Sequence
atgc intronic sequence ATGC exonic sequence...tagtttcttgtgtatcgaatatcaacctatgcttgaccttagtcatgatgttcatgttaaaatccagcttacctgacatatttcattacatgtcatgcagATCACTGGGCAGTCATGTCCTTTATCATTCAAGGGAAGCCCATACTGGATGGCACCTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G093316_T01 (Zea mays), 3'ss of exon 7
--tagtttcttgtgtatcgaatatcaac-ctatgcttgaccttagtcatgatgttcatgttaaaatccagcttacctgacatatttcattacatgtcatgcagATCACTGGGCAGTCATGTCCTTTATCATTCAAGGGAAGCCCATACTGGATGGCACCTGAG
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ctcccttttttctacataatataatgatgcagctctcctgcccgttcgagaaaaaaaacttgcga---ggtctaaatatctgttttgctgttttgtttcttagATCAATGGGCAGCAGTGCCCTTTCTCATTTAAGGGTAGCCCATACTGGATGGCTCCTGAG
upper sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G30030.2 (Glycine max), 3'ss of exon 7
----tagtttcttgtgtatcgaatatcaacctatgcttgaccttagtcatgatgtt-catgttaaaatccagcttacctgacatatttcattacatgtcatgcagATCACTGGGCAGTCATGTCCTTTATCATTCAAGGGAAGCCCATACTGGATGGCACCTGAG
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tccatgcataattgc-catatgatatca-catctgttttaaat-aatcataagattgcatgatcta-tcctgtttccccaa-atattaacttgcatattttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCTTATTGGATGGCTCCTGAG
upper sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G24970.2 (Glycine max), 3'ss of exon 6
tagtttcttgtgtatcga--atatcaacctatgcttgacct---tagtcatgatgtt-catgttaaaatccagcttacctgacatatttcattacatgtcatgcagATCACTGGGCAGTCATGTCCTTTATCATTCAAGGGAAGCCCATACTGGATGGCACCTGAG
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----ttcctgcataactgccatttgatattgcatctggtataaataatcgtaaggttgcatgatcta-tcctgtttccccaa-atattaatttgcatattttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCCTATTGGATGGCTCCTGAG
upper sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G37730.1 (Glycine max), 3'ss of exon 8
tagtttcttgtgtatcgaatatcaacctatgcttgaccttagtcat--gatgttcatgttaaa-atccagcttacctgacatatttcattacatgtcatgcagATCACTGGGCAGTCATGTCCTTTATCATTCAAGGGAAGCCCATACTGGATGGCACCTGAG
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--gcatctggtttattgattttctaattctaaatgatttaattaatccaaaggttgcataatttgtcctgtttgccctacttatacc-ctacataatttgcagATAACAGGGCAATCGTGTCTATTGTCATTCAAGGGAACCCCTTACTGGATGGCTCCTGAG
upper sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S10_200V6.2 (Physcomitrella patens), 3'ss of exon 8
-tagtttcttgtgtatcgaatatcaacctatgcttgaccttagtcatgatgttcatgttaaaatccagcttacctgacatatttcattacat-gtcatgcagATCACTGGGCAGTCATGTCCTTTATCATTCAAGGGAAGCCCATACTGGATGGCACCTGAG
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gtatttttccagtccttggtttttga--aatgctgcttttcgattctctcttgttagaaggtactctttgttcctcatgtatcctgagacattgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATGGCTCCTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatgttcatgttaaaatccagcttacctgacatatttcattacatgtcatgcagATCACTGGGCAGTCATGTCCTTTATCATTCAAGGGAAGCCCATACTGGATGGCACCTGAG
acctgac putative branch site (score: 3)
atatttcattacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagtttcttgtgtatcgaatatcaacctatgcttgaccttagtcatgatgttcatgttaaaatccagcttacctgacatatttcattacatgtcatgcagATCACTGGGCAGTCATGTCCTTTATCATTCAAGGGAAGCCCATACTGGATGGCACCTGAG
- - - - - - - - - - atcaacc
- - - - - - - - - - - - - - - gcttgac
- - - - - - - - - - - - - - - - - - - - -gtcatga
- - - - - - - - - - - - - - - - - - - - - - - - -gttcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaatcc