Sequence
atgc intronic sequence ATGC exonic sequence...atatccttttctattttttttttcaatttttcttttataatttacaattagtaattcaccaaatacaatcaggtatactgatgtccctctatcttctcagACTCCTACACACGTTTGTTTGATAACAGACTTTTTCCCTGGTGGAGAGTTATTTGCCCTGCTTGACAAGCAACCCATGAAAATATTTAGAGAGGAATCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04210.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G032351_T01 (Zea mays), 3'ss of exon 13
atatccttttctattttttttttcaattt-ttcttttataatttacaattagtaattcacc-aaatacaat-caggtatactgatgtccctctatcttctcagACTCCTACACACGTTTGTTTGATAACAGACTTTTTCCCTGGTGGAGAGTTATTTGCCCTGCTTGACAAGCAACCCATGAAAATATTTAGAGAGGAATCTG
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-cacaattgattattgaccttcatgttttgtatttccataatttat--tttgcattttacttgaatttaacatatatgcatcactaatcattgtttttttcagACACCAACACATGTTTGTCTCATAACAGACTTTTGTCCTGGAGGAGAATTATTTGCACTACTCGATATGCAACCAATGAAACTTTTCAGAGAAGAATCTG
upper sequence: Vv03s0038g04210.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA16G19560.1 (Glycine max), 3'ss of exon 16
atatccttttctattttttttttcaattttt--cttttataatttacaattagtaattcaccaaatacaatcaggtatactgat-gtccctctatcttctcagACTCCTACACACGTTTGTTTGATAACAGACTTTTTCCCTGGTGGAGAGTTATTTGCCCTGCTTGACAAGCAACCCATGAAAATATTTAGAGAGGAATCTG
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---tgatcctcccacgtggacatgaatcgcaaattttaatgattagggctccccactgagttgcctgttagcagtttttttgatagtttctttatctcaacagACTCCTACACATGTATGTTTGATTACTGACTTCTTTCCTGGAGGAGAGTTGTTTGCATTGCTTGACAAGCAACCAATGAAGATTTTCAAAGAAGAATCAG
upper sequence: Vv03s0038g04210.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT5G58140.4 (Arabidopsis thaliana), 3'ss of exon 15
atatccttttctattttttttttcaatttttcttttataatttacaattagtaattcaccaaatacaatcaggtatactgatgtccctctatcttctcagACTCCTACACACGTTTGTTTGATAACAGACTTTTTCCCTGGTGGAGAGTTATTTGCCCTGCTTGACAAGCAACCCATGAAAATATTTAGAGAGGAATCTG
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----------gtagatgtttttctg-ttttgcttgcatcatgt--------cggtttgcccgtttcatt--gctcaattgctcttctttttcttccgcagACCTCTACGCACGTCTGTTTGATTACAGACTTCTGCCCAGGTGGAGAGTTGTTTGCACTACTTGACAGACAACCTATGAAAATATTGACAGAAGACTCTG
upper sequence: Vv03s0038g04210.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: PP1S179_27V6.3 (Physcomitrella patens), 3'ss of exon 11
---------atatcctt-ttctattttttttttcaatttttcttttataatttacaattagtaa-----ttcaccaaatacaatcaggt----atactgatgtccctctatcttct-cagACTCCTACACACGTTTGTTTGATAACAGACTTTTTCCCTGGTGGAGAGTTATTTGCCCTGCTTGACAAGCAACCCATGAAAATATTTAGAGAGGAATCTG
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gttcgaaatatgttcttgctctctatggactttcaagttcctagtgattaattgagttttgaagcaggtttgtatagattgagtgcgtttgtaatacttttgctgttttgatttgtgcagACTATGACACACGTTTGTTTGATTACGGACTTTTGTCCTGGTGGAGAGCTTTTCTTGGTGCTCGAGAGACAGCCTAAAAAGCATTTTCAAGAGGACTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattagtaattcaccaaatacaatcaggtatactgatgtccctctatcttctcagACTCCTACACACGTTTGTTTGATAACAGACTTTTTCCCTGGTGGAGAGTTATTTGCCCTGCTTGACAAGCAACCCATGAAAATATTTAGAGAGGAATCTG
tactgat putative branch site (score: 2)
tgtccctctatcttct CT-rich tract
aaatacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatccttttctattttttttttcaatttttcttttataatttacaattagtaattcaccaaatacaatcaggtatactgatgtccctctatcttctcagACTCCTACACACGTTTGTTTGATAACAGACTTTTTCCCTGGTGGAGAGTTATTTGCCCTGCTTGACAAGCAACCCATGAAAATATTTAGAGAGGAATCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tcaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acaatca