Sequence
atgc intronic sequence ATGC exonic sequence...gtacatattggtgatagatccttcaactcctgaatagattgatttgtacttattagagaaaatgtctagattgattttttttgtcttttctgatttacagCCTTGTTCGATGGGTTTCGCTACAGGTGGAAAAACATTCTTTTTGTGGGGAGGGTGTATGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G061419_T01 (Zea mays), 3'ss of exon 7
-----gtacatattggtgatagatccttcaactcctgaatagattgatttgtacttattagagaaaatgtctagattgattttttttgtcttttctgatttacagCCTTGTTCGATGGGTTTCGCTACAGGTGGAAAAACATTCTTTTTGTGGGGAGGGTGTATGATG
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tttgagtttttgctagaaatgtagttctttatgtgtatatccattg-ttcatttttactattgatcatccttgcaat----ttagtgacaataaccatactgcagCCTTGTTCGATGGGATTTGCAACTGGTGGGAAGACTTTCTTCTTGTGGGGTGGCTGTATGATG
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 6
---gtacatattggtgatagatccttcaactcctgaatagattgatttgtacttattagagaaaatgtctagattgattttttttgtcttttctgattt-acagCCTTGTTCGATGGGTTTCGCTACAGGTGGAAAAACATTCTTTTTGTGGGGAGGGTGTATGATG----
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ttcatttaggtttttcgtaaatcat--aatgtatgacaagatttagttataataatttaactcttctgctc--ctaatctttttttttttttttaatttcacagCCTTGTTCAATGGGCTTTGCTACTGGTGGAAAAACATTCTTTCTGTGGGGAGGGTGCATGATGGCAA
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G08510.1 (Glycine max), 3'ss of exon 6
gtacatattggtgatagatccttcaactcctgaatagattgatttgtacttattagagaaaatgtctagattgattttttttgtcttt--tctgatttacagCCTTGTTCGATGGGTTTCGCTACAGGTGGAAAAACATTCTTTTTGTGGGGAGGGTGTATGATG----
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ttggat-ctgatgacttctattaatggtttttgata-atatatcaatattctgatttgtacatactcaattcacttattcccatttttattttgttctacagCCTTGTTCAATGGGCTTTGCCACTGGTGGACAAACATTCTTTTTGTGGGGAGGGTGCATGATGGCAA
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 6
gtacatattggtgatagatccttcaactcctgaatagattgatttgtact-tattaga-----gaaaatgtctagattgattttttttgtcttt--tctgatttacagCCTTGTTCGATGGGTTTCGCTACAGGTGGAAAAACATTCTTTTTGTGGGGAGGGTGTATGATG----
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--------tagcgatggatctgatgacttctattaagggtttttgataatatatcaatattctgattgtacttaattcacttattcctatttttattttgttctacagCCTTGTTCAATGGGCTTTGCCACTGGTGGACAAACATTCTTTTTGTGGGGAGGGTGCATGATGGCAA
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G03760.1 (Glycine max), 3'ss of exon 7
--gtacatattggtgatagatccttcaactcctgaatagattgatttgtacttat-tagagaaaatgtctagattgattttttttgtcttttctgatttacagCCTTGTTCGATGGGTTTCGCTACAGGTGGAAAAACATTCTTTTTGTGGGGAGGGTGTATGATG----
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tcatttaggtttttcataaatcat--aatatatgacaagatttagttataatcatgtaactcttatgcacctaatcttttttttt-tctttttttttcaacagCCTTGTTCAATGGGCTTTGCTACTGGTGGAAAAACATTCTTTCTATGGGGAGGGTGCATGATGGCAA
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 7
-----gtacatattggtgatagat-ccttcaactcctgaatagattgatttgtacttattagagaaaatgtctagattgattttttttgtcttttctgatttacagCCTTGTTCGATGGGTTTCGCTACAGGTGGAAAAACATTCTTTTTGTGGGGAGGGTGTATGATG
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gtacggtagatataatcactggttacttttatcaagttgttaggttg-tttataattgtagcatatcgtaatttga--gctaatatttggcatgttcactttccagCCTTGCTCAATGGGATTTGCGACTGGTGGAAGAACATTCTTTTTGTGGGGAGGATGTATGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtacttattagagaaaatgtctagattgattttttttgtcttttctgatttacagCCTTGTTCGATGGGTTTCGCTACAGGTGGAAAAACATTCTTTTTGTGGGGAGGGTGTATGATG
ttctgat putative branch site (score: 3)
ttttttttgtcttttc CT-rich tract
tagattgatttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacatattggtgatagatccttcaactcctgaatagattgatttgtacttattagagaaaatgtctagattgattttttttgtcttttctgatttacagCCTTGTTCGATGGGTTTCGCTACAGGTGGAAAAACATTCTTTTTGTGGGGAGGGTGTATGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - tggtgat
- - - - - - - - - - - -caactcc
- - - - - - - - - - - - - - - -gaataga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - agaaaat