1
gtcaaattacaattctgtttga-atttgttatg-gatgctcttgtagaatactttttcccctgcttaacactaattatggttttagtaa-agaaatgcagGAGATTGACGCATTTTGATGTTGACACATTTGTTGAAGAAGTGCTCGTGAAGGATGGTGAGTGGCAGCCTGTAACTCCTGAAAAACTAATTGGGTCATGC
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-gtaagctgcaagcgtggtaactaataaacatgtggtatttatgcgtcaaagtaaactaatctgttaattttcaatctg--tgaaataatatttttgcagAGGGCTGACCCATTTTGACGTGGACAACTTTGTTGAAGAAGTGCTTGTGAAGGATATTGACTGGCTTCCTAGATCTCCTGAGCCTATGAGTGGTTCCTAT
upper sequence: Vv19s0015g00750.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G08380.1 (Glycine max), 3'ss of exon 2
--------gtcaaattacaattctgtttgaatttgttatggatgctcttgtagaa------tactttttcccctgcttaac-actaattatggttttagtaaagaaatgcagGAGATTGACGCATTTTGATGTTGACACATTTGTTGAAGAAGTGCTCGTGAAGGATGGTGAGTGGCAGCCTGTAACTCCTGAAAAACTAATTGGGTCATGC
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gttagtacttatagtttcaattccgtttca--cagcttctaattcccctataaaaattctccattgttttccttaattccttatcaacattagttttagtgaa--attgcagGAGATTAACCCATTTTGATGTTGAGACATTTGTTGAAGAAGTTCTAGTCAAAGAAGGAAACTGGCTTCCTGGAAACCCTGAATCATTAAAAGCGTCATAT
upper sequence: Vv19s0015g00750.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G44420.1 (Glycine max), 3'ss of exon 3
--------gtcaaattacaattctgtttgaatttgttatggatgctcttgtagaa-tactttttcccctgcttaac-----actaattatggttttagtaaagaaatgcagGAGATTGACGCATTTTGATGTTGACACATTTGTTGAAGAAGTGCTCGTGAAGGATGGTGAGTGGCAGCCTGTAACTCCTGAAAAACTAATTGGGTCATGC
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gttagtacttatagttccagttctgtttca--tagcttctaattcccctataaaagttctcctttgtttgcttaattccttattaacattagttttagtgaa--attgcagGAGATTAACCCATTTTGATGTTGAGACATTTGTTGAAGAAGTTCTAGTCAAAGAAGGAGAATGGCTTCCTGGAAATCCTGAATCATTAAAAGCTTCATAT
upper sequence: Vv19s0015g00750.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G47100.1 (Glycine max), 3'ss of exon 2
--------gtcaaattacaattctgtttgaatttgttatggatgctcttgtagaa-tactttttcccctgcttaacact-----aattat-----------ggttttagtaaagaaatgcagGAGATTGACGCATTTTGATGTTGACACATTTGTTGAAGAAGTGCTCGTGAAGGATGGTGAGTGGCAGCCTGTAACTCCTGAAAAACTAATTGGGTCATGC
| | | || | | || ||||| | |||| | | |||||| || || | || || || ||||||||| ||| ||||||||||| ||||||||||||||||| || |||||||| || || || ||||||||||| || |||| || | ||| ||||| | | || || |
gtgagagtattgatctgaaaggttctctgttattgtttcccttcttcttcttcttcttctttttttccccttttccgcttcttagatcattgtggacaacaggttttagtg--gaattgcagGAGATTAACGCATTTTGATGTTGAAACGTTTGTTGAGGAGGTTCTTGTGAAGGATGGGGAATGGCTTCCCGGAACGCCTGAGGCGTTGAGAGGTTCGTAT
upper sequence: Vv19s0015g00750.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G01640.1 (Glycine max), 3'ss of exon 2
gtcaaattacaattctgtttgaatt--tgttatggatgctcttgtagaatactttttcccctgcttaacactaattatggttttagtaaagaaatgcagGAGATTGACGCATTTTGATGTTGACACATTTGTTGAAGAAGTGCTCGTGAAGGATGGTGAGTGGCAGCCTGTAACTCCTGAAAAACTAATTGGGTCATGC
|| | | || ||| | | |||||| | | | ||| | |||| || | || | ||||||||| ||| ||||||||||| || |||||||||||||| || |||||||| || || || ||||||||||| || |||| || | ||| ||||| | | | || || |
gtgagagtattgatcttaaaggttctctgttattgtttccctttttttccacttcttagatcattgtggacaaca---ggttttagtg--gaattgcagGAGATTAACACATTTTGATGTTGAAACGTTTGTTGAGGAGGTTCTTGTGAAGGATGGGGAATGGCTTCCCGGAACGCCTGAGGCATTGAGAGGTTCGTAT
upper sequence: Vv19s0015g00750.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G26620.1 (Arabidopsis thaliana), 3'ss of exon 2
----------------gtcaaattacaattctgtttgaatttgttatggatgctcttgtagaatactttttcccctgcttaacactaattatggttttagtaaagaaatgcagGAGATTGACGCATTTTGATGTTGACACATTTGTTGAAGAAGTGCTCGTGAAGGATGGTGAGTGGCAGCCTGTAACTCCTGAAAAACTAATTGGGTCATGC
| | || | | | || ||||| | | | | | | | | | | | || ||| || || ||| | || || |||||||||||||| || |||||||| || || ||||| ||||| ||||| |||||||||||||| |||| ||||| || ||||||| || | || ||||
gtaaggggtgaagtcttcctagttggagattt-cttagatttggtttcgttttttctatcaacagttgggacttttttttgaca---gttttgatttaac--aaaaattgcagGAGATTGACTCACTTTGATGTGGAGACCTTTGTGGAAGAGGTGCTTGTGAAGGATGGTGAATGGCTGCCTGGAAATCCTGAATTGCTGAAAGGCTCATAT
upper sequence: Vv19s0015g00750.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G55900.1 (Arabidopsis thaliana), 3'ss of exon 2
gtcaaattacaattctgtttgaatttgttatggatgctcttgtagaatactttttcccctgcttaacactaattatggttttagtaaagaaatgcagGAGATTGACGCATTTTGATGTTGACACATTTGTTGAAGAAGTGCTCGTGAAGGATGGTGAGTGGCAGCCTGTAACTCCTGAAAAACTAATTGGGTCATGC
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----------------gtactactcagtta---atattgtggttgatgattcttaataaacggtaactc--attttggcaatttcaaaaaaatgcagAAGGTTGACTCATTTTGATGTGGACACATTTGTTGAGGAGGTGCTTGTGAAGGGTGTTGAGTGGTTGCCTGGAAATCCTGAATCTCTTAGTAGTTCATAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagaatactttttcccctgcttaacactaattatggttttagtaaagaaatgcagGAGATTGACGCATTTTGATGTTGACACATTTGTTGAAGAAGTGCTCGTGAAGGATGGTGAGTGGCAGCCTGTAACTCCTGAAAAACTAATTGGGTCATGC
cactaat putative branch site (score: 2)
ttttagtaaagaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcaaattacaattctgtttgaatttgttatggatgctcttgtagaatactttttcccctgcttaacactaattatggttttagtaaagaaatgcagGAGATTGACGCATTTTGATGTTGACACATTTGTTGAAGAAGTGCTCGTGAAGGATGGTGAGTGGCAGCCTGTAACTCCTGAAAAACTAATTGGGTCATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG