Sequence
atgc intronic sequence ATGC exonic sequence...tttgtaatgcaatatcactgcctttaaaagagatgtgaattctattacttcctagtaaccatttttacgggatattaaacacatgcaatgtcaattgtagGCTTTGAAGCTGGAAGAATTTGGGGTCACTGGATCAGATGCAGGAAATGTCTGTTATTTAAGAGATATAGCAGATGCAAATAGGCTTGTTGATGTTATGC
Basic information
species | Glycine max |
transcript | GLYMA19G14500.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G14500.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g47800.1 (Oryza sativa), 3'ss of exon 4
---------------------tttgtaatgcaatatcactgcctttaaaaga----gatgtgaattctattacttcctagt--aaccatttttacggg--atattaaacacatgcaatgtcaattgtagGCTTTGAAGCTGGAAGAATTTGGGGTCACTGGATCAGATGCAGGAAATGTCTGTTATTTAAGAGATATAGCAGATGCAAATAGGCTTGTTGATGTTATGC
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gtattgaatctatttacacttattttagcccatcttgtcttgctttcaatcactgtgaacaaaaatctagcatgttgtatttgattcattttgcctgcttatattgtatttctgta----catacgtagGCTTTGAAGCTGGAAGAGTTTGGAATCAGTGGATCAGATGCTTCGAACATATGTTATTTGCGCAATCTTGATGATGCGGATAAGTTAGTGAATGTGATGA
upper sequence: GLYMA19G14500.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G27820.1 (Arabidopsis thaliana), 3'ss of exon 4
--------tttgtaatgcaatatcactgcctttaaaagagatgtgaattctattacttcc-tagtaaccatttttacgggatattaaacacatgcaatgtcaattgtagGCTTTGAAGCTGGAAGAATTTGGGGTCACTGGATCAGATGCAGGAAATGTCTGTTATTTAAGAGATATAGCAGATGCAAATAGGCTTGTTGATGTTATGC
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cctgaaaattgccaaaggaatttgtgctattttaaaacata-gaacattaaactgctaaagttgtggccttattcttgtcacatttggctcgtgcaac--------tagGCGTTGAAGCTTGAAGAATTTGGGGTGGAAGGCTCAGATGCTGAAAATGTTTGTTACTTACGAGATCTAGCTGATGCAAATAGGCTTGCCACTGTGATTC
upper sequence: GLYMA19G14500.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0066g01100.t01 (Vitis vinifera), 3'ss of exon 4
-tttgtaatgcaatatcactgcctttaaaagagatgtgaattctattacttcctagtaaccatttttacgggatattaaacacatgcaatgtcaattgtagGCTTTGAAGCTGGAAGAATTTGGGGTCACTGGATCAGATGCAGGAAATGTCTGTTATTTAAGAGATATAGCAGATGCAAATAGGCTTGTTGATGTTATGC
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atttataaggaccaattattgaggctaattctcacctattaaagatagtgatttaattaataatttgttgactgactaatcaattgca-tcttatgtatagGCATTGCAGCTTGAAGAATTTGGAGTGGCTGGATCAGATGCTGAAAATGTGTGTTATTTACGTGACTTGGCTGATGCCACCAGGCTTGTTGATGTCATGAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|213610881|gb|DB963197.1|DB963197EST: CCGGAGAGACCATAAGTTACAAGATTCTTATTGTTGCTACCGGTGCTCGG GCTTTGAAGCTGGAAGAATTTGGGGTCACTGGATCAGATGCAGGANATGTC
genomic: CCGGAGAGACCATAAGTTACAAGATTCTTATTGTTGCTACCGGTGCTCGGgtactgaaac ... tcaattgtagGCTTTGAAGCTGGAAGAATTTGGGGTCACTGGATCAGATGCAGGAAATGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacttcctagtaaccatttttacgggatattaaacacatgcaatgtcaattgtagGCTTTGAAGCTGGAAGAATTTGGGGTCACTGGATCAGATGCAGGAAATGTCTGTTATTTAAGAGATATAGCAGATGCAAATAGGCTTGTTGATGTTATGC
tagtaac putative branch site (score: 1)
atattaaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgtaatgcaatatcactgcctttaaaagagatgtgaattctattacttcctagtaaccatttttacgggatattaaacacatgcaatgtcaattgtagGCTTTGAAGCTGGAAGAATTTGGGGTCACTGGATCAGATGCAGGAAATGTCTGTTATTTAAGAGATATAGCAGATGCAAATAGGCTTGTTGATGTTATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - -aatgcaa
- - - - - - - -cactgcc
- - - - - - - - - - - - -aaaagaga
- - - - - - - - - - - - - - - - - -tgaattc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacacat