Sequence
atgc intronic sequence ATGC exonic sequence...tgattctcttgcatttttatgtcactaatttgttacaggtttctgctttgtgtacagacaagttatgttgacatctctaactgctactctcccttcacagCAAGTTTCAGACTTTGATTTGTTTACCCTGGATGATATTGATTCTGCTTTCCAAAACGTGACCAGATTAACATACTCTCAAAATTATCATCTATTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g00590.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os09g39590.1 (Oryza sativa), 3'ss of exon 2
tgattctcttgcatttttatgtcactaatttgttacaggtttctgctttgtgtacagacaagttatgttgacatctctaactgctactctcccttcacagCAAGTTTCAGACTTTGATTTGTTTACCCTGGATGATATTGATTCTGCTTTCCAAAACGTGACCAGATTAACATACTCTCAAAATTATCATCTATTTG
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--------gtaagctttctagtgtccattttaac-ctcttgtttgtttcat-tgcatatagtggatctaaccattctttatt-------ttcctttgcagCAAGTTTCAGATTTTGACTTGTTTACTTTGGACGATATTGATGCTGCATTCCAAAATGTTGTTAGATTGAAGTACTCACAGAACCACCTTTTGAATG
upper sequence: Vv16s0050g00590.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G036050_T05 (Zea mays), 3'ss of exon 2
---------------------------------------------------------------tgattctcttgcatttttatgtcactaatttgttacaggtttctg--ctttg-tgtacagacaagttatgttga---catctctaactgctactctc-ccttcacagCAAGTTTCAGACTTTGATTTGTTTACCCTGGATGATATTGATTCTGCTTTCCAAAACGTGACCAGATTAACATACTCTCAAAATTATCATCTATTTG
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gtaagcgtcatggtgcttgatattttcctagggcgtacacttttcaaccactcctttaaaatgccatatagtctccttccctccctcccaatatgctaaagaaaactggacttcactttgtagtctatatttgttcagtgtacccttacctgttaatctttcttttgcagCAAGTTTCAGACTTTGACTTGTTTACTCTAGATGATGTTGATGCTGCATTCCAAAATGTTGTGAGACTGAAGTACTCACAAAATTACCTTCTGAATG
upper sequence: Vv16s0050g00590.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G23880.1 (Arabidopsis thaliana), 3'ss of exon 2
tgattctcttgcatttttatgtcactaatttgttacaggtttctgctttgtgtacagacaagttat-gttgacatctctaactgctactctccct-tcacagCAAGTTTCAGACTTTGATTTGTTTACCCTGGATGATATTGATTCTGCTTTCCAAAACGTGACCAGATTAACATACTCTCAAAATTATCATCTATTTG
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------------------------gtgagattttgttaactactggagtggttatttttgcgcaattgtctgcattgtaacacgatgatcttactgttgcagCAAGTATCCGACTTTGATCTGTTTACACTGGATGACATAGATTCTGCTTTCCAGAATGTGATCAGATTGACTTACTCTCAAAATTACCATCTTTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttgtgtacagacaagttatgttgacatctctaactgctactctcccttcacagCAAGTTTCAGACTTTGATTTGTTTACCCTGGATGATATTGATTCTGCTTTCCAAAACGTGACCAGATTAACATACTCTCAAAATTATCATCTATTTG
ctctaac putative branch site (score: 2)
ctgctactctcccttc CT-rich tract
aagttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgattctcttgcatttttatgtcactaatttgttacaggtttctgctttgtgtacagacaagttatgttgacatctctaactgctactctcccttcacagCAAGTTTCAGACTTTGATTTGTTTACCCTGGATGATATTGATTCTGCTTTCCAAAACGTGACCAGATTAACATACTCTCAAAATTATCATCTATTTG
- - -ctcttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - cagacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgctac