Sequence
atgc intronic sequence ATGC exonic sequence...taaaccccttttttacttctcattgtggttgtctatcatggtttgtcaatgtcctatttaaaatcataattgatgttcagattcacttcatgttttttagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 14
-taaaccccttttttacttctcattgtggttgtctat-catggtttgtcaatgtcctatt-------taaaatcataattgatgttcagattcacttcatgttttt-----------tagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG
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gtatttacacagttaacccttcatgatgatgttctttacatggttttgttacgctttgctgttgacatgaattactgaaagatgc-caaattcatcttctttgtttcctttataatatagGTCATGCTTGATTTTCAAGCAGCTGAGAGGCAAAGACTTGAGGAACCAGCTTCTGATGTTGGCTTGGAATCTCTATGTGCATTG
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G070045_T01 (Zea mays), 3'ss of exon 10
---------------------taaaccccttttttactt---ctcattgtggttgtc-tatcatggtttgtcaatgtcctattta---aaatcataatt--gatgttcagattcacttcatgttttttagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG
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gtatttatatagttaccatatgaaattacgtgactatgtgagtctactgggtttgttgtgttacgcttca-cacttttgtaatcagttaatttgttatttagatgttttattttattt-gtcatttgcagGTCATGCTTGATTTTCAAGCAGCTGAGAGGCAAAGGCTTGAGGAGCCAGCTTCTGATGTTGGTCTGGAATCTCTATGTGCATTG
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 16
------taaaccccttttttacttctcattgtggttgtctatcatggtttgtcaatgtcctatttaaaatcataattgatgttcagattcacttcatgttttttagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG
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tcactagaaatccatgaagtgctcctcatagcg-caatgtgtagtgcttactccttatatcggt-agctttgtatcctaggtt---atactatgtat-ttttacagGTGATGATTGATTTTCAAGCAGCTGAAAAGAAGAGACTAGAAGAACCAGCTTCTGAAATTGGTCTGGAACCTTTATGTGCTATG
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT1G71820.2 (Arabidopsis thaliana), 3'ss of exon 16
taaaccccttttttacttctcattgtggttgtctatcatggtttgtcaatgtcctatttaaaatcataattgatgttcagattcacttcatg---ttttttagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG
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--ccctctttcattgtgtctaacttttat-acttcttaaatttcgtaacttttgtagcattgtgcatgttctaaattttgattcatattgtgaattacttcagGTTATGATTGATTTCCAAGCAGCTGAAAAGAAGAGAGTTGATGAACCTGCATCTGATATTGGTCTGGAACCTCTATGCGCTATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatgtcctatttaaaatcataattgatgttcagattcacttcatgttttttagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG
aattgat putative branch site (score: 4)
tgtttttt putative PPT
tatttaaaatcataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaaccccttttttacttctcattgtggttgtctatcatggtttgtcaatgtcctatttaaaatcataattgatgttcagattcacttcatgttttttagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - ccccttt
- - - - - - - -cttctca
- - - - - - - - - - - - gtggttg
- - - - - - - - - - - - - - - - - - catggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacttca