Sequence
atgc intronic sequence ATGC exonic sequence...gaacaaatcaacataggtttccatttatggttatgaaattgcacgttcactatcacatgtactagtgaatctttgtattaacatgtttgcatatttttagGGGGTTTGCGTTACCACGGTATGGCACCATTGATCTCACATGTTTTTGACTTGGGTTTAATGGAAGCAATTGCAATTCCACAAACAGAATGCTTAG
Basic information
species | Glycine max |
transcript | GLYMA19G05630.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G05630.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G38530.1 (Arabidopsis thaliana), 3'ss of exon 4
--------------------------------------------------------gaacaaatcaacataggtttcc--atttatggttatgaaat--tgcacgttcactatcacatgtactagtgaatctt--tgtatta-acatgtttgcatatttttagGGGGTTTGCGTTACCACGGTATGGCACCATTGATCTCACATGTTTTTGACTTGGGTTTAATGGAAGCAATTGCAATTCCACAAACAGAATGCTTAG---
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gtaataaaataagctttaaactaactatcttaaacaaaacgcttcttgattctcaatattctgttttcttgatttcttggatctttggttcttgattcttgaaacctgaatcttttatttttggcttaattttgttgtattatacgtctatggttgttggcagGTGGATTAAGGTACCATGGGATGGCACCATTGATCTCACATGTTTATGAACAAGGATTCATGGAAGCAATTTCAATTCCTCAAATTGAGTGTTTCCAAG
upper sequence: GLYMA19G05630.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0083g00460.t01 (Vitis vinifera), 3'ss of exon 4
gaacaaatcaacataggtttccatttatggttatgaaattgcacgttcactatcacatgtactagtgaatctttgtattaacatgtttgcatatttttagGGGGTTTGCGTTACCACGGTATGGCACCATTGATCTCACATGTTTTTGACTTGGGTTTAATGGAAGCAATTGCAATTCCACAAACAGAATGCTTAG---
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----------------gtaatactttgttgctataagg----agcttctatat-atgtgaagttttgcttctttctga-agaatgtcccctactttacagGCGGTTTGCGTTACCATGGTATGGCACCATTGCTTTCACATGTCTATGAACTGGGTTTCATGGAAGCAATCTCAATTCCTCAGATTGAATGCTTTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcactatcacatgtactagtgaatctttgtattaacatgtttgcatatttttagGGGGTTTGCGTTACCACGGTATGGCACCATTGATCTCACATGTTTTTGACTTGGGTTTAATGGAAGCAATTGCAATTCCACAAACAGAATGCTTAG
tattaac putative branch site (score: 1)
tattttt putative PPT
aatctttgtattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaacaaatcaacataggtttccatttatggttatgaaattgcacgttcactatcacatgtactagtgaatctttgtattaacatgtttgcatatttttagGGGGTTTGCGTTACCACGGTATGGCACCATTGATCTCACATGTTTTTGACTTGGGTTTAATGGAAGCAATTGCAATTCCACAAACAGAATGCTTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - atcaaca
- - - - - - - - - - ccattta
- - - - - - - - - - - - - - ggttatg
- - - - - - - - - - - - - - - - - - - -tgcacgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - -catgtac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttgc