Sequence
atgc intronic sequence ATGC exonic sequence...tatgtcctagatcatattgcttcagatgaccaccactccccttccccctcctcttttttattccaatgtcttaatgtatgtactggaattgttaatgcagTTTGAGATGGCTGAGGAATGCCTTTTACACGCCATGGACTTGAGTGGTTTGTTGCTCCTCTATTCTTCTTTTGGTGATGCCAATGGAATATCAAAACTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GRMZM2G141587_T02 (Zea mays), 3'ss of exon 19
--tatgtcctagatcatattgcttcagatgaccaccactccccttccccctcctcttttttattccaatgtcttaatgtatgtactggaattgttaatgcagTTTGAGATGGCTGAGGAATGCCTTTTACACGCCATGGACTTGAGTGGTTTGTTGCTCCTCTATTCTTCTTTTGGTGATGCCAATGGAATATCAAAACTTG
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ccttaggtttaacaaatagtgatccatgtaaa-actatgatgcaatcatgcaaacatttaagttgaaatcgcttact-cacttgccatacaactttctgcagCTTGAGATGGCAGAGGAGTGTCTTCTACATGCTATGGACCTCAGTGGTTTGTTGCTTTTGTATTCTTCCCTTGGGGATGCTGAAGGCATTAACAAATTGG
upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 19
tatgtcctagatcatattgcttcagatgaccaccactccccttccccctcc----tcttttttattccaatgt--cttaatgtatgtactggaattgttaatgcagTTTGAGATGGCTGAGGAATGCCTTTTACACGCCATGGACTTGAGTGGTTTGTTGCTCCTCTATTCTTCTTTTGGTGATGCCAATGGAATATCAAAACTTG
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agagtaagtaatgattctggaatgagggaacttaaatgttgattcttgttggaaatttctcttgatccattgtagctcaccatattttcc---attgtt---gcagTTAGAAATGGCTGAGGAATGTTTGAAGTATGCAATGGATTTGAGTGGCTTGTTACTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG
upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 19
---------tatg-tcctagatcatattgcttcagatgaccaccactccccttccccctcctcttttttattccaatgtcttaatgtatgtactggaattgttaatgcagTTTGAGATGGCTGAGGAATGCCTTTTACACGCCATGGACTTGAGTGGTTTGTTGCTCCTCTATTCTTCTTTTGGTGATGCCAATGGAATATCAAAACTTG
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agaataagttatgattctagaatgagggaacttaaatgttga----ttcttgttggaaacctctcttgacccgttgtagctcaccgtattttcca------ttcttgcagTTAGAAATGGCTGAGGAATGTTTGAAGTATGCAATGGATTTGAGTGGCTTGTTACTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG
upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 19
tatgtcctagatcatattgcttcagatgaccaccactccccttccccctcctcttttttattccaatgt-----cttaatgtatgtactggaattgttaatgcagTTTGAGATGGCTGAGGAATGCCTTTTACACGCCATGGACTTGAGTGGTTTGTTGCTCCTCTATTCTTCTTTTGGTGATGCCAATGGAATATCAAAACTTG
|| | || | ||| || | | | | || | | | | || || | | || || | | | | | | |||| ||||||| || ||||| || || || | ||| || ||||| |||||||| || ||||| || ||||||||||| || ||||| | ||||||||||||||||
---ttcttttat--tcttgtcacaattaataatgattctggacacacttgatgttgattggtatagggtatctcttttttatctcttcattatctgttcttgcagTTAGAAATGGCCGAAGAGTGTTTAAAACAAGCAATGGATTTGAGTGGGTTATTGCTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG
upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 8
-tatgtcctagatcatattgcttcagatgaccaccactccccttccccctcctcttttttattccaatgtcttaatgtatgtactggaattgttaatgcagTTTGAGATGGCTGAGGAATGCCTTTTACACGCCATGGACTTGAGTGGTTTGTTGCTCCTCTATTCTTCTTTTGGTGATGCCAATGGAATATCAAAACTTG
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tcttgtcgcaattaataatgattctggacacacttgatgttgattggtattgggtatctctctttttcctagcaactcactttatt-atctgttcttgcagTTAGAAATGGCTGAAGAGTGTTTAAAACACGCAACAGATTTGAGTGGGTTATTGCTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccctcctcttttttattccaatgtcttaatgtatgtactggaattgttaatgcagTTTGAGATGGCTGAGGAATGCCTTTTACACGCCATGGACTTGAGTGGTTTGTTGCTCCTCTATTCTTCTTTTGGTGATGCCAATGGAATATCAAAACTTG
tgttaat putative branch site (score: 3)
ttttttattccaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgtcctagatcatattgcttcagatgaccaccactccccttccccctcctcttttttattccaatgtcttaatgtatgtactggaattgttaatgcagTTTGAGATGGCTGAGGAATGCCTTTTACACGCCATGGACTTGAGTGGTTTGTTGCTCCTCTATTCTTCTTTTGGTGATGCCAATGGAATATCAAAACTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
tatgtcc
- - - - - - - - -tgcttca
- - - - - - - - - - - - - - - - -cactccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgtac