Sequence
atgc intronic sequence ATGC exonic sequencegtggggtacttcggtaaagcttgttaattcactacaagaatatttatttccatggaggaaatttgatgcacaatgtcgtttgtatactgacagGTTAAAGTTATATTTGATTTTCTAAAACATGGATTTCAAGAGATCAGCAGCTCCCTAGATTTGTCTTTTGAGGACGATTCTGTTGCTGATGAGAAGATTC
Basic information
species | Glycine max |
transcript | GLYMA12G28490.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G28490.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os05g01470.1 (Oryza sativa), 3'ss of exon 6
gtggggtacttcggtaaagcttgttaattcactacaagaatatttatttccatggaggaaatttgatgcacaatgtcgtttgtatactgacagGTTAAAGTTATATTTGATTTTCTAAAACATGGATTTCAAGAGATCAGCAGCTCCCTAGATTTGTCTTTTGAGGACGATTCTGTTGCTGATGAGAAGATTC
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----gttccttgtgta---ttctttagatttctaaaagca-atgtaatgaca-ggaaaaatactaattcata----------ta-actttcagGTGAAGAAAATATTTGAGTTTCTTAAAGATGGGTTCCATGAAGTCAGCAGCTCCCTGGATTTGTCTTTTGATGATGATTCTGTTGCTGACGAAAAAATAC
upper sequence: GLYMA12G28490.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0035g01920.t01 (Vitis vinifera), 3'ss of exon 7
gtggggtacttcggtaaagcttgttaattcactacaagaatatttatttcc--atgg---aggaaatttgatgcacaatgtcgtttgtatactgacagGTTAAAGTTATATTTGATTTTCTAAAACATGGATTTCAAGAGATCAGCAGCTCCCTAGATTTGTCTTTTGAGGACGATTCTGTTGCTGATGAGAAGATTC
|| | | | || || || || |||||| | |||| |||||| | | | ||| | || ||| |||||| ||| || ||||| ||||| ||| |||| || || ||||||||||| ||| ||||||| | ||||| || ||||||||||||||||| |||||||
-----gt-ttgaaattcattttcatatttacctgtggacatattttgcaactgatggggcaggaaagtatagtgataataatgga-atacactaacagGTGAAAACAATTTTTGAGTTTCTCAAAAATGGCTTCCATGAGATCAGCAGTTCCTTAGATTTATTCTTTGAAGATGATTCTGTTGCTGATGAAAAGATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatatttatttccatggaggaaatttgatgcacaatgtcgtttgtatactgacagGTTAAAGTTATATTTGATTTTCTAAAACATGGATTTCAAGAGATCAGCAGCTCCCTAGATTTGTCTTTTGAGGACGATTCTGTTGCTGATGAGAAGATTC
atttgat putative branch site (score: 5)
aaatttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggggtacttcggtaaagcttgttaattcactacaagaatatttatttccatggaggaaatttgatgcacaatgtcgtttgtatactgacagGTTAAAGTTATATTTGATTTTCTAAAACATGGATTTCAAGAGATCAGCAGCTCCCTAGATTTGTCTTTTGAGGACGATTCTGTTGCTGATGAGAAGATTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT